David Heckerman

Emeritus Researcher

Connect on LinkedIn

Papiers de Collaboration

Afficher par:

- Probabilistic Interpretations for MYCIN’s Certainty Factors
  
  David Heckerman
  
  UAI-P-1985-PG-9-20 | November 2016
  
  In Proceedings of the Workshop on Uncertainty and Probability in Artificial Intelligence, Los Angeles, CA
  
  Publication
- Impact of Pre-Adapted HIV Transmission
  
  Jonathan M. Carlson, Victor Y. Du, Nico Pfeifer, Anju Bansal, Vincent T. F. Tan, Karen Power, Chanson J. Brumme, Anat Kreimer, Charles E. DeZiel, Nicolo Fusi, Malinda Schaefer, Mark A. Brockman, Jill Gilmour, Matt A. Price, William Kilembe, Richard Haubrich, Mina John, Simon Mallal, Roger Shapiro, John Frater, P. Richard Harrigan, Thumbi Ndung'u, Susan Allen, David Heckerman, John Sidney, Todd M. Allen, Philip J.R. Goulder, Zabrina L. Brumme, Eric Hunter, Paul A. Goepfert
  
  Nature Medicine | May 2016, Vol 22: pp. 606-613
  
  Bonnie Mathieson Young Investigator Award
  
  Author's Version Publication DOI Github Projet
- Linear mixed model for heritability estimation that explicitly addresses environmental variation
  
  David Heckerman, Deepti Gurdasani, Carl Kadie, Cristina Pomilla, Tommy Carstensen, Hilary Martin, Kenneth Ekoru, Rebecca N. Nsubuga, Gerald Ssenyomo, Anatoli Kamali, Pontiano Kaleebu, Christian Widmer, Manjinder S. Sandhu
  
  Proceedings of the National Academy of Sciences | April 2016
  
  Publication Publication
- Computational and Statistical Issues in Personalized Medicine
  
  Christoph Lippert, David Heckerman
  
  XRDS: Crossroads, The ACM Magazine for Students - Computational Biology | July 2015, Vol 24(4): pp. 24-27
  
  Publication Publication
- Anti-Hepatitis C Virus T-Cell Immunity in the Context of Multiple Exposures to the Virus
  
  Katja Pfafferott, Pooja Deshpande, Elizabeth McKinnon, Shahzma Merani, Andrew Lucas, David Heckerman, Simon Mallal, Mina John, Silvana Gaudieri, Michaela Lucas
  
  June 2015
  
  Publication Publication
- ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
  
  Garbiel R. A. Margarido, David Heckerman
  
  PLoS Comput Biol | April 2015
  
  Publication Publication
- Immune screening identifies novel T cell targets encoded by anti-sense reading frames of HIV-1
  
  Christopher T. Berger, Anuska Llano, Jonathan M. Carlson, Zabrina L. Brumme, Mark A. Brockman, Samandhy Cedeno, P. Richard Harrigan, Daniel E. Kaufmann, David Heckerman, Andreas Meyerhans, Christian Brander
  
  Journal of virology | April 2015, Vol 89: pp. 4015-4019
  
  Publication Publication
- Accurate Liability Estimation Improves Power in Ascertained Case-Control Studies
  
  Omer Weissbrod, Christoph Lippert, Dan Geiger, David Heckerman
  
  Nature Methods | February 2015, Vol 12: pp. 332-334
  
  Publication Publication
- Immune screening identifies novel T cell targets encoded by anti-sense reading frames of HIV-1
  
  Christopher T. Berger, Anuska Llano, Jonathan M. Carlson, Zabrina L. Brumme, Mark A. Brockman, Samandhy Cedeno, P. Richard Harrigan, Daniel E. Kaufmann, David Heckerman, Andreas Meyerhans, Christian Brander
  
  Journal of Virology | January 2015
  
  Publication Publication
- Further Improvements to Linear Mixed Models for Genome-Wide Association Studies
  
  Christian Widmer, Christoph Lippert, Omer Weissbrod, Nicolo Fusi, Carl Kadie, Robert Davidson, Jennifer Listgarten, David Heckerman
  
  October 2014
  
  Publication Publication
- Greater power and computational efficiency for kernel-based association testing of sets of genetic variants
  
  Christoph Lippert, Jing Xiang, Danilo Horta, Christian Widmer, Carl Kadie, David Heckerman, Jennifer Listgarten
  
  Bioinformatics | September 2014, pp. btu504
  
  Publication Publication
- Addendum on the scoring of Gaussian directed acyclic graphical models
  
  Jack Kuipers, Giusi Moffa, David Heckerman
  
  Annal Statistics | August 2014, Vol 42: pp. 1689-1691
  
  Publication
- HIV Control Is Mediated in Part by CD8+ T-Cell Targeting of Specific Epitopes
  
  Florencia Pereyra, David Heckerman, Jonathan M. Carlson, Carl Kadie, Damien Z Soghoian, Daniel Karel, Ariel Goldenthal, Oliver B Davis, Charles E DeZiel, Tienho Lin, Jian Peng, Alicja Piechocka, Mary Carrington, Bruce D Walker
  
  Journal of Virology | August 2014, Vol 88(22): pp. 12937-12948
  
  Publication Publication Publication Projet
- Selection Bias at the Heterosexual HIV-1 Transmission Bottleneck
  
  Jonathan M. Carlson, Malinda Schaefer, Daniela C. Monaco, Rebecca Batorsky, Daniel T. Claiborne, Jessica Prince, Martin J. Deymier, Zachary S. Ende, Nichole R. Klatt, Charles E. DeZiel, Tien-Ho Lin, Jian Peng, Aaron M. Seese, Roger Shapiro, John Frater, Thumbi Ndung'u, Jianming Tang, Paul Goepfert, Jill Gilmour, Matt A. Price, William Kilembe, David Heckerman, Philip J. R. Goulder, Todd M. Allen, Susan Allen, Eric Hunter
  
  Science | July 2014, Vol 345(6193)
  
  Publication Publication Publication Publication Publication Projet
- Variations on Undirected Graphical Models and their Relationships
  
  David Heckerman, Chris Meek, Thomas S. Richardson
  
  Kybernetika | July 2014
  
  Publication Publication
- Eliciting cytotoxic T-lymphocyte responses from synthetic vectors containing one or two epitopes in a C57BL/6 mouse model using peptide-containing biodegradable microspheres and adjuvants
  
  R. M. Rubsamen, C. V. Herst, P. M. Lloyd, David Heckerman
  
  June 2014
  
  Publication Publication
- Literome: PubMed-scale Genomic Knowledge Base in the Cloud
  
  Hoifung Poon, Chris Quirk, Charlie DeZiel, David Heckerman
  
  Bioinformatics 2014 | May 2014
  
  Publication Publication Projet
- Quantifying the Uncertainty in Heritability
  
  Nicholas Furlotte, David Heckerman, Christoph Lippert
  
  MSR-TR-2014-161 | March 2014
  
  Publication Publication Publication
- A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control
  
  Jennifer Listgarten, Christoph Lippert, Nicolo Fusi, David Heckerman, Jonathan M. Carlson
  
  eLife | October 2013
  
  Publication
- Epigenome-wide association studies without the need for cell-type composition
  
  James Zhou, Christoph Lippert, David Heckerman, Martin Aryee, Jennifer Listgarten
  
  Nature Methods | August 2013
  
  Publication Publication
- Increased Sequence Coverage through Combined Targeting of Variant and Conserved Epitopes Correlates with Control of HIV Replication
  
  Justine Sunshine, Moon Kim, Jonathan M. Carlson, David Heckerman, Julie Czartoski, Stephen A. Migueles, Janine Maenza, M. Juliana McElrath, James I. Mullins, Nicole Frahm
  
  Journal of Virology | August 2013, Vol 88(2): pp. 1354-1365
  
  Publication Publication
- The benefits of selecting phenotype-specific variants for applications of mixed models in genomics
  
  Christoph Lippert, Gerald Quon, Eun Yong Kang, Carl Kadie, Jennifer Listgarten, David Heckerman
  
  MSR-TR-2013-138 | May 2013
  
  Publication
- Influence of HLA-C Expression Level on HIV Control
  
  Richard Apps, Ying Qi, Jonathan M. Carlson, Haoyan Chen, Xiaojiang Gao, Rasmi Thomas, Yuko Yuki, Greg Q. Del Prete, Philip Goulder, Zabrina L. Brumme, Chanson J. Brumme, Mina John, Simon Mallal, George Nelson, Ronald Bosch, David Heckerman, Judy L. Stein, Kelly A. Soderberg, M. Anthony Moody, Thomas N. Denny, Xue Zeng, Jingyuan Fang, Ashley Moffett, Jeffrey D. Lifson, James J. Goedert, Susan Buchbinder, Gregory D. Kirk, Jacques Fellay, Paul McLaren, Steven G. Deeks, Florencia Pereyra, Bruce Walker, Nelson L. Michael, Amy Weintrob, Steven Wolinsky, Wilson Liao, Mary Carrington
  
  Science | April 2013, Vol 340(6128): pp. 87-91
  
  Publication Publication Projet
- FaST-LMM-Select for addressing confounding from spatial structure and rare variants
  
  Jennifer Listgarten, Christoph Lippert, David Heckerman
  
  MSR-TR-2013-137 | April 2013
  
  Second International Enterprise Distributed Object Computing Workshop (EDOC )
  
  Publication Publication
- HIV escape mutations occur preferentially at HLA-binding sites of CD8 T-cell epitopes
  
  Corine Bronke, Coral-Ann M. Almeida, Elizabeth McKinnon, Steven G. Roberts, Niamh M. Keane, Abha Chopra, Jonathan M. Carlson, David Heckerman, Simon Mallal, Mina John
  
  AIDS, Basic Science | March 2013, Vol 27(6): pp. 899-905
  
  Publication Publication
- Causal Independence for Knowledge Acquisition and Inference
  
  David Heckerman
  
  MSR-TR-93-10 | March 2013
  
  Publication Publication
- HIV-1 p24gag Derived Conserved Element DNA Vaccine Increases the Breadth of Immune Response in Mice
  
  Viraj Kulkarni, Margherita Rosati, Antonio Valentin, Brunda Ganneru, Ashish K. Singh, Jian Yan, Morgane Rolland, Candido Alicea, Rachel Kelly Beach, Gen-Mu Zhang, Sylvie Le Gall, Kate E. Broderick, Niranjan Y. Sardesai, David Heckerman, Beatriz Mothe, Christian Brander, David B. Weiner, James I. Mullins, George N. Pavlakis, Barbara K. Felber
  
  PLoS ONE | March 2013, pp. e60245
  
  Publication Publication
- Asymptotic Model Selection for Directed Networks with Hidden Variables
  
  Dan Geiger, David Heckerman, Chris Meek
  
  MSR-TR-96-07 | February 2013
  
  Publication Publication
- An Exhaustive Epistatic SNP Association Analysis on Expanded Wellcome Trust Data
  
  Christoph Lippert, Jennifer Listgarten, Bob Davidson, Jeff Baxter, Hoifung Poon, Carl Kadie, David Heckerman
  
  Scientific Reports | January 2013, Vol 3
  
  Publication
- High-dimensional immunomonitoring models of HIV-1-specific CD8 T-cell responses accurately identify subjects achieving spontaneous viral control
  
  Zaza M. Ndhlovu, Lori B. Chibnik, Jacqueline Proudfoot, Seanna Vine, Ashley McMullen, Kevin Cesa, Filippos Porichis, R. Brad Jones, Donna Marie Alvino, Meghan G. Hart, Eleni Stampouloglou, Alicja Piechocka-Trocha, Carl Kadie, Florencia Pereyra, David Heckerman, Philip L. De Jager, Bruce D. Walker, Daniel E. Kaufmann
  
  Blood Journal | January 2013, Vol 121(5)
  
  Publication
- An Experimental Comparison of Several Clustering and Initialization Methods
  
  Marina Meila, David Heckerman
  
  MSR-TR-98-06 | January 2013
  
  Publication Publication Publication
- Frequent and Variable Cytotoxic-T-Lymphocyte Escape-Associated Fitness Costs in the Human Immunodeficiency Virus Type 1 Subtype B Gag Proteins
  
  Christian L Boutwell, Jonathan M. Carlson, Tien-Ho Lin, Aaron Seese, Karen A Power, Jian Peng, Yanhua Tang, Zabrina L Brumme, David Heckerman, Arne Schneidewind, Todd M Allen
  
  January 2013
  
  Publication Publication
- A powerful and efficient set test for genetic markers that handles confounders
  
  Jennifer Listgarten, Christoph Lippert, Carl Kadie, David Heckerman
  
  Bioinformatics | January 2013
  
  Publication
- Correlates of Protective Cellular Immunity Revealed by Analysis of Population-Level Immune Escape Pathways in HIV-1
  
  Jonathan M. Carlson, Chanson J. Brumme, Eric Martin, Jennifer Listgarten, Mark A. Brockman, Anh Q. Le, Celia K. S. Chui, Laura A. Cotton, David J. H. F. Knapp, Sharon A. Riddler, Richard Haubrich, George Nelson, Nico Pfeifer, Charles E. DeZiel, David Heckerman, Richard Apps, Mary Carrington, Simon Mallal, P. Richard Harrigan, Mina John, Zabrina L. Brumme
  
  Journal of Virololgy | December 2012, Vol 86(24): pp. 13202-13216
  
  Publication Publication Projet
- Differential Clade-Specific HLA-B*3501 Association with HIV-1 Disease Outcome Is Linked to Immunogenicity of a Single Gag Epitope
  
  Philippa C. Matthews, Madoka Koyanagi, Henrik N. Kloverpris, Mikkel Harndahl, Anette Stryhn, Tomohiro Akahoshi, Hiroyuki Gatanaga, Shinichi Oka, Claudia Juarez Molina, Humberto Valenzuela Ponce, Santiago Avila Rios, David Cole, Jonathan M. Carlson, Rebecca P. Payne, Anthony Ogwu, Alfred Bere, Thumbi Ndung'u, Kamini Gounder, Fabian Chen, Lynn Riddell, Graz Luzzi, Roger Shaprio, Christian Brander, Bruce Walker, Andrew K. sewell, Gustavo Reyes Teran, David Heckerman, Eric Hunter, Soren Buus, Masafumi Takiguchi, Philip J.R. Goulder
  
  Journal of Virololgy | December 2012, Vol 86(23): pp. 12643-12654
  
  Publication Publication
- Extraneous markers used for genetic similarity leads to loss of power in GWAS and heritability determination
  
  Christoph Lippert, Gerald Quon, Jennifer Listgarten, David Heckerman
  
  MSR-TR-2012-120 | December 2012
  
  Publication
- Significant Reductions in Gag-Protease-Mediated HIV-1 Replication Capacity during the Course of the Epidemic in Japan
  
  Shigeru Nomura, Noriaki Hosoya, Zabrina L. Brumme, Mark A. Brockman, Tadashi Kikuchi, Michiko Koga, Hitomi Nakamura, Tomohiko Koibuchi, Takeshi Fujii, Jonathan M. Carlson, David Heckerman, Ai Kawana-Tachikawa, Aikichi Iwamoto, Toshiyuki Miura
  
  Journal of Virology | November 2012, Vol 87(3): pp. 1465-1476
  
  Publication Publication
- Role of Transmitted Gag CTL Polymorphisms in Defining Replicative Capacity and Early HIV-1 Pathogenesis
  
  Jessica L. Prince, Daniel T. Claiborne, Jonathan M. Carlson, Malinda Schaefer, Tianwei Yu, Shabir Lahki, Heather A. Prentice, Ling Yue, Sundaram A. Vishwanathan, William Kilembe, Paul Geopfert, Matthew A. Price, Jill Gilmour, Joseph Mulenga, Paul Farmer, Cynthia A. Derdeyn, Jiaming Tang, David Heckerman, Richard A. Kaslow, Susan A. Allen, Eric Hunter
  
  PLoS Pathogens | November 2012, pp. e1003041
  
  Publication Publication
- Co-operative additive effects between HLA alleles in control of HIV-1
  
  Philippa C. Matthews, Jennifer Listgarten, Jonathan M. Carlson, Rebecca Payne, Kuan-Hsiang Gary Huang, John Frater, Dominique Goedhals, Dewald Steyn, Cloete van Vuuren, Paolo Paioni, Pieter Jooste, Anthony Ogwu, Roger Shapiro, Zenele Mncube, Thumbi Ndung'u, Bruce D. Walker, David Heckerman, Philip J. R. Goulder
  
  PLoS ONE | October 2012, pp. e47799
  
  Publication Publication
- Improved Learning in U.S. History and Decision Competence with Decision-Focused Curriculum
  
  David Jacobson, Andrew Parker, Chris Spetzler, Wandi Bruine de Bruin, Keith Hollenbeck, David Heckerman, Baruch Fischhoff
  
  PLoS ONE | September 2012
  
  Publication Publication
- Patterns of methylation heritability in a genome-wide analysis of four brain regions
  
  Gerald Quon, Christoph Lippert, David Heckerman, Jennifer Listgarten
  
  Nucleic Acids Research | August 2012
  
  Publication Publication
- Fine-mapping classical HLA variation associated with durable host control of HIV-1 infection in African Americans
  
  Paul J. McLaren, Stephan Ripke, Kimberly Pelak, Amy C. Weintrob, Nikolaos A. Patsopoulos, Xiaoming Jia, Rachel L. Erlich, Niall J. Lennon, Carl Kadie, David Heckerman, Namrata Gupta, David W. Haas, Steven G. Deeks, Florencia Pereyra, Bruce D. Walker, Paul I. W. de Bakker
  
  Human Molecular Genetics | June 2012, Vol 21(19): pp. 4334-4347
  
  Publication Publication Publication
- Improved linear mixed models for genome-wide association studies
  
  Jennifer Listgarten, Christoph Lippert, Carl Kadie, Robert I. Davidson, Eleazar Eskin, David Heckerman
  
  Nature Methods | May 2012, Vol 9: pp. 3–4
  
  Publication Publication
- Widespread Impact of HLA Restriction on Immune Control and Escape Pathways in HIV-1
  
  Jonathan M. Carlson, Jennifer Listgarten, Nico Pfeifer, Vincent Tan, Carl Kadie, Bruce D. Walker, Thumbi Ndung'u, Roger Shapiro, John Frater, Zabrina L. Brumme, Philip J. R. Goulder, David Heckerman
  
  Journal of Virology | May 2012, Vol 86(9): pp. 5230-5243
  
  Publication Publication Publication Github Projet
- Uncommon Pathways of Immune Escape Attenuate HIV-1 Integrase Replication Capacity
  
  Mark A. Brockman, Denis R. Chopera, Alex Olvera, Chanson J. Brumme, Jennifer Sela, Tristan J. Markle, Eric Martin, Jonathan M. Carlson, Anh Q. Le, Rachel McGovern, Peter K. Cheung, Anthony D. Kelleher, Heiko Jessen, Martin Markowitz, Eric Rosenberg, Nicole Frahm, Jorge Sanchez, Simon Mallal, Mina John, P. Richard Harrigan, David Heckerman, Christian Brander, Bruce D. Walker, Zabrina L. Brumme
  
  Journal of Virology | April 2012
  
  Publication Publication
- Learning Transcriptional Regulatory Relationships Using Sparse Graphical Models
  
  Jonathan M. Carlson, Jennifer Listgarten, Nico Pfeifer, Vincent Tan, Carl Kadie, Bruce D. Walker, Thumbi Ndung'u, Roger Shapiro, John Frater, Zabrina L. Brumme, Philip J. R. Goulder, David Heckerman
  
  February 2012
  
  Publication Publication Publication
- High-avidity, high-IFNÎ³-producing CD8 T-cell responses following immune selection during HIV-1 infection
  
  Niamh M. Keane, Stevens G. Roberts, Coral-Ann M. Almedia, Tanya Krishnan, Abha Chopra, Emma Demaine, Rebecca Laird, Monika Tschochner, Jonathan M. Carlson, Simon Mallal, David Heckerman, Ian James, Mina John
  
  Immunology and Cell Biology | February 2012, Vol 90(2): pp. 224-234
  
  Publication Publication
- CTL Responses of High Functional Avidity and Broad Variant Cross-Reactivity Are Associated with HIV Control
  
  Beatriz Mothe, Anuska Llano, Javier Ibarrondo, Jennifer Zamarreno, Mattia Schiaulini, Cristina Miranda, Marta Ruiz-Riol, Christoph T. Berger, M. Jose Herrero, Eduard Palou, Montse Plana, Morgane Rolland, Ashok Khatri, David Heckerman, Florencia Pereyra, Bruce D. Walker, David Weiner, Roger Paredes, Bonaventura Clotet, Barbara K. Felber, George N. Pavlakis, James I. Mullins, Chirstian Brander
  
  PLoS ONE | January 2012, pp. e29717
  
  Publication Publication
- HIV-specific CD4 T cell responses to different viral proteins have discordant associations with viral load and clinical outcome
  
  Srinika Ranasinghe, Michael Flanders, Sam Cutler, Damien Z. Soghoian, Musie Ghebremicahel, Isaiah Davis, Madelene Lindqvist, Florencia Pereyra, Bruce D. Walker, David Heckerman, Hendrik Streeck
  
  Journal of Virology | October 2011
  
  Publication Publication
- FaST linear mixed models for genome-wide association studies
  
  Christoph Lippert, Jennifer Listgarten, Ying Liu, Carl Kadie, Bob Davidson, David Heckerman
  
  Nature Methods | October 2011, Vol 8: pp. 833-835
  
  Publication Publication
- A Hexanucleotide Repeat Expansion in C9ORF72 Is the Cause of Chromosome 9p21-Linked ALS-FTD
  
  Alan E. Renton, Elisa Majounie, Adrian Waite, Javier Simon-Sanchez, Sara Rollinson, J. Raphael Gibbs, Jennifer C Scymick, Hannu Laaksovirta, John. C. van Swieten, Liisa Myllykangas, Hannu Kalimo, Anders Paetau, Yevgeniya Abramzon, Anne M. Remes, Alice Kaganovich, Sonja W. Scholz, Jamie Duckworth, Jinhui Ding, Daniel W. Harmer, Dena G. Hernandez, Janel O. Johnson, Kin Mok, Mina Ryten, Danyah Trabzuni, Rita J. Guerreiro, Richard W. Orrell, James Neal, Alex Murray, Justin Pearson, Iris E. Jansen, David Sondervan, Harro Seelaar, Derek Blake, Kate Young, Nicola Halliwell, Janis Bennion Callister, Greg Toulson, Anna Richardson, Alex Gerhard, Julie Snowden, David Mann, David Neary, Michael A. Nalls, Terhi Peuralinna, Lilja Jansson, Veli-Matti Isovaiita, Anna-Lotta Kaivorinne, Maarit Holtta-Vuori, Elina Ikonen, Raimo Sulkava, MIchael Benatar, Joanne Wuu, Adriano Chio, Garbiella Restagno, Giuseppe Borghero, Mario Sabatelli, The ITALSGEN Consortium, David Heckerman, Ekaterina ROgaeva, Lorne Zinman, Jeffrey D. Rothstein, MIchael Sendtner, Carsten Drepper, Evan E. Eichler, Can Alkan, Ziedulla Abdullaev, Svetlana D. Pack, Amalia Dutra, Evengenia Pak, John Hardy, Andrew SIngleton, Nigel M. Williams, Peter Heutink, Stuart Pickering-Brown, Huw R. Morris, Pentti J. Tienari, Bryan J. Traynor
  
  Neuron | September 2011, Vol 72(2): pp. 257-268
  
  Publication Publication
- Translation of HLA-HIV Associations to the Cellular Level: HIV Adapts To Inflate CD8 T Cell Responses against Nef and HLA-Adapted Variant Epitopes
  
  Coral-Ann M. Almeida, Corine Bronke, Steven G. Roberts, Elizabeth McKinnon, Niamh M. Keane, Abha Chopra, Carl Kadie, Jonathan M. Carlson, David W. Haas, Sharon A. Riddler, Richard Haubrich, David Heckerman, Simon Mallal , Mina John
  
  The Journal of Immunology | September 2011
  
  Publication
- Definition of the viral targets of protective HIV-1-specific T cell responses
  
  Beatriz Mothe, Anuska Llano, Javier Ibarrondo, Marcus Daniels, Cristina Miranda, Jennifer Zamarreno, Vanessa Bach, Rosario Zuniga, Susana Perez-Alvarez, Chirstoph T. Berger, Maria C. Puertas, Javier Martinez-Picado, Morgane Rolland, Marilu Farfan, James J. Szinger, William H. Hildebrand, Otto O. Yang, Victor Sanchez-Merino, Chanson J. Brumme, Zabrina L. Brumme, David Heckerman, Todd M. Allen, James I. Mullins, Guadalupe Gomez, Philip J. Goulder, Bruce D. Walker, Jose M. Gatell, Bonaventura Clotet, Better T. Korber, Jorge Sanchez, Chirstian Brander
  
  Journal of Translational Medicine | August 2011, Vol 9(208)
  
  Publication Publication
- HIV-1 Adaptation to NK-Cell-Mediated Immune Pressure
  
  Galit Alter, David Heckerman, Arne Schneidewind, Lena Fadda, Carl Kadie, Jonathan M. Carlson, Cesar Oniangue-Ndza, Maureen Martin, Bin Li, Salim I. Khakoo, Mary Carrington, Todd M. Allen, Marcus Altfeld
  
  Nature International weekly journal of science | August 2011, Vol 476: pp. 96-100
  
  Publication Publication Projet
- Conditional Random Fields for Fast, Large-Scale Genome-Wide Association Studies
  
  Jim Huang, Chris Meek, Carl Kadie, David Heckerman
  
  PLoS ONE | July 2011
  
  Publication
- Variable HIV Peptide Stability in Human Cytosol is Critical to Epitope Presentation and Immune Escape
  
  Estibaliz Lazaro, Carl Kadie, Pamela Stamegna, Shao Chong Zhang, Pauline Gourdain, Nicole Y. Lai, Mei Zhang, Sergio A. Martinez, David Heckerman, Sylvie Le Gall
  
  J Clin Invest | June 2011
  
  Publication Publication Publication
- Progression to AIDS in South Africa Is Associated with both Reverting and Compensatory Viral Mutations
  
  Kuan-Hsiang Gary Huang, Dominique Goedhals, Jonathan M. Carlson, Mark A. Brockman, Swati Mishra, Zabrina L. Brumme, Stephen Hickling, Christopher S.W. Tang, Toshiyuki Miura, Chris Seebregts, David Heckerman, Thumbi Ndung'u, Bruce Walker, Paul Klenerman, Dewald Steyn, Philip Goulder, Rodney Phillips, Bloemfotnein-Oxford Collaborative Group, Cloete van Vuuren, John Frater
  
  April 2011
  
  Publication Publication
- HLA-A*7401-Mediated Control of HIV Viremia Is Independent of Its Linkage Disequilibrium with HLA-B*5703
  
  Philippa C. Matthews, Emily Adland, Jennifer Listgarten, Alasdair Leslie, Nompumelelo Mkhwanazi, Jonathan M. Carlson, Mikkel Harndahl, Anette Stryhn, Rebecca P. Payne, Anthony Ogwu, Kuan-Hsiang Gary Huang, John Frater, Paolo Paioni, Henrik Kolverpris, Pieter Jooste, Dominique Goedhals, Cloete van Vuuren, Dewald Steyn, Lynn Riddell, Fabian Chen, Graz Luzzi, Thambiah Balachandran, Thumbi Ndung'u, Soren Buus, Mary Carrington, Roger Shapiro, David Heckerman, Philip J. R. Goulder
  
  The Journal of Immunology | April 2011
  
  Publication
- Increased breadth and depth of cytotoxic T lymphocytes responses against HIV-1-B Nef by inclusion of epitope variant sequences
  
  Morgane Rolland, Nicole Frahm, David C. Nickle, Nebojsa Jojic, Wenjie Deng, Todd M. Allen, Christian Brander, David Heckerman, James I. Mullins
  
  PLoS One | March 2011, Vol 28(6): pp. e17969
  
  Publication Publication
- Influence of Gag-Protease-Mediated Replication Capacity on Disease Progression in Individuals Recently Infected with HIV-1 Subtype C
  
  Jaclyn K. Wright, Vladimir Novitsky, Mark A. Brockman, Zabrina L. Brumme, Chanson J. Brumme, Jonathan M. Carlson, David Heckerman, Bingxia Wang, Elena Losina, Mopo Leshwedi, Mary van der Stok, Lungile Maphumulo, Nompumelelo Mkhwanazi, Fundisiwe Chonco, Philip J. R. Goulder, Max Essex, Bruce D. Walker, Thumbi Ndung'u
  
  February 2011
  
  Publication Publication
- Reduced Replication Capacity of NL4-3 Recombinant Viruses Encoding Reverse Transcriptase Integrase Sequences From HIV-1 Elite Controllers
  
  Zabrina L. Brumme, Chun Li, Toshiyuki Miura, Jennifer Sela, Pamela C. Rosato, Chanson J. Brumme, Tristan J. Markle, Eric Martin, Brian L. Block, Alicja Trocha, Carl Kadie, Todd M. Allen, Florencia Pereyra, David Heckerman, Bruce D. Walker, Mark A. Brockman
  
  J Acquir Immune Defic Syndr. | February 2011
  
  Publication Publication
- The Major Genetic Determinants of HIV-1 Control Affect HLA Class I Peptide Presentation
  
  David Heckerman
  
  Science The International HIV Controllers Study | December 2010, Vol 330(6010): pp. 1551-1557
  
  Publication Publication
- The hypervariable HIV-1 capsid protein residues comprise HLA-driven CD8+ T-cell escape mutations and covarying HLA-independent polymorphisms
  
  Hayley Crawford, Philippa C. Matthews, Malinda Schaefer, Jonathan M. Carlson, Alasdair Leslie, William Kilembe, Susan Allen, Thumbi Ndung'u, David Heckerman, Eric Hunter, Philip J. R. Goulder
  
  Journal of Virology | November 2010
  
  Publication Publication
- Early Selection in Gag by Protective HLA Alleles Contributes to Reduced HIV-1 Replication Capacity That May Be Largely Compensated for in Chronic Infection
  
  Mark A Brockman, Zabrina L Brumme, Chanson J Brumme, Toshiyuki Miura, Jennifer Sela, Pamela C Rosato, Carl Kadie, Jonathan M. Carlson, Tristan J Markle, Hendrik Streeck, Anthony D Kelleher, Martin Markowitz, Heiko Jessen, Eric Rosenberg, Marcus Altfeld, P Richard Harrigan, David Heckerman, Bruce D Walker, Todd M Allen
  
  Journal of Virology | November 2010, Vol 84(22): pp. 11937-11949
  
  Publication Publication
- Chromosome 9p21 in Amyotrophic Lateral Sclerosis in Finland: A Genome-Wide Association Study
  
  Hannu Laaksovirta, Terhi Peuralinna, Jennifer C. Schymick, Sonja W. Scholz, Shaoi-Lin Lai, Liisa Myllykangas, Raimo Sulkava, Lilja Jansson, Dena G. Hernandez, J. Raphael Gibbs, Michael A. Nalls, David Heckerman, Pentti J. Tienari, Bryan J. Traynor
  
  The Lancet Neurology | October 2010, pp. 978-985
  
  Publication
- Gag-Protease-Mediated Replication Capacity in HIV-1 1 Subtype C Chronic Infection: Associations with HLA Type and Clinical Parameters
  
  Jaclyn K. Wright, Zabrina L. Brumme, Jonathan M. Carlson, David Heckerman, Carl Kadie, Chanson J. Brumme, Bingxia Wang, Elena Losina, Toshiyuki Miura, Fundisiwe Chonco, Mary van der Stok, Zenele Mncube, Karen Bishop, Philip J.R. Goulder , Bruce D. Walker, Mark A. Brockman, Thumbi Ndung'u
  
  Journal of Virology | October 2010
  
  Publication Publication Publication
- Amino-Acid Co-Variation in HIV-1 Gag Subtype C: HLA-Mediated Selection Pressure and Compensatory Dynamics
  
  Morgane Rolland, Jonathan M. Carlson, Siriphan Manocheewa, J. Victor Swain, Erinn Lanxon-Cookson, Wenjie Deng, Christine M. Rousseau, Dana N. Raugi, Gerald H. Learn, Brandon S. Maust, Hoosen Coovadia, Thumbi Ndung'u, Philip J. R. Goulder, Bruce D. Walker, Christian Brander, David Heckerman, James I. Mullins
  
  PLoS ONE | September 2010, pp. e12463
  
  Publication Publication
- Correction for Hidden Confounders in the Genetic Analysis of Gene Expression
  
  Jennifer Listgarten, Carl Kadie, Eric E. Schadt, David Heckerman
  
  September 2010
  
  Publication Publication
- Pearl Causality and the Value of Control
  
  Ross Shachter, David Heckerman
  
  Heuristics, Probability and Causality: A Tribute to Judea Pearl | May 2010
  
  Publication
- Adaptive Interactions between HLA and HIV-1: Highly Divergent Selection Imposed by HLA Class I Molecules with Common Supertype Motifs
  
  Mina John, David Heckerman, Ian James, Lawrence P. Park, Jonathan M. Carlson, Abha Chopra, Silvana Gaudieri, David Nolan, David W. Haas, Sharon A. Riddler, Richard Haubrich, Simon Mallal
  
  The Journal of Immunology | March 2010, Vol 184(8): pp. 4368-4377
  
  Publication
- Beyond Atopy: Multiple Patterns of Sensitization in Relation to Asthma in a Birth Cohort Study
  
  Angela Simpson, Vincent Y. Tan, John Winn, Markus Svensén, Christopher Bishop, David Heckerman, Iain Buchan, Adnan Custovic
  
  American Journal of Respiratory and Critical Care Medicine | February 2010, Vol 181: pp. 1200-1206
  
  Publication Publication Projet
- Additive Contribution of HLA Class I Alleles in the Immune Control of HIV-1 Infection
  
  Alasdair Leslie, Philippa C. Matthews, Jennifer Listgarten, Jonathan M. Carlson, Carl Kadie, Thumbi Ndung'u, Christian Brander, Hoosen Coovadia, Bruce D. Walker, David Heckerman, Philip J. R. Goulder
  
  Journal of Virology | February 2010, Vol 84(19): pp. 9879-9888
  
  Publication Publication
- CD8 T Cell Response and Evolutionary Pressure to HIV-1 Cryptic Epitopes Derived from Antisense Transcription
  
  Anju Bansal, Jonathan M. Carlson, Jiyu Yan, Olusimidele T. Akinsiku, Malinda Schaefer, Steffanie Sabbaj, Anne Bet, David N. Levy, Sonya Heath, Jianming Tang, Richard A Kaslow, Bruce D. Walker, Thumbi Ndung'u, Philip J. Goulder, David Heckerman, Eric Hunter, Paul A. Goepfert
  
  The Journal of Experimental Medicine | January 2010, Vol 207(1): pp. 51
  
  Publication Publication Projet
- Viral adaptation to immune selection pressure by HLA class I-restricted CTL responses targeting epitopes in HIV frameshift sequences
  
  Christopher T. Berger, Jonathan M. Carlson, Chanson J. Brumme, Kari L. Hartman, Zabrina L. Brumme, Leah M. Henry, Pamela C. Rosato, Alicja Piechocka-Trocha, Mark A. Brockman, P. Richard Harrigan, David Heckerman, Daniel E. Kaufmann, Christian Brander
  
  JEM | January 2010
  
  Publication Publication Projet
- Changes in impact of HLA class I allele expression on HIV-1 plasma virus loads at a population level over time
  
  Michiko Koga, Ai Kawana-Tachikawa, David Heckerman, Takashi Odawara, Hitomi Nakamura, Tomohiko Koibuchi, Takeshi Fujii, Toshiyuki Miura, Aikichi Iwamoto
  
  Microbiology and Immunology | January 2010, Vol 54(4): pp. 196-205
  
  Publication Publication
- PhyloDet: A Scalable Visualization Tool for Mapping Multiple Traits to Large Evolutionary Trees
  
  Bongshin Lee, Lev Nachmanson, George Robertson, Jonathan M. Carlson, David Heckerman
  
  Bioinformatics | October 2009, Vol 25(19): pp. 2611-2612
  
  Publication Publication
- HLA-Associated Immune Escape Pathways in HIV-1 Subtype B Gag, Pol and Nef Proteins
  
  Zabrina L. Brumme, Mina John, Jonathan M. Carlson, Chanson J. Brumme, Dennison Chan, Mark A. Brockman, Luke C. Swenson, Iris Tao, Sharon Szeto, Pamela Rosato, Jennifer Sela, Carl Kadie, Nicole Frahm, Christian Brander, David W. Haas, Sharon Riddler, Richard Haubrich, Bruce D. Walker, P. Richard Harrigan, David Heckerman, Simon Mallal
  
  August 2009
  
  Publication
- Unique Features of HLA-mediated HIV Evolution in a Mexican Cohort: A Comparative Study
  
  Santiago Avila-Rios, Christopher E. Ormsby, Jonathan M. Carlson, Humberto Valenzuela-Ponce, Juan Blanco-Heredia, Daniela Garrido-Rodriguez, Claudia Garcia-Morales, David Heckerman, Zabrina L. Brumme, Simon Mallal, Mina John, Enrique Espinosa, Gustavo Reyes-Teran
  
  Retrovirology | August 2009
  
  Publication Publication
- HLA-specific polymorphisms in HIV-1 Gag and their association with viral load in chronic untreated infection
  
  Zabrina L. Brumme, Iris Tao, Sharon Szeto, Chanson J. Brumme, Jonathan M. Carlson, Dennison Chan, Carl Kadie, Nicole Frahm, Christian Brander, Bruce Walker, David Heckerman, P. Richard Harrigan
  
  July 2009
  
  Publication
- Update on the Pathfinder Project
  
  David Heckerman, Eric Horvitz, Bharat Nathwani
  
  Proceedings of the Thirteenth Symposium on Computer Applications in Medical Care | May 2009
  
  Publication
- Problem Formulation as the Reduction of a Decision Model
  
  David Heckerman, Eric Horvitz
  
  UAI-P-1990-PG-82-89 | May 2009
  
  SRC Technical Note 1998-004 (March 1998). Rejected by Information Processing Letters.
  
  Publication Publication
- Estimating false discovery rates for contingency tables
  
  Jonathan M. Carlson, David Heckerman, Guy Shani
  
  MSR-TR-2009-53 | May 2009
  
  Publication
- Adaptation of HIV-1 to Human Leukocyte Antigen Class I
  
  Yuka Kawashima, Katja Pfafferott, John Frater, Philippa Matthews, Rebecca Payne, Marylyn Addo, Hiroyuki Gatanaga, Mamoru Fujiwara, Atsuko Hachiya, Hirokazu Koizumi, Nozomi Kuse, Shinichi Oka, Anna Duda, Andrew Pendergast, Hayley Crawford, Alasdair Leslie, Zabrina Brumme, Chanson Brumme, Todd Allen, Christian Brander, Richard Kaslow, James Tang, Eric Hunter, Susan Allen, Joseph Mulenga, Songee Branch, Tim Roach, Mina John, Simon Mallal, Anthony Ogwu, Roger Shapiro, Julia G. Prado, Sarah Fidler, Jonathan Weber, Oliver G. Pybus, Paul Klenerman, Thumbi Ndung'u, Rodney Phillips, David Heckerman, P. Richard Harrigan, Bruce D. Walker, Masafumi Takiguchi, Philip Goulder
  
  Nature | April 2009, Vol 458: pp. 641-645
  
  Publication Publication
- Rare HLA Drive Additional HIV Evolution Compared to More Frequent Alleles
  
  Christine M. Rousseau, David W. Lockhart, Jennifer Listgarten, Carl Kadie, Gerald H. Learn, David C. Nickle, David Heckerman, Wenjie Deng, Christian Brander, Thumbi Ndung'u, Hoosen Coovadia, Philip J. R. Goulder, Bette T. Korber, Bruce D. Walker, James I. Mullins
  
  AIDS Research and Human Retroviruses | March 2009
  
  Publication Publication
- HLA-Associated Alterations in Replication Capacity of Chimeric NL4-3 Viruses Carrying gag-protease from Elite Controllers of Human Immunodeficiency Virus Type 1
  
  Toshiyuki Miura, Mark A. Brockman, Zabrina L. Brumme, Chanson J. Brumme, Florencia Pereyra, Alicja Trocha, Brian L. Block, Arne Schneidewind, Todd M. Allen, David Heckerman, Bruce D. Walker
  
  Journal of Virology | January 2009, Vol 83(1): pp. 140-149
  
  Publication Publication
- HLA footprints on HIV-1 are associated with inter-clade polymorphisms and intra-clade phylogenetic clustering
  
  Philippa C Matthews, Alasdair J Leslie, Aris Katzourakis, Hayley Crawford, Rebecca Payne, Andrew Prendergast, Karen Power, Anthony D Kelleher, Paul Klenerman, Jonathan M. Carlson, David Heckerman, Thumbi Ndung'u, Bruce D Walker, Todd M Allen, Oliver G Pybus, Philip J R Goulder
  
  Journal of Virology | January 2009, pp. JVI.02017-08
  
  Publication
- Protective HLA class I Alleles That Restrict Acute-Phase CD8+ T-Cell Responses Are Associated with Viral Escape Mutations Located in Highly Conserved Regions of Human Immunodeficiency Virus Type 1
  
  Yaoyu E. Wang, Bin Li, Jonathan M. Carlson, Hendrik Streeck, Adrianne D. Gladden, Robert Goodman, Arne Schneidewind, Karen A. Power, Ildiko Toth, Nicole Frahm, Galit Alter, Christian Brander, Mary Carrington, Bruce D. Walker, Marcus Altfeld, David Heckerman, Todd M. Allen
  
  Journal of Virology | January 2009, Vol 83(4): pp. 1845-1855
  
  Publication Publication
- Design, Expression, and Processing of Epitomized Hepatitis C Virus-Encoded CTL Epitopes
  
  Daniel Yerly, David Heckerman, Todd Allen, Todd J. Suscovich, Nebojsa Jojic, Carl Kadie, Werner J. Pichler, Andreas Cerny, Christian Brander
  
  The Journal of Immunology | November 2008, Vol 181: pp. 6361-6370
  
  Publication Publication
- Phylogenetic Dependency Networks: Inferring Patterns of CTL Escape and Codon Covariation in HIV-1 Gag
  
  Jonathan M. Carlson, Zabrina L. Brumme, Christine M. Rousseau, Chanson J. Brumme, Philippa Matthews, Carl Kadie, James I. Mullins, Bruce D. Walker, P. Richard Harrigan, Philip J. R. Goulder, David Heckerman
  
  PLoS Computational Biology | November 2008, Vol 4: pp. e1000225
  
  Publication Publication Publication Projet
- In Silico Resolution of Ambiguous HLA Typing Data
  
  Jennifer Listgarten, Zabrina Brumme, Carl Kadie, Gao Xiaojiang, Bruce Walker, Mary Carrington, Phillip Goulder, David Heckerman
  
  October 2008
  
  Publication
- Central Role of Reverting Mutations in HLA Associations with Human Immunodeficiency Virus Set Point
  
  Philippa C. Matthews, Andrew Prendergast, Alasdair Leslie, Hayley Crawford, Rebecca Payne, Christine Rousseau, Isobella Honeyborne, Jonathan M. Carlson, Carl Kadie, Christian Brander, Karen Bishop, Nonkululeko Mlotshwa, James I. Mullins, Hoosen Coovadia, Thumbi Ndung'u, Bruce D. Walker, David Heckerman, Philip J. Goulder
  
  Journal of Virology | September 2008, Vol 82(17): pp. 8548-8559
  
  Publication Publication
- Continuous Time Dynamic Topic Models
  
  Chong Wang, David Blei, David Heckerman
  
  UAI-P-2008-PG-579-586 | July 2008
  
  Tech Report 2003 61
  
  Publication Publication
- Det. (Distance Encoded Tree): A Scalable Visualization Tool for Mapping Multiple Traits to Large Evolutionary Trees
  
  Bongshin Lee, Lev Nachmanson, George Robertson, Jonathan M. Carlson, David Heckerman
  
  MSR-TR-2008-97 | July 2008
  
  Publication
- Comparison Of Immunogen Designs That Optimize Peptide Coverage: Reply To Fischer et al.
  
  David C Nickle, Nebojsa Jojic, David Heckerman, Darko Kirovski, Vladimir Jojic, Morgane Rolland, Sergei Kosakovsky Pond, James I Mullins
  
  PLoS Computational Biology | March 2008, pp. e25
  
  Publication Publication
- Efficient Control of Population Structure in Model Organism Association Mapping
  
  Hyun Min Kang, Noah A. Zaitlen, Claire M. Wade, Andrew Kirby, David Heckerman, Mark J. Daly, Eleazar Eskin
  
  Genetics | March 2008, Vol 178(3): pp. 1709-1723
  
  Publication Publication
- Targeting of a CD8 T cell env epitope presented by HLA-B*5802 is associated with markers of HIV disease progression and lack of selection pressure
  
  KC Ngumbela, CL Day, Z Mncube, K Nair, D Ramduth, C Thobakgale, E Moodley, S Reddy, C de Pierres, N Mkhwanazi, K Bishop, M van der Stok, N Ismail, I honeyborne, H Crawford, DG Kavanagh, C Rousseau, D Nickle, J Mullins, David Heckerman, B Korber, H Coovadia, P Kiepiela, PJ Goulder, BD Walker
  
  AIDS Res Hum Retroviruses | January 2008, Vol 24(1): pp. 72-82
  
  Publication Publication
- Broad and Gag-biased HIV-1 epitope repertoires are associated with lower viral loads
  
  Morgane Rolland, David Heckerman, Wenjie Deng, Christine M. Rousseau, Hoosen Coovadia, Karen Bishop, Philip J.R. Goulder, Bruce D. Walker, Chirstian Brander, James I. Mullins
  
  PLoS ONE | January 2008, pp. e1424
  
  Publication Publication
- Genetic Characterization of Human Immunodeficiency Virus type 1 in Elite Controllers: Lack of gross genetic defects or common amino acid changes
  
  Toshiyuki Miura, Mark A. Brockman, Chanson J. Brumme, Zabrina L. Brumme, Jonathan M. Carlson, Florencia Pereyra, Alicja Trocha, Marylyn M. Addo, Brian L. Block, Alissa C. Rothchild, Brett M. Baker, Theresa Flynn, Arne Schneidewind, Bin Li, Yaoyu E. Wang, David Heckerman, Todd M. Allen, Bruce D. Walker
  
  Journal of Virology | January 2008, pp. JVI.00535-8
  
  Publication Publication
- HLA Class I-Driven Evolution of Human Immunodeficiency Virus Type 1 Subtype C Proteome: immune Escape and Viral Load
  
  Christine M. Rousseau, Marcus G. Daniels, Jonathan M. Carlson, Carl Kadie, Hayley Crawford, Andrew Prendergast, Philippa Matthews, Rebecca Payne, Morgane Rolland, Dana N. Raugi, Brandon S. Maust, Gerald H. Learn, David C. Nickle, Hoosen Coovadia, Thumbi Ndung'u, Nicole Frahm, Christian Brander, Bruce D. Walker, Philip J. R. Goulder, Tanmoy Bhattacharya, David Heckerman, Bette T. Korber, James I. Mullins
  
  Journal of Virology | January 2008, Vol 82: pp. 6434-6446
  
  Publication
- Human leukocyte antigen-specific polymorphisms in HIV-1 Gag and their association with viral load in chronic untreated infection
  
  Zabrina L Brumme, Iris Tao, Sharon Szeto, Chanson J Brumme, Jonathan M. Carlson, Dennison Chan, Carl Kadie, Nicole Frahm, Christian Brander, Bruce Walker, David Heckerman, P. Richard Harrigan
  
  AIDS | January 2008
  
  Publication Publication
- Marked Epitope- and Allele-Specific Differences in Rates of Mutation in Human Immunodeficiency Type 1 (HIV-1) Gag, Pol, and Nef Cytotoxic T-Lymphocyte Epitopes in Acute/Early HIV-1 Infection
  
  Zabrina L. Brumme, Chanson J. Brumme, Jonathan M. Carlson, Hendrik Streeck, Mina John, Quentin Eichbaum, Brian L. Block, Brett Baker, Carl Kadie, Martin Markowitz, Heiko Jessen, Anthony D. Kelleher, Eric Rosenberg, John Kaldor, Yuko Yuki, Mary Carrington, Todd M. Allen, Simon Mallal, Marcus Altfeld, David Heckerman, Bruce D. Walker
  
  Journal of Virology | January 2008, Vol 82: pp. 9216-9227
  
  Publication Github Projet
- Naturally occurring dominant resistance mutations to hepatitis C virus protease and polymerase inhibitors in treatment-naÃ¯ve patients
  
  Thomas Kuntzen, Joerg Timm, Andrew Berical, Niall Lennon, Aaron M. Berlin, Sarah K. Young, Bongshin Lee, David Heckerman, Jonathan M. Carlson, Laura L. Reyor, Marianna Kleyman, Cory M. McMahon, Christopher Birch, Julian Schulze zur Wiesch, Timothy Ledlie, Michael Koehrsen, Chinnappa Kodira, Andrew D. Roberts, Georg M. Lauer, Hugo R. Rosen, Florian Bihl, Andreas Cerny, Ulrich Spengler, Zhimin Liu, Arthur Y. Kim, Yanming Xing, Arne Schneidewind, Margaret A. Madey, Jaquelyn F. Fleckenstein, Vicki M. Park, James E. Galagan, Chad Nusbaum, Bruce D. Walker, Gerond V. Lake-Bakaar, Eric S. Daar, Ira M. Jacobson, Edward D. Gomperts, Brian R. Edlin, Sharyne M. Donfield, Raymond T. Chung, Andrew H. Talal, Tony Marion, Bruce W. Birren, Matthew R. Henn, Todd M. Allen
  
  Hepatology | January 2008, Vol 48: pp. 1769-1778
  
  Publication
- Statistical Resolution of Ambiguous HLA Typing Data
  
  Jennifer Listgarten, Zabrina Brumme, Carl Kadie, Gao Xiaojiang, Bruce Walker, Mary Carrington, Philip Goulder, David Heckerman
  
  MSR-TR-2008-07 | January 2008
  
  Publication
- Transmission of HIV-1 Gag immune escape mutations is associated with reduced viral load in linked recipients
  
  Paul A. Goepfert, Wendy Lumm, Paul Farmer, Philippa Matthews, Andrew Prendergast, Jonathan M. Carlson, Cynthia A. Derdeyn, Jianming Tang, Richard A. Kaslow, Anju Bansal, Karina Yusim, David Heckerman, Joseph Mulenga, Susan Allen, Philip J. R. Goulder, Eric Hunter
  
  Journal of Experimental Medicine | January 2008, Vol 205: pp. 1009-1017
  
  Publication Publication
- Reflection and Action Under Scarce Resources: Theoretical Principles and Empirical Study
  
  Eric Horvitz, Gregory Cooper, David Heckerman
  
  November 2007
  
  Publication
- Combinatorics of The Vaccine Design Problem: Definition and An Algorithm
  
  Darko Kirovski, David Heckerman, Nebojsa Jojic
  
  MSR-TR-2007-148 | November 2007
  
  Publication
- Increased Cytotoxic T-Lymphocyte Epitope Variant Cross-Recognition and Functional Avidity Are Associated with Hepatitis C Virus Clearance
  
  Daniel Yerly, David Heckerman, Todd M. Allen, John V. Chisholm III, Kellie Faircloth, Caitlyn H. Linde, Nicole Frahm, Joerg Timm, Werner J. Pichler, Andreas Cerny, Christian Brander
  
  Journal of Virology | October 2007, Vol 82(6): pp. 3147-3153
  
  Publication Publication
- A Statistical Framework for Modeling HLA-Dependent T Cell Response Data
  
  Jennifer Listgarten, Nicole Frahm, Carl Kadie, Christian Brander, David Heckerman
  
  PLoS Computational Biology | October 2007, Vol 4(10): pp. e188
  
  Publication Publication
- Extensive HLA class I allele promiscuity among viral CTL epitopes
  
  Nicole Frahm, Karina Yusim, Todd J. Suscovich, Sharon Adams, John Sidney, Peter Hraber, Hannah S. Hewitt, Caitlyn H. Linde, Daniel G. Kavanagh, Tonia Woodberry, Leah M. Henry, Kellie Faircloth, Jennifer Listgarten, Carl Kadie, Nebojsa Jojic, Kaori Sango, Nancy V. Brown, Eunice Pae, M. Tauheed Zaman, Florian Bihl, Ashok Khatri, Mina John, Simon Mallal, Francesco M. Marincola, Bruce D. Walker, Alessandro Sette, David Heckerman, Bette T. Korber, Christian Brander
  
  European Journal of Immunology | September 2007, Vol 37(9): pp. 2419-2433
  
  Publication Publication
- Evidence of Differential HLA Class I-Mediated Viral Evolution in Functional and Accessory/Regulatory Genes of HIV-1
  
  Zabrina L Brumme, Chanson J Brumme, David Heckerman, Bette T Korber, Marcus Daniels, Carl Kadie, Tanmoy Bhattacharya, Celia Chui, James Szinger, Theresa Mo, Robert S Hogg, Julio S. G Montaner, Nicole Frahm, Christian Brander, Bruce D Walker, P. Richard Harrigan, Jonathan M. Carlson
  
  PLoS Pathogens | July 2007
  
  Publication
- Leveraging Hierarchical Population Structure in Discrete Association Studies
  
  Jonathan M. Carlson, Carl Kadie, Simon Mallal, David Heckerman
  
  PLoS One | July 2007, Vol 2: pp. e591
  
  Publication Projet
- Determining the Number of Non-Spurious Arcs in a Learned DAG Model: Investigation of a Bayesian and a Frequentist Approach
  
  Jennifer Listgarten, David Heckerman
  
  MSR-TR-2007-60 | May 2007
  
  Publication
- Extensive Intrasubtype Recombination in South African Human Immunodeficiency Virus Type 1 Subtype C Infections
  
  Christine M. Rousseau, Gerald H. Learn, Tanmoy Bhattacharya, David C. Nickle, David Heckerman, Senica Chetty, Christian Brander, Philip J. R. Goulder, Bruce D. Walker, Photini Kiepiela, Bette T. Korber, James I. Mullins
  
  Journal of Virology | May 2007
  
  Publication Publication
- Coping with Viral Diversity in HIV Vaccine Design
  
  David C. Nickle, Morgane Rolland, Mark A. Jensen, Sergei L. Kosakovsky Pond, Wenjie Deng, Mark Seligman, David Heckerman, James I. Mullins
  
  PLoS Computational Biology | April 2007, pp. e75
  
  Publication Publication
- Founder Effects in the Assessment of HIV Polymorphisms and HLA Allele Associations
  
  Tanmoy Bhattacharya, Marcus Daniels, David Heckerman, Brian Foley, Nicole Frahm, Carl Kadie, Jonathan M. Carlson, Karina Yusim, Ben McMahon, Brian Gaschen, Simon Mallal, James I. Mullins, David C. Nickle, Joshua Herbeck, Christine Rousseau, Gerald H. Learn, Toshiyuki Miura, Christian Brander, Bruce Walker, Bette Korber
  
  Science | January 2007, Vol 315: pp. 1583-1586
  
  Publication
- CD8+ T-cell responses to different HIV proteins have discordant associations with viral load
  
  Photini Kiepiela, Kholiswa Ngumbela, Christina Thobakgale, Dhanwanthia Ramduth, Isobella Honeyborne, Eshia Moodley, Shabashini Reddy, Chantal de Pierres, Zenele Mncube, Nompumelelo Mkhwanazi, Karen Bishop, Mary van der Stok, Kriebashnie Nair, Nasreen Khan, Hayley Crawford, Rebecca Payne, Alasdair Leslie, Julia Prado, Andrew Pendergast, John Frater, Noel McCarthy, Christian Brander, Gerald H. Learn, David Nickle, Christine Rousseau, Hoosen Coovadia, James I. Mullins, David Heckerman, Bruce D. Walker, Philip Goulder
  
  Nature Medicine | December 2006
  
  Publication
- Identifying the effects of human immune pressure on the evolution of HIV.
  
  Jonathan M. Carlson, Carl Kadie, David Heckerman
  
  December 2006
  
  Publication
- Learning MHC I – Peptide Binding
  
  Nebojsa Jojic, Manuel Reyes-Gomez, David Heckerman, Carl Kadie, Ora Schueler-Furman
  
  June 2006, Vol 22(14): pp. e227-e235
  
  Publication Publication
- A Bayesian Approach to Causal Discovery
  
  David Heckerman, Chris Meek, Gregory Cooper
  
  Computation, Causation, and Discovery | Publié par AAAI Press | 2006 | Computation, Causation, and Discovery edition
  
  ISBN: 978-3-540-30609-2
  
  Publication Publication
- Considering Cost Asymmetry in Learning Classifiers
  
  Francis Bach, David Heckerman, Eric Horvitz
  
  Machine Learning Research | October 2005, Vol 7: pp. 1713-1741
  
  Publication
- Leveraging Information Across HLA Alleles/Supertypes Improves HLA-Specific Epitope Prediction
  
  David Heckerman, Carl Kadie, Jennifer Listgarten
  
  MSR-TR-2005-127 | September 2005
  
  Publication
- Using Epitomes To Model Genetic Diversity: Rational Design Of HIV Vaccines
  
  Nebojsa Jojic, Vladimir Jojic, Brendan J. Frey, Chris Meek, David Heckerman
  
  NIPS | May 2005
  
  Publication Publication
- Stopping Spam
  
  Joshua Goodman, David Heckerman, Robert Rounthwaite
  
  Scientific American | April 2005, Vol 292: pp. 42-49
  
  Publication Publication
- Large-Sample Learning of Bayesian Networks is NP-Hard
  
  Max Chickering, David Heckerman, Chris Meek
  
  Journal of Machine Learning Research | December 2004, Vol 5: pp. 1287-1330
  
  Publication Publication
- Variations on Undirected Graphical Models and their Relationships
  
  David Heckerman, Chris Meek, Thomas Richardson
  
  MSR-TR-2004-94 | September 2004
  
  Publication
- Joint Discovery Of Haplotype Blocks And Complex Trait Associations From SNP Sequences
  
  Nebojsa Jojic, Vladimir Jojic, David Heckerman
  
  UAI-P-2004-PG-286-292 | July 2004
  
  Symposium on Networked Systems Design and Implemenentation (NSDI)
  
  Publication
- ARMA Time-Series Modeling with Graphical Models
  
  Bo Thiesson, Max Chickering, David Heckerman, Chris Meek
  
  Proceedings of the Twentieth Conference on Uncertainty in Artificial Intelligence | July 2004
  
  Publication Publication
- Probabilistic Models for Relational Data
  
  David Heckerman, Chris Meek, Daphne Koller
  
  MSR-TR-2004-30 | March 2004
  
  Publication
- Probabilistic Entity-Relationship Models, PRMs and Plate Models
  
  David Heckerman, Chris Meek, Daphne Koller
  
  Introduction to Statistical Relational Learning | Publié par MIT Press | 2004
  
  Publication
- A Characterization of the Dirichlet Distribution Through Global and Local Independence
  
  Dan Geiger, David Heckerman
  
  MSR-TR-94-16 | November 2003
  
  Annal Statistics
  
  Publication Publication
- Model-Based Clustering and Visualization of Navigation Patterns on a Web Site
  
  Igor Cadez, David Heckerman, Chris Meek, Padhraic Smyth, Steven White
  
  Data Mining and Knowledge Discovery | October 2003, Vol 7(4): pp. 399-424
  
  Also in KDD 2000
  
  Publication Publication
- Efficient Approximations for Learning Phylogenetic HMM Models from Data
  
  Vladimir Jojic, Nebojsa Jojic, Chris Meek, Daniel Geiger, Adam Siepel, David Haussler, David Heckerman
  
  MSR-TR-2003-62 | October 2003
  
  Publication
- An MDP-Based Recommender System
  
  Guy Shani, Ronen I. Brafman, David Heckerman
  
  UAI-P-2002-PG-453-460 | August 2002
  
  Proceedings of Twentieth Conference on Uncertainty in Artificial Intelligence, Banff, Canada, UAI Press
  
  Publication Publication Publication
- Autoregressive Tree Models For Time-Series Analysis
  
  Chris Meek, Max Chickering, David Heckerman
  
  Proceedings of the Second International SIAM Conference on Data Mining | August 2002
  
  Publication Publication
- CFW: A Collaborative Filtering System Using Posteriors Over Weights of Evidence
  
  Carl Kadie, Chris Meek, David Heckerman
  
  MSR-TR-2002-46 | August 2002
  
  Proceedings of Twenty Fourth Conference on Uncertainty in Artificial Intelligence, Helsinki, Finland, UAI Press
  
  Publication
- Staged Mixture Modeling and Boosting
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Proceedings of the Eighteenth Conference on Uncertainty in Artificial Intelligence | August 2002
  
  Publication
- Learning Mixtures Of Smooth, Nonuniform Deformation Models For Probabilistic Image Matching
  
  Nebojsa Jojic, Brendan J. Frey, Patrice Simard, David Heckerman
  
  Proceedings of Eighth International Workshop on Artificial Intelligence and Statistics, Key West, FL | May 2001
  
  Publication
- The Learning-Curve Sampling Method Applied to Model-Based Clustering
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Journal of Machine Learning Research | February 2001, Vol 2: pp. 397-418
  
  Also appears as Technical Report MSR-TR-01-34, Microsoft Research, February, 2001.
  
  Publication
- Accelerating EM For Large Databases
  
  Bo Thiesson, Chris Meek, David Heckerman
  
  Machine Learning | January 2001, Vol 45: pp. 279-299
  
  Also appears as Technical Report MSR-TR-99-31, Microsoft Research, May, 1999 (Revised February, 2001).
  
  Publication
- Learning Bayesian Networks From Dependency Networks: A Preliminary Study
  
  Geoff Hulten, Max Chickering, David Heckerman
  
  Proceedings of the Ninth International Workshop on Artificial Intelligence and Statistics, ® Key West, FL | January 2001
  
  Publication
- Parameter Priors for Directed Acyclic Graphical Models and the Characterization of Several Probability Distributions
  
  Dan Geiger, David Heckerman
  
  MSR-TR-98-67 | January 2001
  
  Publication
- The Learning-Curve Method Applied To Clustering
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Proceedings of Eighth International Workshop on Artificial Intelligence and Statistics, ® Key West, Florida | January 2001
  
  Publication
- An Evaluation of the Diagnostic Accuracy of Pathfinder
  
  David Heckerman, Bharat N. Nathwani
  
  Comput Biomed Res | November 2001, Vol 25(1): pp. 56-74
  
  Publication Publication
- Dependency Networks for Inference, Collaborative Filtering, and Data Visualization
  
  David Heckerman, Max Chickering, Chris Meek, Robert Rounthwaite, Carl Kadie
  
  MSR-TR-2000-16 | October 2000
  
  Proceedings of the International Conference on Dependable Systems and Networks
  
  Publication
- Targeted Advertising with Inventory Management
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-49 | October 2000
  
  ACM Special Interest Group on E-Commerce (EC00), ® Minneapolis, MN
  
  Publication
- Goal-Oriented Clustering
  
  Max Chickering, David Heckerman, Chris Meek, John Platt, Bo Thiesson
  
  MSR-TR-2000-82 | May 2000
  
  Publication
- Visualization of Navigation Patterns on a Web Site Using Model Based Clustering
  
  Igor Cadez, David Heckerman, Chris Meek, Padhraic Smyth, Steven White
  
  MSR-TR-2000-18 | March 2000
  
  Publication
- A Decision-Theoretic Approach to Targeted Advertising
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-17 | February 2000
  
  Proceedings of the International Conference on Functional Programming
  
  Publication
- Dependency Networks for Density Estimation, Collaborative Filtering, and Data Visualization
  
  David Heckerman, Max Chickering, Chris Meek, Robert Rounthwaite, Carl Kadie
  
  Proceedings of Sixteenth Conference on Uncertainty in Artificial Intelligence, ® Stanford, CA | January 2000
  
  Publication
- Fast Learning from Sparse Data
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-15 | August 1999
  
  Proceedings of the Fifth Workshop on Uncertainty in Artificial Intelligence, Windsor, ON
  
  Publication Publication
- Computationally Efficient Methods for Selecting Among Mixtures of Graphical Models
  
  Max Chickering, David Heckerman, Chris Meek
  
  Bayesian Statistics 6 | Publié par Oxford University Press | 1999 | Bayesian Statistics 6 edition
  
  Publication Publication
- Computationally Efficient Methods For Selecting Among Mixtures Of Graphical Models, With Discussion
  
  Bo Thiesson, Chris Meek, David Maxwell Chickering, David Heckerman
  
  Bayesian Statistics 6: Proceedings of the Sixth Valencia International Meeting | Publié par Oxford University Press | 1999 | Bayesian Statistics 6: Proceedings of the Sixth Valencia International Meeting edition
  
  Editors: Bernardo, J., Berger, J., Dawid, A., and Smith, A.
  
  Publication
- The Compilation of Decision Models
  
  David Heckerman, John Breese, Eric Horvitz
  
  March 1999
  
  Publication
- Stratified Exponential Families: Graphical Models and Model Selection
  
  Dan Geiger, David Heckerman, Henry King, Chris Meek
  
  MSR-TR-98-31 | July 1998
  
  Publication
- A Bayesian Approach to Filtering Junk E-Mail
  
  David Heckerman, Eric Horvitz, Mehran Sahami, Susan Dumais
  
  AAAI Workshop on Learning for Text Categorization | July 1998
  
  Publication
- Inferring Informational Goals from Free-Text Queries: A Bayesian Approach
  
  David Heckerman, Eric Horvitz
  
  MSR-TR-1998-5 | July 1998
  
  Proceedings of the Fourth Conference on Uncertainty in Artificial Intelligence (UAI1988)
  
  Publication Publication
- The Lumiere Project: Bayesian User Modeling for Inferring the Goals and Needs of Software Users
  
  Eric Horvitz, Jack Breese, David Heckerman, David Hovel, Koos Rommelse
  
  Proceedings of the Fourteenth Conference on Uncertainty in Artificial Intelligence, Madison, WI, July 1998, Morgan Kaufmann: San Francisco. | July 1998
  
  Publication Publication Vidéo
- Empirical Analysis of Predictive Algorithms for Collaborative Filtering
  
  John S. Breese, David Heckerman, Carl Kadie
  
  MSR-TR-98-12 | May 1998
  
  Publication
- Inductive Learning Algorithms and Representations for Text Categorization
  
  Susan Dumais, John Platt, David Heckerman, Mehran Sahami
  
  7th International Conference on Information and Knowledge Management | January 1998
  
  Publication Publication Projet
- Learning Mixtures of DAG Models
  
  Bo Thiesson, Chris Meek, Max Chickering, David Heckerman
  
  MSR-TR-97-30 | December 1997
  
  Revised May 1998
  
  Publication Publication
- Models and Selection Criteria for Regression and Classification
  
  David Heckerman, Chris Meek
  
  MSR-TR-97-08 | August 1997
  
  Symposium on Discrete Algorithms
  
  Publication
- A Bayesian Approach To Learning Bayesian Networks With Local Structure
  
  Max Chickering, David Heckerman, Chris Meek
  
  Proceedings of Thirteenth Conference on Uncertainty in Artificial Intelligence, ® Providence, RI | August 1997
  
  Publication
- Structure and Parameter Learning for Causal Independence and Causal Interaction Models
  
  Chris Meek, David Heckerman
  
  Proceedings of Thirteenth Conference on Uncertainty in Artificial Intelligence, Providence, RI | August 1997
  
  Publication
- Embedded Bayesian Network Classifiers
  
  David Heckerman, Chris Meek
  
  MSR-TR-97-06 | March 1997
  
  Publication
- A Comparison of Scientific and Engineering Criteria for Bayesian Model Selection
  
  David Heckerman, Max Chickering
  
  MSR-TR-96-12 | June 1996
  
  Tools and Algorithms for the Construction and Analysis of Systems (TACAS '07)
  
  Publication
- Decision-Theoretic Case-Based Reasoning
  
  John S. Breese, David Heckerman
  
  MSR-TR-95-03 | May 1996
  
  IEEE Transactions on Systems, Man, and Cybernetics
  
  Publication Publication Publication
- Decision-Theoretic Troubleshooting: A Framework for Repair and Experiment
  
  John S. Breese, David Heckerman
  
  MSR-TR-96-06 | March 1996
  
  Publication Publication
- Probabilistic Independence Networks for Hidden Markov Probability Models
  
  Padhraic Smyth, David Heckerman, Michael I. Jordan
  
  MSR-TR-96-03 | January 1996
  
  Publication Publication
- A Characterization of the Bivariate Normal-Wishart Distribution
  
  Dan Geiger, David Heckerman
  
  MSR-TR-95-53 | November 1995
  
  Publication
- Learning Bayesian Networks: A Unification for Discrete and Gaussian Domains
  
  David Heckerman, Dan Geiger
  
  UAI-P-1995-PG-274-284 | August 1995
  
  Robotics Science and System Workshop on Task and Motion Planning
  
  Publication Publication
- A Characterization of the Dirichlet Distribution with Application to Learning Bayesian Networks
  
  Dan Geiger, David Heckerman
  
  UAI-P-1995-PG-196-207 | August 1995
  
  Real-Time Graphics Architectures, Algorithms, and Programming Systems: Project Technical Report
  
  Publication Publication
- On Finding A Cycle Basis With A Shortest Maximal Cycle
  
  Max Chickering, Dan Geiger, David Heckerman
  
  Information Processing Letters | August 1995, Vol 54: pp. 55-58
  
  Publication Publication
- A Bayesian Approach to Learning Causal Networks
  
  David Heckerman
  
  MSR-TR-95-04 | August 1995
  
  Proceedings of the Eleventh Conference on Uncertainty in Artificial Intelligence (UAI1995)
  
  Publication Publication
- A Definition and Graphical Representation for Causality
  
  David Heckerman
  
  Proceedings of Eleventh Conference on Uncertainty in Artificial Intelligence, Montreal, Quebec | May 1995
  
  Publication
- Decision-Theoretic Troubleshooting
  
  David Heckerman, John S. Breese, Koos Rommelse
  
  CACM | May 1995
  
  Publication Publication
- A Tutorial on Learning With Bayesian Networks
  
  David Heckerman
  
  MSR-TR-95-06 | March 1995
  
  Publication
- Real-World Applications of Bayesian Networks
  
  David Heckerman, Abe Mamdani, Michael P. Wellman
  
  Communications of the ACM | March 1995, Vol 38(3): pp. 24-26
  
  Publication Publication
- Learning Bayesian Networks: Search Methods and Experimental Results
  
  Max Chickering, Dan Geiger, David Heckerman
  
  Proceedings of the Fifth International Workshop on Artificial Intelligence and Statistics | January 1995
  
  Publication
- A Decision-Based View of Causality
  
  David Heckerman, Ross D. Shachter
  
  UAI-P-1994-PG-302-310 | July 1994
  
  Proceedings of the Second Conference on Uncertainty in Artificial Intelligence (UAI1986)
  
  Publication Publication
- A New Look at Causal Independence
  
  David Heckerman, John S. Breese
  
  UAI-P-1994-PG-286-292 | July 1994
  
  Proceedings of the Ninth Conference on Uncertainty in Artificial Intelligence (UAI1993)
  
  Publication Publication
- Learning Bayesian Networks: The Combination of Knowledge and Statistical Data
  
  David Heckerman, Dan Geiger, Max Chickering
  
  Machine Learning | March 1994, Vol 20(3): pp. 197-243
  
  Publication Publication
- Causal Independence for Probability Assessment and Inference Using Bayesian Networks
  
  John S. Breese, David Heckerman
  
  MSR-TR-94-08 | March 1994
  
  Publication Publication
- Decision-Theoretic Foundations for Causal Reasoning
  
  David Heckerman, Ross Shachter
  
  MSR-TR-94-11 | March 1994
  
  Publication Publication Publication
- Learning Gaussian Networks
  
  Dan Geiger, David Heckerman
  
  MSR-TR-94-10 | January 1994
  
  Publication
- Troubleshooting Under Uncertainty
  
  David Heckerman, John S. Breese, Koos Rommelse
  
  MSR-TR-94-07 | January 1994
  
  Publication
- Inference Algorithms for Similarity Networks
  
  Dan Geiger, David Heckerman
  
  MSR-TR-93-09 | July 1993
  
  Proceedings of the IEEE International Conference on Data Mining (ICDM)
  
  Publication Publication
- Diagnosis of Multiple Faults: A Sensitivity Analysis
  
  David Heckerman, Michael Shwe
  
  MSR-TR-93-11 | June 1993
  
  SPIE Astronomy Telescopes and Instruments
  
  Publication Publication
- Efficient Approximations for the Marginal Likelihood of Incomplete Data Given a Bayesian Network
  
  Max Chickering, David Heckerman
  
  MSR-TR-96-08 | May 1993
  
  Publication Publication Publication
- An Approximate Nonmyopic Computation for Value of Information
  
  David Heckerman, Eric Horvitz, Blackford Middleton
  
  January 1993
  
  Publication
- The Certainty-Factor Model
  
  David Heckerman
  
  Encyclopedia of Artificial Intelligence, Second Edition | August 1992, pp. 131-138
  
  Publication
- Toward Normative Expert Systems Part II
  
  David Heckerman, Bharat N. Nathwani
  
  Methods of Information in Medicine | August 1992, Vol 31: pp. 106-116
  
  Publication Publication
- Toward Normative Expert Systems Part I
  
  David Heckerman, Eric Horvitz, Bharat N. Nathwani
  
  Methods of Information in Medicine | June 1992, Vol 31: pp. 90-105
  
  Publication Publication
- From Certainty Factors to Belief Networks
  
  David Heckerman, Edward H. Shortliffe
  
  Artificial Intelligence in Medicine | February 1992, pp. 35-52
  
  Publication Publication
- Probabilistic Similarity Networks
  
  David Heckerman
  
  Published by MIT Press - Cambridge, MA | August 1991
  
  Publication Publication
- Probabilistic Diagnosis Using a Reformulation of the INTERNIST-1/QMR Knowledge Base Part II
  
  Blackford Middleton, Michael Shwe, David Heckerman, Max Henrion, Eric Horvitz, Harold Lehmann, Gregory Cooper
  
  Methods of Information in Medicine | August 1991, Vol 30: pp. 256-267
  
  Publication
- Advances in Probabilistic Reasoning
  
  Dan Geiger, David Heckerman
  
  Proceedings of the Seventh Conference on Uncertainty in Artificial Intelligence | July 1991
  
  Publication
- Probabilistic Diagnosis Using a Reformulation of the INTERNIST-1/QMR Knowledge Base Part I
  
  Michael Shwe, Blackford Middleton, David Heckerman, Max Henrion, Eric Horvitz, Harold Lehmann, Gregory Cooper
  
  Methods of Information in Medicine | May 1991, Vol 30: pp. 241-255
  
  Publication
- Probabilistic Similarity Networks
  
  David Heckerman
  
  Networks | August 1990
  
  Publication
- A Combination of Cutset Conditioning with Clique-tree Propagation in the Pathfinder System
  
  Jaap Suermondt, Gregory F. Cooper, David Heckerman
  
  UAI-P-1990-PG-273-280 | August 1990
  
  SRI International
  
  Publication Publication
- Integrated Expert Systems and Videodisc in Surgical Pathology: An Overview
  
  B. Nathwani, David Heckerman, Eric Horvitz, T. Lincoln
  
  Human Pathology | August 1990, Vol 21: pp. 11-27
  
  Publication
- Separable and Transitive Graphoids
  
  Dan Geiger, David Heckerman
  
  UAI-P-1990-PG-538-545 | August 1990
  
  SRC Technical Note 1994-001 (December 1994).
  
  Publication Publication
- A Tractable Algorithm for Diagnosing Multiple Diseases
  
  David Heckerman
  
  UAI-P-1989-PG-174-181 | July 1990
  
  Secure Internet Programming
  
  Publication Publication
- Similarity Networks for the Construction of Multiple-Fault Belief Networks
  
  David Heckerman
  
  UAI-P-1990-PG-32-39 | July 1990
  
  Stanford University Interactive Workspaces Project Technical Note 2001-1
  
  Publication Publication
- Heuristic Abstraction in the Decision-Theoretic Pathfinder System
  
  Eric Horvitz, David Heckerman, Keung-Chi Ng, Bharat Nathwani
  
  Proceedings of the Symposium on Computers in Medical Care, Washington DC, IEEE Press: Silver Springs MD | November 1989
  
  Publication
- An Empirical Comparison of Three Inference Methods
  
  David Heckerman
  
  UAI-P-1988-PG-158-169 | August 1988
  
  SIGCOMM 2014
  
  Publication Publication
- A Method for Temporal Probabilistic Reasoning
  
  Gregory F. Cooper, Eric Horvitz, David Heckerman
  
  KSL-88-30 | July 1988
  
  Knowledge Systems Laboratory
  
  Publication
- The Myth of Modularity in Rule-Based Systems for Reasoning with Uncertainty
  
  David Heckerman, Eric Horvitz
  
  UAI-P-1986-PG-115-122 | January 1988
  
  Publication Publication
- Thinking Backward for Knowledge Acquisition
  
  Ross D. Shachter, David Heckerman
  
  AI Magazine | August 1987, pp. 55-61
  
  Publication
- A Perspective on Confidence and its use in Focusing Attention During Knowledge Acquisition
  
  David Heckerman, Holly Jimison
  
  UAI-P-1987-PG-123-131 | July 1987
  
  In Proceedings of the Third Workshop on Uncertainty in Artificial Intelligence, Seattle, WA (UAI1987)
  
  Publication Publication
- On the Expressiveness of Rule-based Systems for Reasoning with Uncertainty
  
  David Heckerman, Eric Horvitz
  
  AAAI-87 Proceedings | January 1987
  
  Publication
- An Axiomatic Framework for Belief Updates
  
  David Heckerman
  
  UAI-P-1986-PG-123-128 | October 1986
  
  SPIE Astronomy Telescopes and Instruments
  
  Publication Publication
- Towards a Better Understanding of the INTERNIST-1 Knowledge Base
  
  David Heckerman, Randolph A. Miller
  
  Proceedings of Medinfo, Washington | October 1986
  
  Publication
- A Framework for Comparing Alternative Formalisms for Plausible Reasoning
  
  Eric Horvitz, David Heckerman, Curtis P. Langlotz
  
  AAAI-86 Proceedings | January 1986
  
  Publication
- The Use of a Heuristic Problem-Solving Hierarchy to Facilitate the Explanation of Hypothesis-Directed Reasoning
  
  Eric Horvitz, David Heckerman, Bharat Nathwani, Lawrence Fagan
  
  January 1986, pp. 27-31
  
  Publication
- The Inconsistent Use of Measures of Certainty in Artificial Intelligence Research
  
  Eric Horvitz, David Heckerman
  
  Uncertainty in Artificial Intelligence Annual Conference on Uncertainty in Artificial Intelligence (UAI-85) | August 1985
  
  Publication Publication
- Diagnostic Strategies in the Hypothesis-Directed PATHFINDER System
  
  Eric Horvitz, David Heckerman, Bharat N. Nathwani, Lawrence M. Fagan
  
  January 1984, pp. 630-636
  
  Publication
- Pressure release superleak sound modes in He II
  
  David Heckerman, Ralph Rosenbaum, Seth Putterman, Gary A. Williams
  
  Journal of Low Temperature Physics | March 1980, Vol 38(5-6): pp. 629-640
  
  Publication Publication
- Surface tension sound in superfluid helium films adsorbed on alumina powder
  
  Ralph Rosenbaum, G. A. Williams, David Heckerman, J. Marcus, D. Scholler, J. Maynard, I. Rudnick
  
  Journal of Low Temperature Physics | December 1979, Vol 37(5): pp. 663-678
  
  Publication Publication
- Superfluid Two-Phase Sound
  
  Seth Putterman, David Heckerman, Ralph Rosenbaum, Gary Williams
  
  Physical Review Letters | February 1979, Vol 42(9): pp. 580-583
  
  Publication Publication

- Integrated Expert Systems and Videodisc in Surgical Pathology: An Overview
  
  B. Nathwani, David Heckerman, Eric Horvitz, T. Lincoln
  
  Human Pathology | August 1990, Vol 21: pp. 11-27
  
  Publication
- Pressure release superleak sound modes in He II
  
  David Heckerman, Ralph Rosenbaum, Seth Putterman, Gary A. Williams
  
  Journal of Low Temperature Physics | March 1980, Vol 38(5-6): pp. 629-640
  
  Publication Publication
- Surface tension sound in superfluid helium films adsorbed on alumina powder
  
  Ralph Rosenbaum, G. A. Williams, David Heckerman, J. Marcus, D. Scholler, J. Maynard, I. Rudnick
  
  Journal of Low Temperature Physics | December 1979, Vol 37(5): pp. 663-678
  
  Publication Publication
- Superfluid Two-Phase Sound
  
  Seth Putterman, David Heckerman, Ralph Rosenbaum, Gary Williams
  
  Physical Review Letters | February 1979, Vol 42(9): pp. 580-583
  
  Publication Publication
- Impact of Pre-Adapted HIV Transmission
  
  Jonathan M. Carlson, Victor Y. Du, Nico Pfeifer, Anju Bansal, Vincent T. F. Tan, Karen Power, Chanson J. Brumme, Anat Kreimer, Charles E. DeZiel, Nicolo Fusi, Malinda Schaefer, Mark A. Brockman, Jill Gilmour, Matt A. Price, William Kilembe, Richard Haubrich, Mina John, Simon Mallal, Roger Shapiro, John Frater, P. Richard Harrigan, Thumbi Ndung'u, Susan Allen, David Heckerman, John Sidney, Todd M. Allen, Philip J.R. Goulder, Zabrina L. Brumme, Eric Hunter, Paul A. Goepfert
  
  Nature Medicine | May 2016, Vol 22: pp. 606-613
  
  Bonnie Mathieson Young Investigator Award
  
  Author's Version Publication DOI Github Projet
- Anti-Hepatitis C Virus T-Cell Immunity in the Context of Multiple Exposures to the Virus
  
  Katja Pfafferott, Pooja Deshpande, Elizabeth McKinnon, Shahzma Merani, Andrew Lucas, David Heckerman, Simon Mallal, Mina John, Silvana Gaudieri, Michaela Lucas
  
  June 2015
  
  Publication Publication
- ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
  
  Garbiel R. A. Margarido, David Heckerman
  
  PLoS Comput Biol | April 2015
  
  Publication Publication
- Immune screening identifies novel T cell targets encoded by anti-sense reading frames of HIV-1
  
  Christopher T. Berger, Anuska Llano, Jonathan M. Carlson, Zabrina L. Brumme, Mark A. Brockman, Samandhy Cedeno, P. Richard Harrigan, Daniel E. Kaufmann, David Heckerman, Andreas Meyerhans, Christian Brander
  
  Journal of virology | April 2015, Vol 89: pp. 4015-4019
  
  Publication Publication
- Accurate Liability Estimation Improves Power in Ascertained Case-Control Studies
  
  Omer Weissbrod, Christoph Lippert, Dan Geiger, David Heckerman
  
  Nature Methods | February 2015, Vol 12: pp. 332-334
  
  Publication Publication
- Immune screening identifies novel T cell targets encoded by anti-sense reading frames of HIV-1
  
  Christopher T. Berger, Anuska Llano, Jonathan M. Carlson, Zabrina L. Brumme, Mark A. Brockman, Samandhy Cedeno, P. Richard Harrigan, Daniel E. Kaufmann, David Heckerman, Andreas Meyerhans, Christian Brander
  
  Journal of Virology | January 2015
  
  Publication Publication
- Greater power and computational efficiency for kernel-based association testing of sets of genetic variants
  
  Christoph Lippert, Jing Xiang, Danilo Horta, Christian Widmer, Carl Kadie, David Heckerman, Jennifer Listgarten
  
  Bioinformatics | September 2014, pp. btu504
  
  Publication Publication
- Addendum on the scoring of Gaussian directed acyclic graphical models
  
  Jack Kuipers, Giusi Moffa, David Heckerman
  
  Annal Statistics | August 2014, Vol 42: pp. 1689-1691
  
  Publication
- HIV Control Is Mediated in Part by CD8+ T-Cell Targeting of Specific Epitopes
  
  Florencia Pereyra, David Heckerman, Jonathan M. Carlson, Carl Kadie, Damien Z Soghoian, Daniel Karel, Ariel Goldenthal, Oliver B Davis, Charles E DeZiel, Tienho Lin, Jian Peng, Alicja Piechocka, Mary Carrington, Bruce D Walker
  
  Journal of Virology | August 2014, Vol 88(22): pp. 12937-12948
  
  Publication Publication Publication Projet
- Selection Bias at the Heterosexual HIV-1 Transmission Bottleneck
  
  Jonathan M. Carlson, Malinda Schaefer, Daniela C. Monaco, Rebecca Batorsky, Daniel T. Claiborne, Jessica Prince, Martin J. Deymier, Zachary S. Ende, Nichole R. Klatt, Charles E. DeZiel, Tien-Ho Lin, Jian Peng, Aaron M. Seese, Roger Shapiro, John Frater, Thumbi Ndung'u, Jianming Tang, Paul Goepfert, Jill Gilmour, Matt A. Price, William Kilembe, David Heckerman, Philip J. R. Goulder, Todd M. Allen, Susan Allen, Eric Hunter
  
  Science | July 2014, Vol 345(6193)
  
  Publication Publication Publication Publication Publication Projet
- Eliciting cytotoxic T-lymphocyte responses from synthetic vectors containing one or two epitopes in a C57BL/6 mouse model using peptide-containing biodegradable microspheres and adjuvants
  
  R. M. Rubsamen, C. V. Herst, P. M. Lloyd, David Heckerman
  
  June 2014
  
  Publication Publication
- Literome: PubMed-scale Genomic Knowledge Base in the Cloud
  
  Hoifung Poon, Chris Quirk, Charlie DeZiel, David Heckerman
  
  Bioinformatics 2014 | May 2014
  
  Publication Publication Projet
- A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control
  
  Jennifer Listgarten, Christoph Lippert, Nicolo Fusi, David Heckerman, Jonathan M. Carlson
  
  eLife | October 2013
  
  Publication
- Epigenome-wide association studies without the need for cell-type composition
  
  James Zhou, Christoph Lippert, David Heckerman, Martin Aryee, Jennifer Listgarten
  
  Nature Methods | August 2013
  
  Publication Publication
- Increased Sequence Coverage through Combined Targeting of Variant and Conserved Epitopes Correlates with Control of HIV Replication
  
  Justine Sunshine, Moon Kim, Jonathan M. Carlson, David Heckerman, Julie Czartoski, Stephen A. Migueles, Janine Maenza, M. Juliana McElrath, James I. Mullins, Nicole Frahm
  
  Journal of Virology | August 2013, Vol 88(2): pp. 1354-1365
  
  Publication Publication
- The benefits of selecting phenotype-specific variants for applications of mixed models in genomics
  
  Christoph Lippert, Gerald Quon, Eun Yong Kang, Carl Kadie, Jennifer Listgarten, David Heckerman
  
  MSR-TR-2013-138 | May 2013
  
  Publication
- Influence of HLA-C Expression Level on HIV Control
  
  Richard Apps, Ying Qi, Jonathan M. Carlson, Haoyan Chen, Xiaojiang Gao, Rasmi Thomas, Yuko Yuki, Greg Q. Del Prete, Philip Goulder, Zabrina L. Brumme, Chanson J. Brumme, Mina John, Simon Mallal, George Nelson, Ronald Bosch, David Heckerman, Judy L. Stein, Kelly A. Soderberg, M. Anthony Moody, Thomas N. Denny, Xue Zeng, Jingyuan Fang, Ashley Moffett, Jeffrey D. Lifson, James J. Goedert, Susan Buchbinder, Gregory D. Kirk, Jacques Fellay, Paul McLaren, Steven G. Deeks, Florencia Pereyra, Bruce Walker, Nelson L. Michael, Amy Weintrob, Steven Wolinsky, Wilson Liao, Mary Carrington
  
  Science | April 2013, Vol 340(6128): pp. 87-91
  
  Publication Publication Projet
- HIV escape mutations occur preferentially at HLA-binding sites of CD8 T-cell epitopes
  
  Corine Bronke, Coral-Ann M. Almeida, Elizabeth McKinnon, Steven G. Roberts, Niamh M. Keane, Abha Chopra, Jonathan M. Carlson, David Heckerman, Simon Mallal, Mina John
  
  AIDS, Basic Science | March 2013, Vol 27(6): pp. 899-905
  
  Publication Publication
- HIV-1 p24gag Derived Conserved Element DNA Vaccine Increases the Breadth of Immune Response in Mice
  
  Viraj Kulkarni, Margherita Rosati, Antonio Valentin, Brunda Ganneru, Ashish K. Singh, Jian Yan, Morgane Rolland, Candido Alicea, Rachel Kelly Beach, Gen-Mu Zhang, Sylvie Le Gall, Kate E. Broderick, Niranjan Y. Sardesai, David Heckerman, Beatriz Mothe, Christian Brander, David B. Weiner, James I. Mullins, George N. Pavlakis, Barbara K. Felber
  
  PLoS ONE | March 2013, pp. e60245
  
  Publication Publication
- High-dimensional immunomonitoring models of HIV-1-specific CD8 T-cell responses accurately identify subjects achieving spontaneous viral control
  
  Zaza M. Ndhlovu, Lori B. Chibnik, Jacqueline Proudfoot, Seanna Vine, Ashley McMullen, Kevin Cesa, Filippos Porichis, R. Brad Jones, Donna Marie Alvino, Meghan G. Hart, Eleni Stampouloglou, Alicja Piechocka-Trocha, Carl Kadie, Florencia Pereyra, David Heckerman, Philip L. De Jager, Bruce D. Walker, Daniel E. Kaufmann
  
  Blood Journal | January 2013, Vol 121(5)
  
  Publication
- Frequent and Variable Cytotoxic-T-Lymphocyte Escape-Associated Fitness Costs in the Human Immunodeficiency Virus Type 1 Subtype B Gag Proteins
  
  Christian L Boutwell, Jonathan M. Carlson, Tien-Ho Lin, Aaron Seese, Karen A Power, Jian Peng, Yanhua Tang, Zabrina L Brumme, David Heckerman, Arne Schneidewind, Todd M Allen
  
  January 2013
  
  Publication Publication
- A powerful and efficient set test for genetic markers that handles confounders
  
  Jennifer Listgarten, Christoph Lippert, Carl Kadie, David Heckerman
  
  Bioinformatics | January 2013
  
  Publication
- Correlates of Protective Cellular Immunity Revealed by Analysis of Population-Level Immune Escape Pathways in HIV-1
  
  Jonathan M. Carlson, Chanson J. Brumme, Eric Martin, Jennifer Listgarten, Mark A. Brockman, Anh Q. Le, Celia K. S. Chui, Laura A. Cotton, David J. H. F. Knapp, Sharon A. Riddler, Richard Haubrich, George Nelson, Nico Pfeifer, Charles E. DeZiel, David Heckerman, Richard Apps, Mary Carrington, Simon Mallal, P. Richard Harrigan, Mina John, Zabrina L. Brumme
  
  Journal of Virololgy | December 2012, Vol 86(24): pp. 13202-13216
  
  Publication Publication Projet
- Differential Clade-Specific HLA-B*3501 Association with HIV-1 Disease Outcome Is Linked to Immunogenicity of a Single Gag Epitope
  
  Philippa C. Matthews, Madoka Koyanagi, Henrik N. Kloverpris, Mikkel Harndahl, Anette Stryhn, Tomohiro Akahoshi, Hiroyuki Gatanaga, Shinichi Oka, Claudia Juarez Molina, Humberto Valenzuela Ponce, Santiago Avila Rios, David Cole, Jonathan M. Carlson, Rebecca P. Payne, Anthony Ogwu, Alfred Bere, Thumbi Ndung'u, Kamini Gounder, Fabian Chen, Lynn Riddell, Graz Luzzi, Roger Shaprio, Christian Brander, Bruce Walker, Andrew K. sewell, Gustavo Reyes Teran, David Heckerman, Eric Hunter, Soren Buus, Masafumi Takiguchi, Philip J.R. Goulder
  
  Journal of Virololgy | December 2012, Vol 86(23): pp. 12643-12654
  
  Publication Publication
- Extraneous markers used for genetic similarity leads to loss of power in GWAS and heritability determination
  
  Christoph Lippert, Gerald Quon, Jennifer Listgarten, David Heckerman
  
  MSR-TR-2012-120 | December 2012
  
  Publication
- Significant Reductions in Gag-Protease-Mediated HIV-1 Replication Capacity during the Course of the Epidemic in Japan
  
  Shigeru Nomura, Noriaki Hosoya, Zabrina L. Brumme, Mark A. Brockman, Tadashi Kikuchi, Michiko Koga, Hitomi Nakamura, Tomohiko Koibuchi, Takeshi Fujii, Jonathan M. Carlson, David Heckerman, Ai Kawana-Tachikawa, Aikichi Iwamoto, Toshiyuki Miura
  
  Journal of Virology | November 2012, Vol 87(3): pp. 1465-1476
  
  Publication Publication
- Role of Transmitted Gag CTL Polymorphisms in Defining Replicative Capacity and Early HIV-1 Pathogenesis
  
  Jessica L. Prince, Daniel T. Claiborne, Jonathan M. Carlson, Malinda Schaefer, Tianwei Yu, Shabir Lahki, Heather A. Prentice, Ling Yue, Sundaram A. Vishwanathan, William Kilembe, Paul Geopfert, Matthew A. Price, Jill Gilmour, Joseph Mulenga, Paul Farmer, Cynthia A. Derdeyn, Jiaming Tang, David Heckerman, Richard A. Kaslow, Susan A. Allen, Eric Hunter
  
  PLoS Pathogens | November 2012, pp. e1003041
  
  Publication Publication
- Co-operative additive effects between HLA alleles in control of HIV-1
  
  Philippa C. Matthews, Jennifer Listgarten, Jonathan M. Carlson, Rebecca Payne, Kuan-Hsiang Gary Huang, John Frater, Dominique Goedhals, Dewald Steyn, Cloete van Vuuren, Paolo Paioni, Pieter Jooste, Anthony Ogwu, Roger Shapiro, Zenele Mncube, Thumbi Ndung'u, Bruce D. Walker, David Heckerman, Philip J. R. Goulder
  
  PLoS ONE | October 2012, pp. e47799
  
  Publication Publication
- Patterns of methylation heritability in a genome-wide analysis of four brain regions
  
  Gerald Quon, Christoph Lippert, David Heckerman, Jennifer Listgarten
  
  Nucleic Acids Research | August 2012
  
  Publication Publication
- Fine-mapping classical HLA variation associated with durable host control of HIV-1 infection in African Americans
  
  Paul J. McLaren, Stephan Ripke, Kimberly Pelak, Amy C. Weintrob, Nikolaos A. Patsopoulos, Xiaoming Jia, Rachel L. Erlich, Niall J. Lennon, Carl Kadie, David Heckerman, Namrata Gupta, David W. Haas, Steven G. Deeks, Florencia Pereyra, Bruce D. Walker, Paul I. W. de Bakker
  
  Human Molecular Genetics | June 2012, Vol 21(19): pp. 4334-4347
  
  Publication Publication Publication
- Improved linear mixed models for genome-wide association studies
  
  Jennifer Listgarten, Christoph Lippert, Carl Kadie, Robert I. Davidson, Eleazar Eskin, David Heckerman
  
  Nature Methods | May 2012, Vol 9: pp. 3–4
  
  Publication Publication
- Widespread Impact of HLA Restriction on Immune Control and Escape Pathways in HIV-1
  
  Jonathan M. Carlson, Jennifer Listgarten, Nico Pfeifer, Vincent Tan, Carl Kadie, Bruce D. Walker, Thumbi Ndung'u, Roger Shapiro, John Frater, Zabrina L. Brumme, Philip J. R. Goulder, David Heckerman
  
  Journal of Virology | May 2012, Vol 86(9): pp. 5230-5243
  
  Publication Publication Publication Github Projet
- Uncommon Pathways of Immune Escape Attenuate HIV-1 Integrase Replication Capacity
  
  Mark A. Brockman, Denis R. Chopera, Alex Olvera, Chanson J. Brumme, Jennifer Sela, Tristan J. Markle, Eric Martin, Jonathan M. Carlson, Anh Q. Le, Rachel McGovern, Peter K. Cheung, Anthony D. Kelleher, Heiko Jessen, Martin Markowitz, Eric Rosenberg, Nicole Frahm, Jorge Sanchez, Simon Mallal, Mina John, P. Richard Harrigan, David Heckerman, Christian Brander, Bruce D. Walker, Zabrina L. Brumme
  
  Journal of Virology | April 2012
  
  Publication Publication
- Learning Transcriptional Regulatory Relationships Using Sparse Graphical Models
  
  Jonathan M. Carlson, Jennifer Listgarten, Nico Pfeifer, Vincent Tan, Carl Kadie, Bruce D. Walker, Thumbi Ndung'u, Roger Shapiro, John Frater, Zabrina L. Brumme, Philip J. R. Goulder, David Heckerman
  
  February 2012
  
  Publication Publication Publication
- High-avidity, high-IFNÎ³-producing CD8 T-cell responses following immune selection during HIV-1 infection
  
  Niamh M. Keane, Stevens G. Roberts, Coral-Ann M. Almedia, Tanya Krishnan, Abha Chopra, Emma Demaine, Rebecca Laird, Monika Tschochner, Jonathan M. Carlson, Simon Mallal, David Heckerman, Ian James, Mina John
  
  Immunology and Cell Biology | February 2012, Vol 90(2): pp. 224-234
  
  Publication Publication
- CTL Responses of High Functional Avidity and Broad Variant Cross-Reactivity Are Associated with HIV Control
  
  Beatriz Mothe, Anuska Llano, Javier Ibarrondo, Jennifer Zamarreno, Mattia Schiaulini, Cristina Miranda, Marta Ruiz-Riol, Christoph T. Berger, M. Jose Herrero, Eduard Palou, Montse Plana, Morgane Rolland, Ashok Khatri, David Heckerman, Florencia Pereyra, Bruce D. Walker, David Weiner, Roger Paredes, Bonaventura Clotet, Barbara K. Felber, George N. Pavlakis, James I. Mullins, Chirstian Brander
  
  PLoS ONE | January 2012, pp. e29717
  
  Publication Publication
- HIV-specific CD4 T cell responses to different viral proteins have discordant associations with viral load and clinical outcome
  
  Srinika Ranasinghe, Michael Flanders, Sam Cutler, Damien Z. Soghoian, Musie Ghebremicahel, Isaiah Davis, Madelene Lindqvist, Florencia Pereyra, Bruce D. Walker, David Heckerman, Hendrik Streeck
  
  Journal of Virology | October 2011
  
  Publication Publication
- A Hexanucleotide Repeat Expansion in C9ORF72 Is the Cause of Chromosome 9p21-Linked ALS-FTD
  
  Alan E. Renton, Elisa Majounie, Adrian Waite, Javier Simon-Sanchez, Sara Rollinson, J. Raphael Gibbs, Jennifer C Scymick, Hannu Laaksovirta, John. C. van Swieten, Liisa Myllykangas, Hannu Kalimo, Anders Paetau, Yevgeniya Abramzon, Anne M. Remes, Alice Kaganovich, Sonja W. Scholz, Jamie Duckworth, Jinhui Ding, Daniel W. Harmer, Dena G. Hernandez, Janel O. Johnson, Kin Mok, Mina Ryten, Danyah Trabzuni, Rita J. Guerreiro, Richard W. Orrell, James Neal, Alex Murray, Justin Pearson, Iris E. Jansen, David Sondervan, Harro Seelaar, Derek Blake, Kate Young, Nicola Halliwell, Janis Bennion Callister, Greg Toulson, Anna Richardson, Alex Gerhard, Julie Snowden, David Mann, David Neary, Michael A. Nalls, Terhi Peuralinna, Lilja Jansson, Veli-Matti Isovaiita, Anna-Lotta Kaivorinne, Maarit Holtta-Vuori, Elina Ikonen, Raimo Sulkava, MIchael Benatar, Joanne Wuu, Adriano Chio, Garbiella Restagno, Giuseppe Borghero, Mario Sabatelli, The ITALSGEN Consortium, David Heckerman, Ekaterina ROgaeva, Lorne Zinman, Jeffrey D. Rothstein, MIchael Sendtner, Carsten Drepper, Evan E. Eichler, Can Alkan, Ziedulla Abdullaev, Svetlana D. Pack, Amalia Dutra, Evengenia Pak, John Hardy, Andrew SIngleton, Nigel M. Williams, Peter Heutink, Stuart Pickering-Brown, Huw R. Morris, Pentti J. Tienari, Bryan J. Traynor
  
  Neuron | September 2011, Vol 72(2): pp. 257-268
  
  Publication Publication
- Translation of HLA-HIV Associations to the Cellular Level: HIV Adapts To Inflate CD8 T Cell Responses against Nef and HLA-Adapted Variant Epitopes
  
  Coral-Ann M. Almeida, Corine Bronke, Steven G. Roberts, Elizabeth McKinnon, Niamh M. Keane, Abha Chopra, Carl Kadie, Jonathan M. Carlson, David W. Haas, Sharon A. Riddler, Richard Haubrich, David Heckerman, Simon Mallal , Mina John
  
  The Journal of Immunology | September 2011
  
  Publication
- Definition of the viral targets of protective HIV-1-specific T cell responses
  
  Beatriz Mothe, Anuska Llano, Javier Ibarrondo, Marcus Daniels, Cristina Miranda, Jennifer Zamarreno, Vanessa Bach, Rosario Zuniga, Susana Perez-Alvarez, Chirstoph T. Berger, Maria C. Puertas, Javier Martinez-Picado, Morgane Rolland, Marilu Farfan, James J. Szinger, William H. Hildebrand, Otto O. Yang, Victor Sanchez-Merino, Chanson J. Brumme, Zabrina L. Brumme, David Heckerman, Todd M. Allen, James I. Mullins, Guadalupe Gomez, Philip J. Goulder, Bruce D. Walker, Jose M. Gatell, Bonaventura Clotet, Better T. Korber, Jorge Sanchez, Chirstian Brander
  
  Journal of Translational Medicine | August 2011, Vol 9(208)
  
  Publication Publication
- HIV-1 Adaptation to NK-Cell-Mediated Immune Pressure
  
  Galit Alter, David Heckerman, Arne Schneidewind, Lena Fadda, Carl Kadie, Jonathan M. Carlson, Cesar Oniangue-Ndza, Maureen Martin, Bin Li, Salim I. Khakoo, Mary Carrington, Todd M. Allen, Marcus Altfeld
  
  Nature International weekly journal of science | August 2011, Vol 476: pp. 96-100
  
  Publication Publication Projet
- Conditional Random Fields for Fast, Large-Scale Genome-Wide Association Studies
  
  Jim Huang, Chris Meek, Carl Kadie, David Heckerman
  
  PLoS ONE | July 2011
  
  Publication
- Variable HIV Peptide Stability in Human Cytosol is Critical to Epitope Presentation and Immune Escape
  
  Estibaliz Lazaro, Carl Kadie, Pamela Stamegna, Shao Chong Zhang, Pauline Gourdain, Nicole Y. Lai, Mei Zhang, Sergio A. Martinez, David Heckerman, Sylvie Le Gall
  
  J Clin Invest | June 2011
  
  Publication Publication Publication
- Progression to AIDS in South Africa Is Associated with both Reverting and Compensatory Viral Mutations
  
  Kuan-Hsiang Gary Huang, Dominique Goedhals, Jonathan M. Carlson, Mark A. Brockman, Swati Mishra, Zabrina L. Brumme, Stephen Hickling, Christopher S.W. Tang, Toshiyuki Miura, Chris Seebregts, David Heckerman, Thumbi Ndung'u, Bruce Walker, Paul Klenerman, Dewald Steyn, Philip Goulder, Rodney Phillips, Bloemfotnein-Oxford Collaborative Group, Cloete van Vuuren, John Frater
  
  April 2011
  
  Publication Publication
- HLA-A*7401-Mediated Control of HIV Viremia Is Independent of Its Linkage Disequilibrium with HLA-B*5703
  
  Philippa C. Matthews, Emily Adland, Jennifer Listgarten, Alasdair Leslie, Nompumelelo Mkhwanazi, Jonathan M. Carlson, Mikkel Harndahl, Anette Stryhn, Rebecca P. Payne, Anthony Ogwu, Kuan-Hsiang Gary Huang, John Frater, Paolo Paioni, Henrik Kolverpris, Pieter Jooste, Dominique Goedhals, Cloete van Vuuren, Dewald Steyn, Lynn Riddell, Fabian Chen, Graz Luzzi, Thambiah Balachandran, Thumbi Ndung'u, Soren Buus, Mary Carrington, Roger Shapiro, David Heckerman, Philip J. R. Goulder
  
  The Journal of Immunology | April 2011
  
  Publication
- Increased breadth and depth of cytotoxic T lymphocytes responses against HIV-1-B Nef by inclusion of epitope variant sequences
  
  Morgane Rolland, Nicole Frahm, David C. Nickle, Nebojsa Jojic, Wenjie Deng, Todd M. Allen, Christian Brander, David Heckerman, James I. Mullins
  
  PLoS One | March 2011, Vol 28(6): pp. e17969
  
  Publication Publication
- Influence of Gag-Protease-Mediated Replication Capacity on Disease Progression in Individuals Recently Infected with HIV-1 Subtype C
  
  Jaclyn K. Wright, Vladimir Novitsky, Mark A. Brockman, Zabrina L. Brumme, Chanson J. Brumme, Jonathan M. Carlson, David Heckerman, Bingxia Wang, Elena Losina, Mopo Leshwedi, Mary van der Stok, Lungile Maphumulo, Nompumelelo Mkhwanazi, Fundisiwe Chonco, Philip J. R. Goulder, Max Essex, Bruce D. Walker, Thumbi Ndung'u
  
  February 2011
  
  Publication Publication
- Reduced Replication Capacity of NL4-3 Recombinant Viruses Encoding Reverse Transcriptase Integrase Sequences From HIV-1 Elite Controllers
  
  Zabrina L. Brumme, Chun Li, Toshiyuki Miura, Jennifer Sela, Pamela C. Rosato, Chanson J. Brumme, Tristan J. Markle, Eric Martin, Brian L. Block, Alicja Trocha, Carl Kadie, Todd M. Allen, Florencia Pereyra, David Heckerman, Bruce D. Walker, Mark A. Brockman
  
  J Acquir Immune Defic Syndr. | February 2011
  
  Publication Publication
- The Major Genetic Determinants of HIV-1 Control Affect HLA Class I Peptide Presentation
  
  David Heckerman
  
  Science The International HIV Controllers Study | December 2010, Vol 330(6010): pp. 1551-1557
  
  Publication Publication
- The hypervariable HIV-1 capsid protein residues comprise HLA-driven CD8+ T-cell escape mutations and covarying HLA-independent polymorphisms
  
  Hayley Crawford, Philippa C. Matthews, Malinda Schaefer, Jonathan M. Carlson, Alasdair Leslie, William Kilembe, Susan Allen, Thumbi Ndung'u, David Heckerman, Eric Hunter, Philip J. R. Goulder
  
  Journal of Virology | November 2010
  
  Publication Publication
- Early Selection in Gag by Protective HLA Alleles Contributes to Reduced HIV-1 Replication Capacity That May Be Largely Compensated for in Chronic Infection
  
  Mark A Brockman, Zabrina L Brumme, Chanson J Brumme, Toshiyuki Miura, Jennifer Sela, Pamela C Rosato, Carl Kadie, Jonathan M. Carlson, Tristan J Markle, Hendrik Streeck, Anthony D Kelleher, Martin Markowitz, Heiko Jessen, Eric Rosenberg, Marcus Altfeld, P Richard Harrigan, David Heckerman, Bruce D Walker, Todd M Allen
  
  Journal of Virology | November 2010, Vol 84(22): pp. 11937-11949
  
  Publication Publication
- Chromosome 9p21 in Amyotrophic Lateral Sclerosis in Finland: A Genome-Wide Association Study
  
  Hannu Laaksovirta, Terhi Peuralinna, Jennifer C. Schymick, Sonja W. Scholz, Shaoi-Lin Lai, Liisa Myllykangas, Raimo Sulkava, Lilja Jansson, Dena G. Hernandez, J. Raphael Gibbs, Michael A. Nalls, David Heckerman, Pentti J. Tienari, Bryan J. Traynor
  
  The Lancet Neurology | October 2010, pp. 978-985
  
  Publication
- Gag-Protease-Mediated Replication Capacity in HIV-1 1 Subtype C Chronic Infection: Associations with HLA Type and Clinical Parameters
  
  Jaclyn K. Wright, Zabrina L. Brumme, Jonathan M. Carlson, David Heckerman, Carl Kadie, Chanson J. Brumme, Bingxia Wang, Elena Losina, Toshiyuki Miura, Fundisiwe Chonco, Mary van der Stok, Zenele Mncube, Karen Bishop, Philip J.R. Goulder , Bruce D. Walker, Mark A. Brockman, Thumbi Ndung'u
  
  Journal of Virology | October 2010
  
  Publication Publication Publication
- Amino-Acid Co-Variation in HIV-1 Gag Subtype C: HLA-Mediated Selection Pressure and Compensatory Dynamics
  
  Morgane Rolland, Jonathan M. Carlson, Siriphan Manocheewa, J. Victor Swain, Erinn Lanxon-Cookson, Wenjie Deng, Christine M. Rousseau, Dana N. Raugi, Gerald H. Learn, Brandon S. Maust, Hoosen Coovadia, Thumbi Ndung'u, Philip J. R. Goulder, Bruce D. Walker, Christian Brander, David Heckerman, James I. Mullins
  
  PLoS ONE | September 2010, pp. e12463
  
  Publication Publication
- Correction for Hidden Confounders in the Genetic Analysis of Gene Expression
  
  Jennifer Listgarten, Carl Kadie, Eric E. Schadt, David Heckerman
  
  September 2010
  
  Publication Publication
- Adaptive Interactions between HLA and HIV-1: Highly Divergent Selection Imposed by HLA Class I Molecules with Common Supertype Motifs
  
  Mina John, David Heckerman, Ian James, Lawrence P. Park, Jonathan M. Carlson, Abha Chopra, Silvana Gaudieri, David Nolan, David W. Haas, Sharon A. Riddler, Richard Haubrich, Simon Mallal
  
  The Journal of Immunology | March 2010, Vol 184(8): pp. 4368-4377
  
  Publication
- Additive Contribution of HLA Class I Alleles in the Immune Control of HIV-1 Infection
  
  Alasdair Leslie, Philippa C. Matthews, Jennifer Listgarten, Jonathan M. Carlson, Carl Kadie, Thumbi Ndung'u, Christian Brander, Hoosen Coovadia, Bruce D. Walker, David Heckerman, Philip J. R. Goulder
  
  Journal of Virology | February 2010, Vol 84(19): pp. 9879-9888
  
  Publication Publication
- CD8 T Cell Response and Evolutionary Pressure to HIV-1 Cryptic Epitopes Derived from Antisense Transcription
  
  Anju Bansal, Jonathan M. Carlson, Jiyu Yan, Olusimidele T. Akinsiku, Malinda Schaefer, Steffanie Sabbaj, Anne Bet, David N. Levy, Sonya Heath, Jianming Tang, Richard A Kaslow, Bruce D. Walker, Thumbi Ndung'u, Philip J. Goulder, David Heckerman, Eric Hunter, Paul A. Goepfert
  
  The Journal of Experimental Medicine | January 2010, Vol 207(1): pp. 51
  
  Publication Publication Projet
- Viral adaptation to immune selection pressure by HLA class I-restricted CTL responses targeting epitopes in HIV frameshift sequences
  
  Christopher T. Berger, Jonathan M. Carlson, Chanson J. Brumme, Kari L. Hartman, Zabrina L. Brumme, Leah M. Henry, Pamela C. Rosato, Alicja Piechocka-Trocha, Mark A. Brockman, P. Richard Harrigan, David Heckerman, Daniel E. Kaufmann, Christian Brander
  
  JEM | January 2010
  
  Publication Publication Projet
- Changes in impact of HLA class I allele expression on HIV-1 plasma virus loads at a population level over time
  
  Michiko Koga, Ai Kawana-Tachikawa, David Heckerman, Takashi Odawara, Hitomi Nakamura, Tomohiko Koibuchi, Takeshi Fujii, Toshiyuki Miura, Aikichi Iwamoto
  
  Microbiology and Immunology | January 2010, Vol 54(4): pp. 196-205
  
  Publication Publication
- PhyloDet: A Scalable Visualization Tool for Mapping Multiple Traits to Large Evolutionary Trees
  
  Bongshin Lee, Lev Nachmanson, George Robertson, Jonathan M. Carlson, David Heckerman
  
  Bioinformatics | October 2009, Vol 25(19): pp. 2611-2612
  
  Publication Publication
- HLA-Associated Immune Escape Pathways in HIV-1 Subtype B Gag, Pol and Nef Proteins
  
  Zabrina L. Brumme, Mina John, Jonathan M. Carlson, Chanson J. Brumme, Dennison Chan, Mark A. Brockman, Luke C. Swenson, Iris Tao, Sharon Szeto, Pamela Rosato, Jennifer Sela, Carl Kadie, Nicole Frahm, Christian Brander, David W. Haas, Sharon Riddler, Richard Haubrich, Bruce D. Walker, P. Richard Harrigan, David Heckerman, Simon Mallal
  
  August 2009
  
  Publication
- Unique Features of HLA-mediated HIV Evolution in a Mexican Cohort: A Comparative Study
  
  Santiago Avila-Rios, Christopher E. Ormsby, Jonathan M. Carlson, Humberto Valenzuela-Ponce, Juan Blanco-Heredia, Daniela Garrido-Rodriguez, Claudia Garcia-Morales, David Heckerman, Zabrina L. Brumme, Simon Mallal, Mina John, Enrique Espinosa, Gustavo Reyes-Teran
  
  Retrovirology | August 2009
  
  Publication Publication
- HLA-specific polymorphisms in HIV-1 Gag and their association with viral load in chronic untreated infection
  
  Zabrina L. Brumme, Iris Tao, Sharon Szeto, Chanson J. Brumme, Jonathan M. Carlson, Dennison Chan, Carl Kadie, Nicole Frahm, Christian Brander, Bruce Walker, David Heckerman, P. Richard Harrigan
  
  July 2009
  
  Publication
- Adaptation of HIV-1 to Human Leukocyte Antigen Class I
  
  Yuka Kawashima, Katja Pfafferott, John Frater, Philippa Matthews, Rebecca Payne, Marylyn Addo, Hiroyuki Gatanaga, Mamoru Fujiwara, Atsuko Hachiya, Hirokazu Koizumi, Nozomi Kuse, Shinichi Oka, Anna Duda, Andrew Pendergast, Hayley Crawford, Alasdair Leslie, Zabrina Brumme, Chanson Brumme, Todd Allen, Christian Brander, Richard Kaslow, James Tang, Eric Hunter, Susan Allen, Joseph Mulenga, Songee Branch, Tim Roach, Mina John, Simon Mallal, Anthony Ogwu, Roger Shapiro, Julia G. Prado, Sarah Fidler, Jonathan Weber, Oliver G. Pybus, Paul Klenerman, Thumbi Ndung'u, Rodney Phillips, David Heckerman, P. Richard Harrigan, Bruce D. Walker, Masafumi Takiguchi, Philip Goulder
  
  Nature | April 2009, Vol 458: pp. 641-645
  
  Publication Publication
- Rare HLA Drive Additional HIV Evolution Compared to More Frequent Alleles
  
  Christine M. Rousseau, David W. Lockhart, Jennifer Listgarten, Carl Kadie, Gerald H. Learn, David C. Nickle, David Heckerman, Wenjie Deng, Christian Brander, Thumbi Ndung'u, Hoosen Coovadia, Philip J. R. Goulder, Bette T. Korber, Bruce D. Walker, James I. Mullins
  
  AIDS Research and Human Retroviruses | March 2009
  
  Publication Publication
- HLA-Associated Alterations in Replication Capacity of Chimeric NL4-3 Viruses Carrying gag-protease from Elite Controllers of Human Immunodeficiency Virus Type 1
  
  Toshiyuki Miura, Mark A. Brockman, Zabrina L. Brumme, Chanson J. Brumme, Florencia Pereyra, Alicja Trocha, Brian L. Block, Arne Schneidewind, Todd M. Allen, David Heckerman, Bruce D. Walker
  
  Journal of Virology | January 2009, Vol 83(1): pp. 140-149
  
  Publication Publication
- HLA footprints on HIV-1 are associated with inter-clade polymorphisms and intra-clade phylogenetic clustering
  
  Philippa C Matthews, Alasdair J Leslie, Aris Katzourakis, Hayley Crawford, Rebecca Payne, Andrew Prendergast, Karen Power, Anthony D Kelleher, Paul Klenerman, Jonathan M. Carlson, David Heckerman, Thumbi Ndung'u, Bruce D Walker, Todd M Allen, Oliver G Pybus, Philip J R Goulder
  
  Journal of Virology | January 2009, pp. JVI.02017-08
  
  Publication
- Protective HLA class I Alleles That Restrict Acute-Phase CD8+ T-Cell Responses Are Associated with Viral Escape Mutations Located in Highly Conserved Regions of Human Immunodeficiency Virus Type 1
  
  Yaoyu E. Wang, Bin Li, Jonathan M. Carlson, Hendrik Streeck, Adrianne D. Gladden, Robert Goodman, Arne Schneidewind, Karen A. Power, Ildiko Toth, Nicole Frahm, Galit Alter, Christian Brander, Mary Carrington, Bruce D. Walker, Marcus Altfeld, David Heckerman, Todd M. Allen
  
  Journal of Virology | January 2009, Vol 83(4): pp. 1845-1855
  
  Publication Publication
- Design, Expression, and Processing of Epitomized Hepatitis C Virus-Encoded CTL Epitopes
  
  Daniel Yerly, David Heckerman, Todd Allen, Todd J. Suscovich, Nebojsa Jojic, Carl Kadie, Werner J. Pichler, Andreas Cerny, Christian Brander
  
  The Journal of Immunology | November 2008, Vol 181: pp. 6361-6370
  
  Publication Publication
- Phylogenetic Dependency Networks: Inferring Patterns of CTL Escape and Codon Covariation in HIV-1 Gag
  
  Jonathan M. Carlson, Zabrina L. Brumme, Christine M. Rousseau, Chanson J. Brumme, Philippa Matthews, Carl Kadie, James I. Mullins, Bruce D. Walker, P. Richard Harrigan, Philip J. R. Goulder, David Heckerman
  
  PLoS Computational Biology | November 2008, Vol 4: pp. e1000225
  
  Publication Publication Publication Projet
- In Silico Resolution of Ambiguous HLA Typing Data
  
  Jennifer Listgarten, Zabrina Brumme, Carl Kadie, Gao Xiaojiang, Bruce Walker, Mary Carrington, Phillip Goulder, David Heckerman
  
  October 2008
  
  Publication
- Central Role of Reverting Mutations in HLA Associations with Human Immunodeficiency Virus Set Point
  
  Philippa C. Matthews, Andrew Prendergast, Alasdair Leslie, Hayley Crawford, Rebecca Payne, Christine Rousseau, Isobella Honeyborne, Jonathan M. Carlson, Carl Kadie, Christian Brander, Karen Bishop, Nonkululeko Mlotshwa, James I. Mullins, Hoosen Coovadia, Thumbi Ndung'u, Bruce D. Walker, David Heckerman, Philip J. Goulder
  
  Journal of Virology | September 2008, Vol 82(17): pp. 8548-8559
  
  Publication Publication
- Comparison Of Immunogen Designs That Optimize Peptide Coverage: Reply To Fischer et al.
  
  David C Nickle, Nebojsa Jojic, David Heckerman, Darko Kirovski, Vladimir Jojic, Morgane Rolland, Sergei Kosakovsky Pond, James I Mullins
  
  PLoS Computational Biology | March 2008, pp. e25
  
  Publication Publication
- Efficient Control of Population Structure in Model Organism Association Mapping
  
  Hyun Min Kang, Noah A. Zaitlen, Claire M. Wade, Andrew Kirby, David Heckerman, Mark J. Daly, Eleazar Eskin
  
  Genetics | March 2008, Vol 178(3): pp. 1709-1723
  
  Publication Publication
- Targeting of a CD8 T cell env epitope presented by HLA-B*5802 is associated with markers of HIV disease progression and lack of selection pressure
  
  KC Ngumbela, CL Day, Z Mncube, K Nair, D Ramduth, C Thobakgale, E Moodley, S Reddy, C de Pierres, N Mkhwanazi, K Bishop, M van der Stok, N Ismail, I honeyborne, H Crawford, DG Kavanagh, C Rousseau, D Nickle, J Mullins, David Heckerman, B Korber, H Coovadia, P Kiepiela, PJ Goulder, BD Walker
  
  AIDS Res Hum Retroviruses | January 2008, Vol 24(1): pp. 72-82
  
  Publication Publication
- Broad and Gag-biased HIV-1 epitope repertoires are associated with lower viral loads
  
  Morgane Rolland, David Heckerman, Wenjie Deng, Christine M. Rousseau, Hoosen Coovadia, Karen Bishop, Philip J.R. Goulder, Bruce D. Walker, Chirstian Brander, James I. Mullins
  
  PLoS ONE | January 2008, pp. e1424
  
  Publication Publication
- Statistical Resolution of Ambiguous HLA Typing Data
  
  Jennifer Listgarten, Zabrina Brumme, Carl Kadie, Gao Xiaojiang, Bruce Walker, Mary Carrington, Philip Goulder, David Heckerman
  
  MSR-TR-2008-07 | January 2008
  
  Publication
- Transmission of HIV-1 Gag immune escape mutations is associated with reduced viral load in linked recipients
  
  Paul A. Goepfert, Wendy Lumm, Paul Farmer, Philippa Matthews, Andrew Prendergast, Jonathan M. Carlson, Cynthia A. Derdeyn, Jianming Tang, Richard A. Kaslow, Anju Bansal, Karina Yusim, David Heckerman, Joseph Mulenga, Susan Allen, Philip J. R. Goulder, Eric Hunter
  
  Journal of Experimental Medicine | January 2008, Vol 205: pp. 1009-1017
  
  Publication Publication
- HLA Class I-Driven Evolution of Human Immunodeficiency Virus Type 1 Subtype C Proteome: immune Escape and Viral Load
  
  Christine M. Rousseau, Marcus G. Daniels, Jonathan M. Carlson, Carl Kadie, Hayley Crawford, Andrew Prendergast, Philippa Matthews, Rebecca Payne, Morgane Rolland, Dana N. Raugi, Brandon S. Maust, Gerald H. Learn, David C. Nickle, Hoosen Coovadia, Thumbi Ndung'u, Nicole Frahm, Christian Brander, Bruce D. Walker, Philip J. R. Goulder, Tanmoy Bhattacharya, David Heckerman, Bette T. Korber, James I. Mullins
  
  Journal of Virology | January 2008, Vol 82: pp. 6434-6446
  
  Publication
- Marked Epitope- and Allele-Specific Differences in Rates of Mutation in Human Immunodeficiency Type 1 (HIV-1) Gag, Pol, and Nef Cytotoxic T-Lymphocyte Epitopes in Acute/Early HIV-1 Infection
  
  Zabrina L. Brumme, Chanson J. Brumme, Jonathan M. Carlson, Hendrik Streeck, Mina John, Quentin Eichbaum, Brian L. Block, Brett Baker, Carl Kadie, Martin Markowitz, Heiko Jessen, Anthony D. Kelleher, Eric Rosenberg, John Kaldor, Yuko Yuki, Mary Carrington, Todd M. Allen, Simon Mallal, Marcus Altfeld, David Heckerman, Bruce D. Walker
  
  Journal of Virology | January 2008, Vol 82: pp. 9216-9227
  
  Publication Github Projet
- Human leukocyte antigen-specific polymorphisms in HIV-1 Gag and their association with viral load in chronic untreated infection
  
  Zabrina L Brumme, Iris Tao, Sharon Szeto, Chanson J Brumme, Jonathan M. Carlson, Dennison Chan, Carl Kadie, Nicole Frahm, Christian Brander, Bruce Walker, David Heckerman, P. Richard Harrigan
  
  AIDS | January 2008
  
  Publication Publication
- Naturally occurring dominant resistance mutations to hepatitis C virus protease and polymerase inhibitors in treatment-naÃ¯ve patients
  
  Thomas Kuntzen, Joerg Timm, Andrew Berical, Niall Lennon, Aaron M. Berlin, Sarah K. Young, Bongshin Lee, David Heckerman, Jonathan M. Carlson, Laura L. Reyor, Marianna Kleyman, Cory M. McMahon, Christopher Birch, Julian Schulze zur Wiesch, Timothy Ledlie, Michael Koehrsen, Chinnappa Kodira, Andrew D. Roberts, Georg M. Lauer, Hugo R. Rosen, Florian Bihl, Andreas Cerny, Ulrich Spengler, Zhimin Liu, Arthur Y. Kim, Yanming Xing, Arne Schneidewind, Margaret A. Madey, Jaquelyn F. Fleckenstein, Vicki M. Park, James E. Galagan, Chad Nusbaum, Bruce D. Walker, Gerond V. Lake-Bakaar, Eric S. Daar, Ira M. Jacobson, Edward D. Gomperts, Brian R. Edlin, Sharyne M. Donfield, Raymond T. Chung, Andrew H. Talal, Tony Marion, Bruce W. Birren, Matthew R. Henn, Todd M. Allen
  
  Hepatology | January 2008, Vol 48: pp. 1769-1778
  
  Publication
- Increased Cytotoxic T-Lymphocyte Epitope Variant Cross-Recognition and Functional Avidity Are Associated with Hepatitis C Virus Clearance
  
  Daniel Yerly, David Heckerman, Todd M. Allen, John V. Chisholm III, Kellie Faircloth, Caitlyn H. Linde, Nicole Frahm, Joerg Timm, Werner J. Pichler, Andreas Cerny, Christian Brander
  
  Journal of Virology | October 2007, Vol 82(6): pp. 3147-3153
  
  Publication Publication
- A Statistical Framework for Modeling HLA-Dependent T Cell Response Data
  
  Jennifer Listgarten, Nicole Frahm, Carl Kadie, Christian Brander, David Heckerman
  
  PLoS Computational Biology | October 2007, Vol 4(10): pp. e188
  
  Publication Publication
- Extensive HLA class I allele promiscuity among viral CTL epitopes
  
  Nicole Frahm, Karina Yusim, Todd J. Suscovich, Sharon Adams, John Sidney, Peter Hraber, Hannah S. Hewitt, Caitlyn H. Linde, Daniel G. Kavanagh, Tonia Woodberry, Leah M. Henry, Kellie Faircloth, Jennifer Listgarten, Carl Kadie, Nebojsa Jojic, Kaori Sango, Nancy V. Brown, Eunice Pae, M. Tauheed Zaman, Florian Bihl, Ashok Khatri, Mina John, Simon Mallal, Francesco M. Marincola, Bruce D. Walker, Alessandro Sette, David Heckerman, Bette T. Korber, Christian Brander
  
  European Journal of Immunology | September 2007, Vol 37(9): pp. 2419-2433
  
  Publication Publication
- Evidence of Differential HLA Class I-Mediated Viral Evolution in Functional and Accessory/Regulatory Genes of HIV-1
  
  Zabrina L Brumme, Chanson J Brumme, David Heckerman, Bette T Korber, Marcus Daniels, Carl Kadie, Tanmoy Bhattacharya, Celia Chui, James Szinger, Theresa Mo, Robert S Hogg, Julio S. G Montaner, Nicole Frahm, Christian Brander, Bruce D Walker, P. Richard Harrigan, Jonathan M. Carlson
  
  PLoS Pathogens | July 2007
  
  Publication
- Leveraging Hierarchical Population Structure in Discrete Association Studies
  
  Jonathan M. Carlson, Carl Kadie, Simon Mallal, David Heckerman
  
  PLoS One | July 2007, Vol 2: pp. e591
  
  Publication Projet
- Extensive Intrasubtype Recombination in South African Human Immunodeficiency Virus Type 1 Subtype C Infections
  
  Christine M. Rousseau, Gerald H. Learn, Tanmoy Bhattacharya, David C. Nickle, David Heckerman, Senica Chetty, Christian Brander, Philip J. R. Goulder, Bruce D. Walker, Photini Kiepiela, Bette T. Korber, James I. Mullins
  
  Journal of Virology | May 2007
  
  Publication Publication
- Determining the Number of Non-Spurious Arcs in a Learned DAG Model: Investigation of a Bayesian and a Frequentist Approach
  
  Jennifer Listgarten, David Heckerman
  
  MSR-TR-2007-60 | May 2007
  
  Publication
- Coping with Viral Diversity in HIV Vaccine Design
  
  David C. Nickle, Morgane Rolland, Mark A. Jensen, Sergei L. Kosakovsky Pond, Wenjie Deng, Mark Seligman, David Heckerman, James I. Mullins
  
  PLoS Computational Biology | April 2007, pp. e75
  
  Publication Publication
- Founder Effects in the Assessment of HIV Polymorphisms and HLA Allele Associations
  
  Tanmoy Bhattacharya, Marcus Daniels, David Heckerman, Brian Foley, Nicole Frahm, Carl Kadie, Jonathan M. Carlson, Karina Yusim, Ben McMahon, Brian Gaschen, Simon Mallal, James I. Mullins, David C. Nickle, Joshua Herbeck, Christine Rousseau, Gerald H. Learn, Toshiyuki Miura, Christian Brander, Bruce Walker, Bette Korber
  
  Science | January 2007, Vol 315: pp. 1583-1586
  
  Publication
- CD8+ T-cell responses to different HIV proteins have discordant associations with viral load
  
  Photini Kiepiela, Kholiswa Ngumbela, Christina Thobakgale, Dhanwanthia Ramduth, Isobella Honeyborne, Eshia Moodley, Shabashini Reddy, Chantal de Pierres, Zenele Mncube, Nompumelelo Mkhwanazi, Karen Bishop, Mary van der Stok, Kriebashnie Nair, Nasreen Khan, Hayley Crawford, Rebecca Payne, Alasdair Leslie, Julia Prado, Andrew Pendergast, John Frater, Noel McCarthy, Christian Brander, Gerald H. Learn, David Nickle, Christine Rousseau, Hoosen Coovadia, James I. Mullins, David Heckerman, Bruce D. Walker, Philip Goulder
  
  Nature Medicine | December 2006
  
  Publication
- Identifying the effects of human immune pressure on the evolution of HIV.
  
  Jonathan M. Carlson, Carl Kadie, David Heckerman
  
  December 2006
  
  Publication
- Learning MHC I – Peptide Binding
  
  Nebojsa Jojic, Manuel Reyes-Gomez, David Heckerman, Carl Kadie, Ora Schueler-Furman
  
  June 2006, Vol 22(14): pp. e227-e235
  
  Publication Publication
- Leveraging Information Across HLA Alleles/Supertypes Improves HLA-Specific Epitope Prediction
  
  David Heckerman, Carl Kadie, Jennifer Listgarten
  
  MSR-TR-2005-127 | September 2005
  
  Publication
- Joint Discovery Of Haplotype Blocks And Complex Trait Associations From SNP Sequences
  
  Nebojsa Jojic, Vladimir Jojic, David Heckerman
  
  UAI-P-2004-PG-286-292 | July 2004
  
  Symposium on Networked Systems Design and Implemenentation (NSDI)
  
  Publication
- Efficient Approximations for Learning Phylogenetic HMM Models from Data
  
  Vladimir Jojic, Nebojsa Jojic, Chris Meek, Daniel Geiger, Adam Siepel, David Haussler, David Heckerman
  
  MSR-TR-2003-62 | October 2003
  
  Publication
- Learning Mixtures Of Smooth, Nonuniform Deformation Models For Probabilistic Image Matching
  
  Nebojsa Jojic, Brendan J. Frey, Patrice Simard, David Heckerman
  
  Proceedings of Eighth International Workshop on Artificial Intelligence and Statistics, Key West, FL | May 2001
  
  Publication
- The Learning-Curve Sampling Method Applied to Model-Based Clustering
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Journal of Machine Learning Research | February 2001, Vol 2: pp. 397-418
  
  Also appears as Technical Report MSR-TR-01-34, Microsoft Research, February, 2001.
  
  Publication
- Fast Learning from Sparse Data
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-15 | August 1999
  
  Proceedings of the Fifth Workshop on Uncertainty in Artificial Intelligence, Windsor, ON
  
  Publication Publication
- The Compilation of Decision Models
  
  David Heckerman, John Breese, Eric Horvitz
  
  March 1999
  
  Publication
- Stratified Exponential Families: Graphical Models and Model Selection
  
  Dan Geiger, David Heckerman, Henry King, Chris Meek
  
  MSR-TR-98-31 | July 1998
  
  Publication
- The Lumiere Project: Bayesian User Modeling for Inferring the Goals and Needs of Software Users
  
  Eric Horvitz, Jack Breese, David Heckerman, David Hovel, Koos Rommelse
  
  Proceedings of the Fourteenth Conference on Uncertainty in Artificial Intelligence, Madison, WI, July 1998, Morgan Kaufmann: San Francisco. | July 1998
  
  Publication Publication Vidéo
- Inferring Informational Goals from Free-Text Queries: A Bayesian Approach
  
  David Heckerman, Eric Horvitz
  
  MSR-TR-1998-5 | July 1998
  
  Proceedings of the Fourth Conference on Uncertainty in Artificial Intelligence (UAI1988)
  
  Publication Publication
- A Bayesian Approach to Filtering Junk E-Mail
  
  David Heckerman, Eric Horvitz, Mehran Sahami, Susan Dumais
  
  AAAI Workshop on Learning for Text Categorization | July 1998
  
  Publication
- Learning Mixtures of DAG Models
  
  Bo Thiesson, Chris Meek, Max Chickering, David Heckerman
  
  MSR-TR-97-30 | December 1997
  
  Revised May 1998
  
  Publication Publication
- Models and Selection Criteria for Regression and Classification
  
  David Heckerman, Chris Meek
  
  MSR-TR-97-08 | August 1997
  
  Symposium on Discrete Algorithms
  
  Publication
- A Bayesian Approach To Learning Bayesian Networks With Local Structure
  
  Max Chickering, David Heckerman, Chris Meek
  
  Proceedings of Thirteenth Conference on Uncertainty in Artificial Intelligence, ® Providence, RI | August 1997
  
  Publication
- Structure and Parameter Learning for Causal Independence and Causal Interaction Models
  
  Chris Meek, David Heckerman
  
  Proceedings of Thirteenth Conference on Uncertainty in Artificial Intelligence, Providence, RI | August 1997
  
  Publication
- Embedded Bayesian Network Classifiers
  
  David Heckerman, Chris Meek
  
  MSR-TR-97-06 | March 1997
  
  Publication
- Decision-Theoretic Case-Based Reasoning
  
  John S. Breese, David Heckerman
  
  MSR-TR-95-03 | May 1996
  
  IEEE Transactions on Systems, Man, and Cybernetics
  
  Publication Publication Publication
- Decision-Theoretic Troubleshooting: A Framework for Repair and Experiment
  
  John S. Breese, David Heckerman
  
  MSR-TR-96-06 | March 1996
  
  Publication Publication
- Probabilistic Independence Networks for Hidden Markov Probability Models
  
  Padhraic Smyth, David Heckerman, Michael I. Jordan
  
  MSR-TR-96-03 | January 1996
  
  Publication Publication
- Learning Bayesian Networks: A Unification for Discrete and Gaussian Domains
  
  David Heckerman, Dan Geiger
  
  UAI-P-1995-PG-274-284 | August 1995
  
  Robotics Science and System Workshop on Task and Motion Planning
  
  Publication Publication
- A Characterization of the Dirichlet Distribution with Application to Learning Bayesian Networks
  
  Dan Geiger, David Heckerman
  
  UAI-P-1995-PG-196-207 | August 1995
  
  Real-Time Graphics Architectures, Algorithms, and Programming Systems: Project Technical Report
  
  Publication Publication
- A Bayesian Approach to Learning Causal Networks
  
  David Heckerman
  
  MSR-TR-95-04 | August 1995
  
  Proceedings of the Eleventh Conference on Uncertainty in Artificial Intelligence (UAI1995)
  
  Publication Publication
- A Definition and Graphical Representation for Causality
  
  David Heckerman
  
  Proceedings of Eleventh Conference on Uncertainty in Artificial Intelligence, Montreal, Quebec | May 1995
  
  Publication
- Decision-Theoretic Troubleshooting
  
  David Heckerman, John S. Breese, Koos Rommelse
  
  CACM | May 1995
  
  Publication Publication
- Real-World Applications of Bayesian Networks
  
  David Heckerman, Abe Mamdani, Michael P. Wellman
  
  Communications of the ACM | March 1995, Vol 38(3): pp. 24-26
  
  Publication Publication
- Learning Bayesian Networks: Search Methods and Experimental Results
  
  Max Chickering, Dan Geiger, David Heckerman
  
  Proceedings of the Fifth International Workshop on Artificial Intelligence and Statistics | January 1995
  
  Publication
- A New Look at Causal Independence
  
  David Heckerman, John S. Breese
  
  UAI-P-1994-PG-286-292 | July 1994
  
  Proceedings of the Ninth Conference on Uncertainty in Artificial Intelligence (UAI1993)
  
  Publication Publication
- A Decision-Based View of Causality
  
  David Heckerman, Ross D. Shachter
  
  UAI-P-1994-PG-302-310 | July 1994
  
  Proceedings of the Second Conference on Uncertainty in Artificial Intelligence (UAI1986)
  
  Publication Publication
- Learning Bayesian Networks: The Combination of Knowledge and Statistical Data
  
  David Heckerman, Dan Geiger, Max Chickering
  
  Machine Learning | March 1994, Vol 20(3): pp. 197-243
  
  Publication Publication
- Learning Gaussian Networks
  
  Dan Geiger, David Heckerman
  
  MSR-TR-94-10 | January 1994
  
  Publication
- Troubleshooting Under Uncertainty
  
  David Heckerman, John S. Breese, Koos Rommelse
  
  MSR-TR-94-07 | January 1994
  
  Publication
- Diagnosis of Multiple Faults: A Sensitivity Analysis
  
  David Heckerman, Michael Shwe
  
  MSR-TR-93-11 | June 1993
  
  SPIE Astronomy Telescopes and Instruments
  
  Publication Publication
- Efficient Approximations for the Marginal Likelihood of Incomplete Data Given a Bayesian Network
  
  Max Chickering, David Heckerman
  
  MSR-TR-96-08 | May 1993
  
  Publication Publication Publication
- An Approximate Nonmyopic Computation for Value of Information
  
  David Heckerman, Eric Horvitz, Blackford Middleton
  
  January 1993
  
  Publication
- Toward Normative Expert Systems Part II
  
  David Heckerman, Bharat N. Nathwani
  
  Methods of Information in Medicine | August 1992, Vol 31: pp. 106-116
  
  Publication Publication
- The Certainty-Factor Model
  
  David Heckerman
  
  Encyclopedia of Artificial Intelligence, Second Edition | August 1992, pp. 131-138
  
  Publication
- Toward Normative Expert Systems Part I
  
  David Heckerman, Eric Horvitz, Bharat N. Nathwani
  
  Methods of Information in Medicine | June 1992, Vol 31: pp. 90-105
  
  Publication Publication
- From Certainty Factors to Belief Networks
  
  David Heckerman, Edward H. Shortliffe
  
  Artificial Intelligence in Medicine | February 1992, pp. 35-52
  
  Publication Publication
- Probabilistic Similarity Networks
  
  David Heckerman
  
  Published by MIT Press - Cambridge, MA | August 1991
  
  Publication Publication
- Probabilistic Diagnosis Using a Reformulation of the INTERNIST-1/QMR Knowledge Base Part II
  
  Blackford Middleton, Michael Shwe, David Heckerman, Max Henrion, Eric Horvitz, Harold Lehmann, Gregory Cooper
  
  Methods of Information in Medicine | August 1991, Vol 30: pp. 256-267
  
  Publication
- Advances in Probabilistic Reasoning
  
  Dan Geiger, David Heckerman
  
  Proceedings of the Seventh Conference on Uncertainty in Artificial Intelligence | July 1991
  
  Publication
- Probabilistic Diagnosis Using a Reformulation of the INTERNIST-1/QMR Knowledge Base Part I
  
  Michael Shwe, Blackford Middleton, David Heckerman, Max Henrion, Eric Horvitz, Harold Lehmann, Gregory Cooper
  
  Methods of Information in Medicine | May 1991, Vol 30: pp. 241-255
  
  Publication
- Probabilistic Similarity Networks
  
  David Heckerman
  
  Networks | August 1990
  
  Publication
- Separable and Transitive Graphoids
  
  Dan Geiger, David Heckerman
  
  UAI-P-1990-PG-538-545 | August 1990
  
  SRC Technical Note 1994-001 (December 1994).
  
  Publication Publication
- A Combination of Cutset Conditioning with Clique-tree Propagation in the Pathfinder System
  
  Jaap Suermondt, Gregory F. Cooper, David Heckerman
  
  UAI-P-1990-PG-273-280 | August 1990
  
  SRI International
  
  Publication Publication
- Similarity Networks for the Construction of Multiple-Fault Belief Networks
  
  David Heckerman
  
  UAI-P-1990-PG-32-39 | July 1990
  
  Stanford University Interactive Workspaces Project Technical Note 2001-1
  
  Publication Publication
- A Tractable Algorithm for Diagnosing Multiple Diseases
  
  David Heckerman
  
  UAI-P-1989-PG-174-181 | July 1990
  
  Secure Internet Programming
  
  Publication Publication
- Heuristic Abstraction in the Decision-Theoretic Pathfinder System
  
  Eric Horvitz, David Heckerman, Keung-Chi Ng, Bharat Nathwani
  
  Proceedings of the Symposium on Computers in Medical Care, Washington DC, IEEE Press: Silver Springs MD | November 1989
  
  Publication
- An Empirical Comparison of Three Inference Methods
  
  David Heckerman
  
  UAI-P-1988-PG-158-169 | August 1988
  
  SIGCOMM 2014
  
  Publication Publication
- A Method for Temporal Probabilistic Reasoning
  
  Gregory F. Cooper, Eric Horvitz, David Heckerman
  
  KSL-88-30 | July 1988
  
  Knowledge Systems Laboratory
  
  Publication
- The Myth of Modularity in Rule-Based Systems for Reasoning with Uncertainty
  
  David Heckerman, Eric Horvitz
  
  UAI-P-1986-PG-115-122 | January 1988
  
  Publication Publication
- Thinking Backward for Knowledge Acquisition
  
  Ross D. Shachter, David Heckerman
  
  AI Magazine | August 1987, pp. 55-61
  
  Publication
- A Perspective on Confidence and its use in Focusing Attention During Knowledge Acquisition
  
  David Heckerman, Holly Jimison
  
  UAI-P-1987-PG-123-131 | July 1987
  
  In Proceedings of the Third Workshop on Uncertainty in Artificial Intelligence, Seattle, WA (UAI1987)
  
  Publication Publication
- On the Expressiveness of Rule-based Systems for Reasoning with Uncertainty
  
  David Heckerman, Eric Horvitz
  
  AAAI-87 Proceedings | January 1987
  
  Publication
- An Axiomatic Framework for Belief Updates
  
  David Heckerman
  
  UAI-P-1986-PG-123-128 | October 1986
  
  SPIE Astronomy Telescopes and Instruments
  
  Publication Publication
- Towards a Better Understanding of the INTERNIST-1 Knowledge Base
  
  David Heckerman, Randolph A. Miller
  
  Proceedings of Medinfo, Washington | October 1986
  
  Publication
- The Use of a Heuristic Problem-Solving Hierarchy to Facilitate the Explanation of Hypothesis-Directed Reasoning
  
  Eric Horvitz, David Heckerman, Bharat Nathwani, Lawrence Fagan
  
  January 1986, pp. 27-31
  
  Publication
- A Framework for Comparing Alternative Formalisms for Plausible Reasoning
  
  Eric Horvitz, David Heckerman, Curtis P. Langlotz
  
  AAAI-86 Proceedings | January 1986
  
  Publication
- The Inconsistent Use of Measures of Certainty in Artificial Intelligence Research
  
  Eric Horvitz, David Heckerman
  
  Uncertainty in Artificial Intelligence Annual Conference on Uncertainty in Artificial Intelligence (UAI-85) | August 1985
  
  Publication Publication
- Diagnostic Strategies in the Hypothesis-Directed PATHFINDER System
  
  Eric Horvitz, David Heckerman, Bharat N. Nathwani, Lawrence M. Fagan
  
  January 1984, pp. 630-636
  
  Publication
- Probabilistic Interpretations for MYCIN’s Certainty Factors
  
  David Heckerman
  
  UAI-P-1985-PG-9-20 | November 2016
  
  In Proceedings of the Workshop on Uncertainty and Probability in Artificial Intelligence, Los Angeles, CA
  
  Publication
- Computational and Statistical Issues in Personalized Medicine
  
  Christoph Lippert, David Heckerman
  
  XRDS: Crossroads, The ACM Magazine for Students - Computational Biology | July 2015, Vol 24(4): pp. 24-27
  
  Publication Publication
- Further Improvements to Linear Mixed Models for Genome-Wide Association Studies
  
  Christian Widmer, Christoph Lippert, Omer Weissbrod, Nicolo Fusi, Carl Kadie, Robert Davidson, Jennifer Listgarten, David Heckerman
  
  October 2014
  
  Publication Publication
- Variations on Undirected Graphical Models and their Relationships
  
  David Heckerman, Chris Meek, Thomas S. Richardson
  
  Kybernetika | July 2014
  
  Publication Publication
- Epigenome-wide association studies without the need for cell-type composition
  
  James Zhou, Christoph Lippert, David Heckerman, Martin Aryee, Jennifer Listgarten
  
  Nature Methods | August 2013
  
  Publication Publication
- FaST-LMM-Select for addressing confounding from spatial structure and rare variants
  
  Jennifer Listgarten, Christoph Lippert, David Heckerman
  
  MSR-TR-2013-137 | April 2013
  
  Second International Enterprise Distributed Object Computing Workshop (EDOC )
  
  Publication Publication
- Causal Independence for Knowledge Acquisition and Inference
  
  David Heckerman
  
  MSR-TR-93-10 | March 2013
  
  Publication Publication
- Asymptotic Model Selection for Directed Networks with Hidden Variables
  
  Dan Geiger, David Heckerman, Chris Meek
  
  MSR-TR-96-07 | February 2013
  
  Publication Publication
- An Experimental Comparison of Several Clustering and Initialization Methods
  
  Marina Meila, David Heckerman
  
  MSR-TR-98-06 | January 2013
  
  Publication Publication Publication
- Improved Learning in U.S. History and Decision Competence with Decision-Focused Curriculum
  
  David Jacobson, Andrew Parker, Chris Spetzler, Wandi Bruine de Bruin, Keith Hollenbeck, David Heckerman, Baruch Fischhoff
  
  PLoS ONE | September 2012
  
  Publication Publication
- Conditional Random Fields for Fast, Large-Scale Genome-Wide Association Studies
  
  Jim Huang, Chris Meek, Carl Kadie, David Heckerman
  
  PLoS ONE | July 2011
  
  Publication
- Pearl Causality and the Value of Control
  
  Ross Shachter, David Heckerman
  
  Heuristics, Probability and Causality: A Tribute to Judea Pearl | May 2010
  
  Publication
- Beyond Atopy: Multiple Patterns of Sensitization in Relation to Asthma in a Birth Cohort Study
  
  Angela Simpson, Vincent Y. Tan, John Winn, Markus Svensén, Christopher Bishop, David Heckerman, Iain Buchan, Adnan Custovic
  
  American Journal of Respiratory and Critical Care Medicine | February 2010, Vol 181: pp. 1200-1206
  
  Publication Publication Projet
- Update on the Pathfinder Project
  
  David Heckerman, Eric Horvitz, Bharat Nathwani
  
  Proceedings of the Thirteenth Symposium on Computer Applications in Medical Care | May 2009
  
  Publication
- Problem Formulation as the Reduction of a Decision Model
  
  David Heckerman, Eric Horvitz
  
  UAI-P-1990-PG-82-89 | May 2009
  
  SRC Technical Note 1998-004 (March 1998). Rejected by Information Processing Letters.
  
  Publication Publication
- Continuous Time Dynamic Topic Models
  
  Chong Wang, David Blei, David Heckerman
  
  UAI-P-2008-PG-579-586 | July 2008
  
  Tech Report 2003 61
  
  Publication Publication
- Reflection and Action Under Scarce Resources: Theoretical Principles and Empirical Study
  
  Eric Horvitz, Gregory Cooper, David Heckerman
  
  November 2007
  
  Publication
- Considering Cost Asymmetry in Learning Classifiers
  
  Francis Bach, David Heckerman, Eric Horvitz
  
  Machine Learning Research | October 2005, Vol 7: pp. 1713-1741
  
  Publication
- Using Epitomes To Model Genetic Diversity: Rational Design Of HIV Vaccines
  
  Nebojsa Jojic, Vladimir Jojic, Brendan J. Frey, Chris Meek, David Heckerman
  
  NIPS | May 2005
  
  Publication Publication
- Large-Sample Learning of Bayesian Networks is NP-Hard
  
  Max Chickering, David Heckerman, Chris Meek
  
  Journal of Machine Learning Research | December 2004, Vol 5: pp. 1287-1330
  
  Publication Publication
- Variations on Undirected Graphical Models and their Relationships
  
  David Heckerman, Chris Meek, Thomas Richardson
  
  MSR-TR-2004-94 | September 2004
  
  Publication
- A Characterization of the Dirichlet Distribution Through Global and Local Independence
  
  Dan Geiger, David Heckerman
  
  MSR-TR-94-16 | November 2003
  
  Annal Statistics
  
  Publication Publication
- An MDP-Based Recommender System
  
  Guy Shani, Ronen I. Brafman, David Heckerman
  
  UAI-P-2002-PG-453-460 | August 2002
  
  Proceedings of Twentieth Conference on Uncertainty in Artificial Intelligence, Banff, Canada, UAI Press
  
  Publication Publication Publication
- CFW: A Collaborative Filtering System Using Posteriors Over Weights of Evidence
  
  Carl Kadie, Chris Meek, David Heckerman
  
  MSR-TR-2002-46 | August 2002
  
  Proceedings of Twenty Fourth Conference on Uncertainty in Artificial Intelligence, Helsinki, Finland, UAI Press
  
  Publication
- An Evaluation of the Diagnostic Accuracy of Pathfinder
  
  David Heckerman, Bharat N. Nathwani
  
  Comput Biomed Res | November 2001, Vol 25(1): pp. 56-74
  
  Publication Publication
- Improved Learning in U.S. History and Decision Competence with Decision-Focused Curriculum
  
  David Jacobson, Andrew Parker, Chris Spetzler, Wandi Bruine de Bruin, Keith Hollenbeck, David Heckerman, Baruch Fischhoff
  
  PLoS ONE | September 2012
  
  Publication Publication
- Stopping Spam
  
  Joshua Goodman, David Heckerman, Robert Rounthwaite
  
  Scientific American | April 2005, Vol 292: pp. 42-49
  
  Publication Publication
- Dependency Networks for Inference, Collaborative Filtering, and Data Visualization
  
  David Heckerman, Max Chickering, Chris Meek, Robert Rounthwaite, Carl Kadie
  
  MSR-TR-2000-16 | October 2000
  
  Proceedings of the International Conference on Dependable Systems and Networks
  
  Publication
- Targeted Advertising with Inventory Management
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-49 | October 2000
  
  ACM Special Interest Group on E-Commerce (EC00), ® Minneapolis, MN
  
  Publication
- Visualization of Navigation Patterns on a Web Site Using Model Based Clustering
  
  Igor Cadez, David Heckerman, Chris Meek, Padhraic Smyth, Steven White
  
  MSR-TR-2000-18 | March 2000
  
  Publication
- Dependency Networks for Density Estimation, Collaborative Filtering, and Data Visualization
  
  David Heckerman, Max Chickering, Chris Meek, Robert Rounthwaite, Carl Kadie
  
  Proceedings of Sixteenth Conference on Uncertainty in Artificial Intelligence, ® Stanford, CA | January 2000
  
  Publication
- Towards a Better Understanding of the INTERNIST-1 Knowledge Base
  
  David Heckerman, Randolph A. Miller
  
  Proceedings of Medinfo, Washington | October 1986
  
  Publication
- Model-Based Clustering and Visualization of Navigation Patterns on a Web Site
  
  Igor Cadez, David Heckerman, Chris Meek, Padhraic Smyth, Steven White
  
  Data Mining and Knowledge Discovery | October 2003, Vol 7(4): pp. 399-424
  
  Also in KDD 2000
  
  Publication Publication
- Autoregressive Tree Models For Time-Series Analysis
  
  Chris Meek, Max Chickering, David Heckerman
  
  Proceedings of the Second International SIAM Conference on Data Mining | August 2002
  
  Publication Publication
- Central Role of Reverting Mutations in HLA Associations with Human Immunodeficiency Virus Set Point
  
  Philippa C. Matthews, Andrew Prendergast, Alasdair Leslie, Hayley Crawford, Rebecca Payne, Christine Rousseau, Isobella Honeyborne, Jonathan M. Carlson, Carl Kadie, Christian Brander, Karen Bishop, Nonkululeko Mlotshwa, James I. Mullins, Hoosen Coovadia, Thumbi Ndung'u, Bruce D. Walker, David Heckerman, Philip J. Goulder
  
  Journal of Virology | September 2008, Vol 82(17): pp. 8548-8559
  
  Publication Publication
- Combinatorics of The Vaccine Design Problem: Definition and An Algorithm
  
  Darko Kirovski, David Heckerman, Nebojsa Jojic
  
  MSR-TR-2007-148 | November 2007
  
  Publication
- Efficient Approximations for Learning Phylogenetic HMM Models from Data
  
  Vladimir Jojic, Nebojsa Jojic, Chris Meek, Daniel Geiger, Adam Siepel, David Haussler, David Heckerman
  
  MSR-TR-2003-62 | October 2003
  
  Publication
- Computationally Efficient Methods for Selecting Among Mixtures of Graphical Models
  
  Max Chickering, David Heckerman, Chris Meek
  
  Bayesian Statistics 6 | Publié par Oxford University Press | 1999 | Bayesian Statistics 6 edition
  
  Publication Publication
- A Characterization of the Bivariate Normal-Wishart Distribution
  
  Dan Geiger, David Heckerman
  
  MSR-TR-95-53 | November 1995
  
  Publication
- Decision-Theoretic Foundations for Causal Reasoning
  
  David Heckerman, Ross Shachter
  
  MSR-TR-94-11 | March 1994
  
  Publication Publication Publication
- Causal Independence for Probability Assessment and Inference Using Bayesian Networks
  
  John S. Breese, David Heckerman
  
  MSR-TR-94-08 | March 1994
  
  Publication Publication
- Linear mixed model for heritability estimation that explicitly addresses environmental variation
  
  David Heckerman, Deepti Gurdasani, Carl Kadie, Cristina Pomilla, Tommy Carstensen, Hilary Martin, Kenneth Ekoru, Rebecca N. Nsubuga, Gerald Ssenyomo, Anatoli Kamali, Pontiano Kaleebu, Christian Widmer, Manjinder S. Sandhu
  
  Proceedings of the National Academy of Sciences | April 2016
  
  Publication Publication
- An Exhaustive Epistatic SNP Association Analysis on Expanded Wellcome Trust Data
  
  Christoph Lippert, Jennifer Listgarten, Bob Davidson, Jeff Baxter, Hoifung Poon, Carl Kadie, David Heckerman
  
  Scientific Reports | January 2013, Vol 3
  
  Publication
- FaST linear mixed models for genome-wide association studies
  
  Christoph Lippert, Jennifer Listgarten, Ying Liu, Carl Kadie, Bob Davidson, David Heckerman
  
  Nature Methods | October 2011, Vol 8: pp. 833-835
  
  Publication Publication
- The Learning-Curve Sampling Method Applied to Model-Based Clustering
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Journal of Machine Learning Research | February 2001, Vol 2: pp. 397-418
  
  Also appears as Technical Report MSR-TR-01-34, Microsoft Research, February, 2001.
  
  Publication
- Accelerating EM For Large Databases
  
  Bo Thiesson, Chris Meek, David Heckerman
  
  Machine Learning | January 2001, Vol 45: pp. 279-299
  
  Also appears as Technical Report MSR-TR-99-31, Microsoft Research, May, 1999 (Revised February, 2001).
  
  Publication
- Learning Bayesian Networks From Dependency Networks: A Preliminary Study
  
  Geoff Hulten, Max Chickering, David Heckerman
  
  Proceedings of the Ninth International Workshop on Artificial Intelligence and Statistics, ® Key West, FL | January 2001
  
  Publication
- The Learning-Curve Method Applied To Clustering
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Proceedings of Eighth International Workshop on Artificial Intelligence and Statistics, ® Key West, Florida | January 2001
  
  Publication
- Goal-Oriented Clustering
  
  Max Chickering, David Heckerman, Chris Meek, John Platt, Bo Thiesson
  
  MSR-TR-2000-82 | May 2000
  
  Publication
- A Decision-Theoretic Approach to Targeted Advertising
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-17 | February 2000
  
  Proceedings of the International Conference on Functional Programming
  
  Publication
- Fast Learning from Sparse Data
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-15 | August 1999
  
  Proceedings of the Fifth Workshop on Uncertainty in Artificial Intelligence, Windsor, ON
  
  Publication Publication
- Empirical Analysis of Predictive Algorithms for Collaborative Filtering
  
  John S. Breese, David Heckerman, Carl Kadie
  
  MSR-TR-98-12 | May 1998
  
  Publication
- Inductive Learning Algorithms and Representations for Text Categorization
  
  Susan Dumais, John Platt, David Heckerman, Mehran Sahami
  
  7th International Conference on Information and Knowledge Management | January 1998
  
  Publication Publication Projet
- Learning Mixtures of DAG Models
  
  Bo Thiesson, Chris Meek, Max Chickering, David Heckerman
  
  MSR-TR-97-30 | December 1997
  
  Revised May 1998
  
  Publication Publication
- A Comparison of Scientific and Engineering Criteria for Bayesian Model Selection
  
  David Heckerman, Max Chickering
  
  MSR-TR-96-12 | June 1996
  
  Tools and Algorithms for the Construction and Analysis of Systems (TACAS '07)
  
  Publication
- Decision-Theoretic Case-Based Reasoning
  
  John S. Breese, David Heckerman
  
  MSR-TR-95-03 | May 1996
  
  IEEE Transactions on Systems, Man, and Cybernetics
  
  Publication Publication Publication
- On Finding A Cycle Basis With A Shortest Maximal Cycle
  
  Max Chickering, Dan Geiger, David Heckerman
  
  Information Processing Letters | August 1995, Vol 54: pp. 55-58
  
  Publication Publication
- A Bayesian Approach to Learning Causal Networks
  
  David Heckerman
  
  MSR-TR-95-04 | August 1995
  
  Proceedings of the Eleventh Conference on Uncertainty in Artificial Intelligence (UAI1995)
  
  Publication Publication
- Decision-Theoretic Troubleshooting
  
  David Heckerman, John S. Breese, Koos Rommelse
  
  CACM | May 1995
  
  Publication Publication
- Learning Bayesian Networks: The Combination of Knowledge and Statistical Data
  
  David Heckerman, Dan Geiger, Max Chickering
  
  Machine Learning | March 1994, Vol 20(3): pp. 197-243
  
  Publication Publication
- Learning Gaussian Networks
  
  Dan Geiger, David Heckerman
  
  MSR-TR-94-10 | January 1994
  
  Publication
- Inference Algorithms for Similarity Networks
  
  Dan Geiger, David Heckerman
  
  MSR-TR-93-09 | July 1993
  
  Proceedings of the IEEE International Conference on Data Mining (ICDM)
  
  Publication Publication
- Greater power and computational efficiency for kernel-based association testing of sets of genetic variants
  
  Christoph Lippert, Jing Xiang, Danilo Horta, Christian Widmer, Carl Kadie, David Heckerman, Jennifer Listgarten
  
  Bioinformatics | September 2014, pp. btu504
  
  Publication Publication
- Det. (Distance Encoded Tree): A Scalable Visualization Tool for Mapping Multiple Traits to Large Evolutionary Trees
  
  Bongshin Lee, Lev Nachmanson, George Robertson, Jonathan M. Carlson, David Heckerman
  
  MSR-TR-2008-97 | July 2008
  
  Publication
- Large-Sample Learning of Bayesian Networks is NP-Hard
  
  Max Chickering, David Heckerman, Chris Meek
  
  Journal of Machine Learning Research | December 2004, Vol 5: pp. 1287-1330
  
  Publication Publication
- Probabilistic Models for Relational Data
  
  David Heckerman, Chris Meek, Daphne Koller
  
  MSR-TR-2004-30 | March 2004
  
  Publication
- Probabilistic Entity-Relationship Models, PRMs and Plate Models
  
  David Heckerman, Chris Meek, Daphne Koller
  
  Introduction to Statistical Relational Learning | Publié par MIT Press | 2004
  
  Publication
- Model-Based Clustering and Visualization of Navigation Patterns on a Web Site
  
  Igor Cadez, David Heckerman, Chris Meek, Padhraic Smyth, Steven White
  
  Data Mining and Knowledge Discovery | October 2003, Vol 7(4): pp. 399-424
  
  Also in KDD 2000
  
  Publication Publication
- Staged Mixture Modeling and Boosting
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Proceedings of the Eighteenth Conference on Uncertainty in Artificial Intelligence | August 2002
  
  Publication
- CFW: A Collaborative Filtering System Using Posteriors Over Weights of Evidence
  
  Carl Kadie, Chris Meek, David Heckerman
  
  MSR-TR-2002-46 | August 2002
  
  Proceedings of Twenty Fourth Conference on Uncertainty in Artificial Intelligence, Helsinki, Finland, UAI Press
  
  Publication
- Greater power and computational efficiency for kernel-based association testing of sets of genetic variants
  
  Christoph Lippert, Jing Xiang, Danilo Horta, Christian Widmer, Carl Kadie, David Heckerman, Jennifer Listgarten
  
  Bioinformatics | September 2014, pp. btu504
  
  Publication Publication
- Estimating false discovery rates for contingency tables
  
  Jonathan M. Carlson, David Heckerman, Guy Shani
  
  MSR-TR-2009-53 | May 2009
  
  Publication
- Quantifying the Uncertainty in Heritability
  
  Nicholas Furlotte, David Heckerman, Christoph Lippert
  
  MSR-TR-2014-161 | March 2014
  
  Publication Publication Publication
- Learning Bayesian Networks From Dependency Networks: A Preliminary Study
  
  Geoff Hulten, Max Chickering, David Heckerman
  
  Proceedings of the Ninth International Workshop on Artificial Intelligence and Statistics, ® Key West, FL | January 2001
  
  Publication
- Parameter Priors for Directed Acyclic Graphical Models and the Characterization of Several Probability Distributions
  
  Dan Geiger, David Heckerman
  
  MSR-TR-98-67 | January 2001
  
  Publication
- Computationally Efficient Methods For Selecting Among Mixtures Of Graphical Models, With Discussion
  
  Bo Thiesson, Chris Meek, David Maxwell Chickering, David Heckerman
  
  Bayesian Statistics 6: Proceedings of the Sixth Valencia International Meeting | Publié par Oxford University Press | 1999 | Bayesian Statistics 6: Proceedings of the Sixth Valencia International Meeting edition
  
  Editors: Bernardo, J., Berger, J., Dawid, A., and Smith, A.
  
  Publication
- A Tutorial on Learning With Bayesian Networks
  
  David Heckerman
  
  MSR-TR-95-06 | March 1995
  
  Publication
- Genetic Characterization of Human Immunodeficiency Virus type 1 in Elite Controllers: Lack of gross genetic defects or common amino acid changes
  
  Toshiyuki Miura, Mark A. Brockman, Chanson J. Brumme, Zabrina L. Brumme, Jonathan M. Carlson, Florencia Pereyra, Alicja Trocha, Marylyn M. Addo, Brian L. Block, Alissa C. Rothchild, Brett M. Baker, Theresa Flynn, Arne Schneidewind, Bin Li, Yaoyu E. Wang, David Heckerman, Todd M. Allen, Bruce D. Walker
  
  Journal of Virology | January 2008, pp. JVI.00535-8
  
  Publication Publication
- ARMA Time-Series Modeling with Graphical Models
  
  Bo Thiesson, Max Chickering, David Heckerman, Chris Meek
  
  Proceedings of the Twentieth Conference on Uncertainty in Artificial Intelligence | July 2004
  
  Publication Publication
- A Bayesian Approach to Causal Discovery
  
  David Heckerman, Chris Meek, Gregory Cooper
  
  Computation, Causation, and Discovery | Publié par AAAI Press | 2006 | Computation, Causation, and Discovery edition
  
  ISBN: 978-3-540-30609-2
  
  Publication Publication

- The Learning-Curve Sampling Method Applied to Model-Based Clustering
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Journal of Machine Learning Research | February 2001, Vol 2: pp. 397-418
  
  Also appears as Technical Report MSR-TR-01-34, Microsoft Research, February, 2001.
  
  Publication
- Accelerating EM For Large Databases
  
  Bo Thiesson, Chris Meek, David Heckerman
  
  Machine Learning | January 2001, Vol 45: pp. 279-299
  
  Also appears as Technical Report MSR-TR-99-31, Microsoft Research, May, 1999 (Revised February, 2001).
  
  Publication
- On Finding A Cycle Basis With A Shortest Maximal Cycle
  
  Max Chickering, Dan Geiger, David Heckerman
  
  Information Processing Letters | August 1995, Vol 54: pp. 55-58
  
  Publication Publication
- Real-World Applications of Bayesian Networks
  
  David Heckerman, Abe Mamdani, Michael P. Wellman
  
  Communications of the ACM | March 1995, Vol 38(3): pp. 24-26
  
  Publication Publication
- Learning Bayesian Networks: The Combination of Knowledge and Statistical Data
  
  David Heckerman, Dan Geiger, Max Chickering
  
  Machine Learning | March 1994, Vol 20(3): pp. 197-243
  
  Publication Publication
- Toward Normative Expert Systems Part II
  
  David Heckerman, Bharat N. Nathwani
  
  Methods of Information in Medicine | August 1992, Vol 31: pp. 106-116
  
  Publication Publication
- The Certainty-Factor Model
  
  David Heckerman
  
  Encyclopedia of Artificial Intelligence, Second Edition | August 1992, pp. 131-138
  
  Publication
- Toward Normative Expert Systems Part I
  
  David Heckerman, Eric Horvitz, Bharat N. Nathwani
  
  Methods of Information in Medicine | June 1992, Vol 31: pp. 90-105
  
  Publication Publication
- From Certainty Factors to Belief Networks
  
  David Heckerman, Edward H. Shortliffe
  
  Artificial Intelligence in Medicine | February 1992, pp. 35-52
  
  Publication Publication
- Probabilistic Diagnosis Using a Reformulation of the INTERNIST-1/QMR Knowledge Base Part II
  
  Blackford Middleton, Michael Shwe, David Heckerman, Max Henrion, Eric Horvitz, Harold Lehmann, Gregory Cooper
  
  Methods of Information in Medicine | August 1991, Vol 30: pp. 256-267
  
  Publication
- Probabilistic Diagnosis Using a Reformulation of the INTERNIST-1/QMR Knowledge Base Part I
  
  Michael Shwe, Blackford Middleton, David Heckerman, Max Henrion, Eric Horvitz, Harold Lehmann, Gregory Cooper
  
  Methods of Information in Medicine | May 1991, Vol 30: pp. 241-255
  
  Publication
- Probabilistic Similarity Networks
  
  David Heckerman
  
  Networks | August 1990
  
  Publication
- Integrated Expert Systems and Videodisc in Surgical Pathology: An Overview
  
  B. Nathwani, David Heckerman, Eric Horvitz, T. Lincoln
  
  Human Pathology | August 1990, Vol 21: pp. 11-27
  
  Publication
- Thinking Backward for Knowledge Acquisition
  
  Ross D. Shachter, David Heckerman
  
  AI Magazine | August 1987, pp. 55-61
  
  Publication
- Diagnostic Strategies in the Hypothesis-Directed PATHFINDER System
  
  Eric Horvitz, David Heckerman, Bharat N. Nathwani, Lawrence M. Fagan
  
  January 1984, pp. 630-636
  
  Publication
- Pressure release superleak sound modes in He II
  
  David Heckerman, Ralph Rosenbaum, Seth Putterman, Gary A. Williams
  
  Journal of Low Temperature Physics | March 1980, Vol 38(5-6): pp. 629-640
  
  Publication Publication
- Surface tension sound in superfluid helium films adsorbed on alumina powder
  
  Ralph Rosenbaum, G. A. Williams, David Heckerman, J. Marcus, D. Scholler, J. Maynard, I. Rudnick
  
  Journal of Low Temperature Physics | December 1979, Vol 37(5): pp. 663-678
  
  Publication Publication
- Superfluid Two-Phase Sound
  
  Seth Putterman, David Heckerman, Ralph Rosenbaum, Gary Williams
  
  Physical Review Letters | February 1979, Vol 42(9): pp. 580-583
  
  Publication Publication
- Impact of Pre-Adapted HIV Transmission
  
  Jonathan M. Carlson, Victor Y. Du, Nico Pfeifer, Anju Bansal, Vincent T. F. Tan, Karen Power, Chanson J. Brumme, Anat Kreimer, Charles E. DeZiel, Nicolo Fusi, Malinda Schaefer, Mark A. Brockman, Jill Gilmour, Matt A. Price, William Kilembe, Richard Haubrich, Mina John, Simon Mallal, Roger Shapiro, John Frater, P. Richard Harrigan, Thumbi Ndung'u, Susan Allen, David Heckerman, John Sidney, Todd M. Allen, Philip J.R. Goulder, Zabrina L. Brumme, Eric Hunter, Paul A. Goepfert
  
  Nature Medicine | May 2016, Vol 22: pp. 606-613
  
  Bonnie Mathieson Young Investigator Award
  
  Author's Version Publication DOI Github Projet
- Computational and Statistical Issues in Personalized Medicine
  
  Christoph Lippert, David Heckerman
  
  XRDS: Crossroads, The ACM Magazine for Students - Computational Biology | July 2015, Vol 24(4): pp. 24-27
  
  Publication Publication
- Anti-Hepatitis C Virus T-Cell Immunity in the Context of Multiple Exposures to the Virus
  
  Katja Pfafferott, Pooja Deshpande, Elizabeth McKinnon, Shahzma Merani, Andrew Lucas, David Heckerman, Simon Mallal, Mina John, Silvana Gaudieri, Michaela Lucas
  
  June 2015
  
  Publication Publication
- ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
  
  Garbiel R. A. Margarido, David Heckerman
  
  PLoS Comput Biol | April 2015
  
  Publication Publication
- Immune screening identifies novel T cell targets encoded by anti-sense reading frames of HIV-1
  
  Christopher T. Berger, Anuska Llano, Jonathan M. Carlson, Zabrina L. Brumme, Mark A. Brockman, Samandhy Cedeno, P. Richard Harrigan, Daniel E. Kaufmann, David Heckerman, Andreas Meyerhans, Christian Brander
  
  Journal of virology | April 2015, Vol 89: pp. 4015-4019
  
  Publication Publication
- Accurate Liability Estimation Improves Power in Ascertained Case-Control Studies
  
  Omer Weissbrod, Christoph Lippert, Dan Geiger, David Heckerman
  
  Nature Methods | February 2015, Vol 12: pp. 332-334
  
  Publication Publication
- Immune screening identifies novel T cell targets encoded by anti-sense reading frames of HIV-1
  
  Christopher T. Berger, Anuska Llano, Jonathan M. Carlson, Zabrina L. Brumme, Mark A. Brockman, Samandhy Cedeno, P. Richard Harrigan, Daniel E. Kaufmann, David Heckerman, Andreas Meyerhans, Christian Brander
  
  Journal of Virology | January 2015
  
  Publication Publication
- Further Improvements to Linear Mixed Models for Genome-Wide Association Studies
  
  Christian Widmer, Christoph Lippert, Omer Weissbrod, Nicolo Fusi, Carl Kadie, Robert Davidson, Jennifer Listgarten, David Heckerman
  
  October 2014
  
  Publication Publication
- Greater power and computational efficiency for kernel-based association testing of sets of genetic variants
  
  Christoph Lippert, Jing Xiang, Danilo Horta, Christian Widmer, Carl Kadie, David Heckerman, Jennifer Listgarten
  
  Bioinformatics | September 2014, pp. btu504
  
  Publication Publication
- Addendum on the scoring of Gaussian directed acyclic graphical models
  
  Jack Kuipers, Giusi Moffa, David Heckerman
  
  Annal Statistics | August 2014, Vol 42: pp. 1689-1691
  
  Publication
- HIV Control Is Mediated in Part by CD8+ T-Cell Targeting of Specific Epitopes
  
  Florencia Pereyra, David Heckerman, Jonathan M. Carlson, Carl Kadie, Damien Z Soghoian, Daniel Karel, Ariel Goldenthal, Oliver B Davis, Charles E DeZiel, Tienho Lin, Jian Peng, Alicja Piechocka, Mary Carrington, Bruce D Walker
  
  Journal of Virology | August 2014, Vol 88(22): pp. 12937-12948
  
  Publication Publication Publication Projet
- Selection Bias at the Heterosexual HIV-1 Transmission Bottleneck
  
  Jonathan M. Carlson, Malinda Schaefer, Daniela C. Monaco, Rebecca Batorsky, Daniel T. Claiborne, Jessica Prince, Martin J. Deymier, Zachary S. Ende, Nichole R. Klatt, Charles E. DeZiel, Tien-Ho Lin, Jian Peng, Aaron M. Seese, Roger Shapiro, John Frater, Thumbi Ndung'u, Jianming Tang, Paul Goepfert, Jill Gilmour, Matt A. Price, William Kilembe, David Heckerman, Philip J. R. Goulder, Todd M. Allen, Susan Allen, Eric Hunter
  
  Science | July 2014, Vol 345(6193)
  
  Publication Publication Publication Publication Publication Projet
- Variations on Undirected Graphical Models and their Relationships
  
  David Heckerman, Chris Meek, Thomas S. Richardson
  
  Kybernetika | July 2014
  
  Publication Publication
- Eliciting cytotoxic T-lymphocyte responses from synthetic vectors containing one or two epitopes in a C57BL/6 mouse model using peptide-containing biodegradable microspheres and adjuvants
  
  R. M. Rubsamen, C. V. Herst, P. M. Lloyd, David Heckerman
  
  June 2014
  
  Publication Publication
- A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control
  
  Jennifer Listgarten, Christoph Lippert, Nicolo Fusi, David Heckerman, Jonathan M. Carlson
  
  eLife | October 2013
  
  Publication
- Epigenome-wide association studies without the need for cell-type composition
  
  James Zhou, Christoph Lippert, David Heckerman, Martin Aryee, Jennifer Listgarten
  
  Nature Methods | August 2013
  
  Publication Publication
- Increased Sequence Coverage through Combined Targeting of Variant and Conserved Epitopes Correlates with Control of HIV Replication
  
  Justine Sunshine, Moon Kim, Jonathan M. Carlson, David Heckerman, Julie Czartoski, Stephen A. Migueles, Janine Maenza, M. Juliana McElrath, James I. Mullins, Nicole Frahm
  
  Journal of Virology | August 2013, Vol 88(2): pp. 1354-1365
  
  Publication Publication
- Influence of HLA-C Expression Level on HIV Control
  
  Richard Apps, Ying Qi, Jonathan M. Carlson, Haoyan Chen, Xiaojiang Gao, Rasmi Thomas, Yuko Yuki, Greg Q. Del Prete, Philip Goulder, Zabrina L. Brumme, Chanson J. Brumme, Mina John, Simon Mallal, George Nelson, Ronald Bosch, David Heckerman, Judy L. Stein, Kelly A. Soderberg, M. Anthony Moody, Thomas N. Denny, Xue Zeng, Jingyuan Fang, Ashley Moffett, Jeffrey D. Lifson, James J. Goedert, Susan Buchbinder, Gregory D. Kirk, Jacques Fellay, Paul McLaren, Steven G. Deeks, Florencia Pereyra, Bruce Walker, Nelson L. Michael, Amy Weintrob, Steven Wolinsky, Wilson Liao, Mary Carrington
  
  Science | April 2013, Vol 340(6128): pp. 87-91
  
  Publication Publication Projet
- HIV escape mutations occur preferentially at HLA-binding sites of CD8 T-cell epitopes
  
  Corine Bronke, Coral-Ann M. Almeida, Elizabeth McKinnon, Steven G. Roberts, Niamh M. Keane, Abha Chopra, Jonathan M. Carlson, David Heckerman, Simon Mallal, Mina John
  
  AIDS, Basic Science | March 2013, Vol 27(6): pp. 899-905
  
  Publication Publication
- HIV-1 p24gag Derived Conserved Element DNA Vaccine Increases the Breadth of Immune Response in Mice
  
  Viraj Kulkarni, Margherita Rosati, Antonio Valentin, Brunda Ganneru, Ashish K. Singh, Jian Yan, Morgane Rolland, Candido Alicea, Rachel Kelly Beach, Gen-Mu Zhang, Sylvie Le Gall, Kate E. Broderick, Niranjan Y. Sardesai, David Heckerman, Beatriz Mothe, Christian Brander, David B. Weiner, James I. Mullins, George N. Pavlakis, Barbara K. Felber
  
  PLoS ONE | March 2013, pp. e60245
  
  Publication Publication
- High-dimensional immunomonitoring models of HIV-1-specific CD8 T-cell responses accurately identify subjects achieving spontaneous viral control
  
  Zaza M. Ndhlovu, Lori B. Chibnik, Jacqueline Proudfoot, Seanna Vine, Ashley McMullen, Kevin Cesa, Filippos Porichis, R. Brad Jones, Donna Marie Alvino, Meghan G. Hart, Eleni Stampouloglou, Alicja Piechocka-Trocha, Carl Kadie, Florencia Pereyra, David Heckerman, Philip L. De Jager, Bruce D. Walker, Daniel E. Kaufmann
  
  Blood Journal | January 2013, Vol 121(5)
  
  Publication
- An Exhaustive Epistatic SNP Association Analysis on Expanded Wellcome Trust Data
  
  Christoph Lippert, Jennifer Listgarten, Bob Davidson, Jeff Baxter, Hoifung Poon, Carl Kadie, David Heckerman
  
  Scientific Reports | January 2013, Vol 3
  
  Publication
- Frequent and Variable Cytotoxic-T-Lymphocyte Escape-Associated Fitness Costs in the Human Immunodeficiency Virus Type 1 Subtype B Gag Proteins
  
  Christian L Boutwell, Jonathan M. Carlson, Tien-Ho Lin, Aaron Seese, Karen A Power, Jian Peng, Yanhua Tang, Zabrina L Brumme, David Heckerman, Arne Schneidewind, Todd M Allen
  
  January 2013
  
  Publication Publication
- A powerful and efficient set test for genetic markers that handles confounders
  
  Jennifer Listgarten, Christoph Lippert, Carl Kadie, David Heckerman
  
  Bioinformatics | January 2013
  
  Publication
- Correlates of Protective Cellular Immunity Revealed by Analysis of Population-Level Immune Escape Pathways in HIV-1
  
  Jonathan M. Carlson, Chanson J. Brumme, Eric Martin, Jennifer Listgarten, Mark A. Brockman, Anh Q. Le, Celia K. S. Chui, Laura A. Cotton, David J. H. F. Knapp, Sharon A. Riddler, Richard Haubrich, George Nelson, Nico Pfeifer, Charles E. DeZiel, David Heckerman, Richard Apps, Mary Carrington, Simon Mallal, P. Richard Harrigan, Mina John, Zabrina L. Brumme
  
  Journal of Virololgy | December 2012, Vol 86(24): pp. 13202-13216
  
  Publication Publication Projet
- Differential Clade-Specific HLA-B*3501 Association with HIV-1 Disease Outcome Is Linked to Immunogenicity of a Single Gag Epitope
  
  Philippa C. Matthews, Madoka Koyanagi, Henrik N. Kloverpris, Mikkel Harndahl, Anette Stryhn, Tomohiro Akahoshi, Hiroyuki Gatanaga, Shinichi Oka, Claudia Juarez Molina, Humberto Valenzuela Ponce, Santiago Avila Rios, David Cole, Jonathan M. Carlson, Rebecca P. Payne, Anthony Ogwu, Alfred Bere, Thumbi Ndung'u, Kamini Gounder, Fabian Chen, Lynn Riddell, Graz Luzzi, Roger Shaprio, Christian Brander, Bruce Walker, Andrew K. sewell, Gustavo Reyes Teran, David Heckerman, Eric Hunter, Soren Buus, Masafumi Takiguchi, Philip J.R. Goulder
  
  Journal of Virololgy | December 2012, Vol 86(23): pp. 12643-12654
  
  Publication Publication
- Significant Reductions in Gag-Protease-Mediated HIV-1 Replication Capacity during the Course of the Epidemic in Japan
  
  Shigeru Nomura, Noriaki Hosoya, Zabrina L. Brumme, Mark A. Brockman, Tadashi Kikuchi, Michiko Koga, Hitomi Nakamura, Tomohiko Koibuchi, Takeshi Fujii, Jonathan M. Carlson, David Heckerman, Ai Kawana-Tachikawa, Aikichi Iwamoto, Toshiyuki Miura
  
  Journal of Virology | November 2012, Vol 87(3): pp. 1465-1476
  
  Publication Publication
- Role of Transmitted Gag CTL Polymorphisms in Defining Replicative Capacity and Early HIV-1 Pathogenesis
  
  Jessica L. Prince, Daniel T. Claiborne, Jonathan M. Carlson, Malinda Schaefer, Tianwei Yu, Shabir Lahki, Heather A. Prentice, Ling Yue, Sundaram A. Vishwanathan, William Kilembe, Paul Geopfert, Matthew A. Price, Jill Gilmour, Joseph Mulenga, Paul Farmer, Cynthia A. Derdeyn, Jiaming Tang, David Heckerman, Richard A. Kaslow, Susan A. Allen, Eric Hunter
  
  PLoS Pathogens | November 2012, pp. e1003041
  
  Publication Publication
- Co-operative additive effects between HLA alleles in control of HIV-1
  
  Philippa C. Matthews, Jennifer Listgarten, Jonathan M. Carlson, Rebecca Payne, Kuan-Hsiang Gary Huang, John Frater, Dominique Goedhals, Dewald Steyn, Cloete van Vuuren, Paolo Paioni, Pieter Jooste, Anthony Ogwu, Roger Shapiro, Zenele Mncube, Thumbi Ndung'u, Bruce D. Walker, David Heckerman, Philip J. R. Goulder
  
  PLoS ONE | October 2012, pp. e47799
  
  Publication Publication
- Improved Learning in U.S. History and Decision Competence with Decision-Focused Curriculum
  
  David Jacobson, Andrew Parker, Chris Spetzler, Wandi Bruine de Bruin, Keith Hollenbeck, David Heckerman, Baruch Fischhoff
  
  PLoS ONE | September 2012
  
  Publication Publication
- Patterns of methylation heritability in a genome-wide analysis of four brain regions
  
  Gerald Quon, Christoph Lippert, David Heckerman, Jennifer Listgarten
  
  Nucleic Acids Research | August 2012
  
  Publication Publication
- Fine-mapping classical HLA variation associated with durable host control of HIV-1 infection in African Americans
  
  Paul J. McLaren, Stephan Ripke, Kimberly Pelak, Amy C. Weintrob, Nikolaos A. Patsopoulos, Xiaoming Jia, Rachel L. Erlich, Niall J. Lennon, Carl Kadie, David Heckerman, Namrata Gupta, David W. Haas, Steven G. Deeks, Florencia Pereyra, Bruce D. Walker, Paul I. W. de Bakker
  
  Human Molecular Genetics | June 2012, Vol 21(19): pp. 4334-4347
  
  Publication Publication Publication
- Improved linear mixed models for genome-wide association studies
  
  Jennifer Listgarten, Christoph Lippert, Carl Kadie, Robert I. Davidson, Eleazar Eskin, David Heckerman
  
  Nature Methods | May 2012, Vol 9: pp. 3–4
  
  Publication Publication
- Widespread Impact of HLA Restriction on Immune Control and Escape Pathways in HIV-1
  
  Jonathan M. Carlson, Jennifer Listgarten, Nico Pfeifer, Vincent Tan, Carl Kadie, Bruce D. Walker, Thumbi Ndung'u, Roger Shapiro, John Frater, Zabrina L. Brumme, Philip J. R. Goulder, David Heckerman
  
  Journal of Virology | May 2012, Vol 86(9): pp. 5230-5243
  
  Publication Publication Publication Github Projet
- Uncommon Pathways of Immune Escape Attenuate HIV-1 Integrase Replication Capacity
  
  Mark A. Brockman, Denis R. Chopera, Alex Olvera, Chanson J. Brumme, Jennifer Sela, Tristan J. Markle, Eric Martin, Jonathan M. Carlson, Anh Q. Le, Rachel McGovern, Peter K. Cheung, Anthony D. Kelleher, Heiko Jessen, Martin Markowitz, Eric Rosenberg, Nicole Frahm, Jorge Sanchez, Simon Mallal, Mina John, P. Richard Harrigan, David Heckerman, Christian Brander, Bruce D. Walker, Zabrina L. Brumme
  
  Journal of Virology | April 2012
  
  Publication Publication
- Learning Transcriptional Regulatory Relationships Using Sparse Graphical Models
  
  Jonathan M. Carlson, Jennifer Listgarten, Nico Pfeifer, Vincent Tan, Carl Kadie, Bruce D. Walker, Thumbi Ndung'u, Roger Shapiro, John Frater, Zabrina L. Brumme, Philip J. R. Goulder, David Heckerman
  
  February 2012
  
  Publication Publication Publication
- High-avidity, high-IFNÎ³-producing CD8 T-cell responses following immune selection during HIV-1 infection
  
  Niamh M. Keane, Stevens G. Roberts, Coral-Ann M. Almedia, Tanya Krishnan, Abha Chopra, Emma Demaine, Rebecca Laird, Monika Tschochner, Jonathan M. Carlson, Simon Mallal, David Heckerman, Ian James, Mina John
  
  Immunology and Cell Biology | February 2012, Vol 90(2): pp. 224-234
  
  Publication Publication
- CTL Responses of High Functional Avidity and Broad Variant Cross-Reactivity Are Associated with HIV Control
  
  Beatriz Mothe, Anuska Llano, Javier Ibarrondo, Jennifer Zamarreno, Mattia Schiaulini, Cristina Miranda, Marta Ruiz-Riol, Christoph T. Berger, M. Jose Herrero, Eduard Palou, Montse Plana, Morgane Rolland, Ashok Khatri, David Heckerman, Florencia Pereyra, Bruce D. Walker, David Weiner, Roger Paredes, Bonaventura Clotet, Barbara K. Felber, George N. Pavlakis, James I. Mullins, Chirstian Brander
  
  PLoS ONE | January 2012, pp. e29717
  
  Publication Publication
- HIV-specific CD4 T cell responses to different viral proteins have discordant associations with viral load and clinical outcome
  
  Srinika Ranasinghe, Michael Flanders, Sam Cutler, Damien Z. Soghoian, Musie Ghebremicahel, Isaiah Davis, Madelene Lindqvist, Florencia Pereyra, Bruce D. Walker, David Heckerman, Hendrik Streeck
  
  Journal of Virology | October 2011
  
  Publication Publication
- FaST linear mixed models for genome-wide association studies
  
  Christoph Lippert, Jennifer Listgarten, Ying Liu, Carl Kadie, Bob Davidson, David Heckerman
  
  Nature Methods | October 2011, Vol 8: pp. 833-835
  
  Publication Publication
- A Hexanucleotide Repeat Expansion in C9ORF72 Is the Cause of Chromosome 9p21-Linked ALS-FTD
  
  Alan E. Renton, Elisa Majounie, Adrian Waite, Javier Simon-Sanchez, Sara Rollinson, J. Raphael Gibbs, Jennifer C Scymick, Hannu Laaksovirta, John. C. van Swieten, Liisa Myllykangas, Hannu Kalimo, Anders Paetau, Yevgeniya Abramzon, Anne M. Remes, Alice Kaganovich, Sonja W. Scholz, Jamie Duckworth, Jinhui Ding, Daniel W. Harmer, Dena G. Hernandez, Janel O. Johnson, Kin Mok, Mina Ryten, Danyah Trabzuni, Rita J. Guerreiro, Richard W. Orrell, James Neal, Alex Murray, Justin Pearson, Iris E. Jansen, David Sondervan, Harro Seelaar, Derek Blake, Kate Young, Nicola Halliwell, Janis Bennion Callister, Greg Toulson, Anna Richardson, Alex Gerhard, Julie Snowden, David Mann, David Neary, Michael A. Nalls, Terhi Peuralinna, Lilja Jansson, Veli-Matti Isovaiita, Anna-Lotta Kaivorinne, Maarit Holtta-Vuori, Elina Ikonen, Raimo Sulkava, MIchael Benatar, Joanne Wuu, Adriano Chio, Garbiella Restagno, Giuseppe Borghero, Mario Sabatelli, The ITALSGEN Consortium, David Heckerman, Ekaterina ROgaeva, Lorne Zinman, Jeffrey D. Rothstein, MIchael Sendtner, Carsten Drepper, Evan E. Eichler, Can Alkan, Ziedulla Abdullaev, Svetlana D. Pack, Amalia Dutra, Evengenia Pak, John Hardy, Andrew SIngleton, Nigel M. Williams, Peter Heutink, Stuart Pickering-Brown, Huw R. Morris, Pentti J. Tienari, Bryan J. Traynor
  
  Neuron | September 2011, Vol 72(2): pp. 257-268
  
  Publication Publication
- Translation of HLA-HIV Associations to the Cellular Level: HIV Adapts To Inflate CD8 T Cell Responses against Nef and HLA-Adapted Variant Epitopes
  
  Coral-Ann M. Almeida, Corine Bronke, Steven G. Roberts, Elizabeth McKinnon, Niamh M. Keane, Abha Chopra, Carl Kadie, Jonathan M. Carlson, David W. Haas, Sharon A. Riddler, Richard Haubrich, David Heckerman, Simon Mallal , Mina John
  
  The Journal of Immunology | September 2011
  
  Publication
- Definition of the viral targets of protective HIV-1-specific T cell responses
  
  Beatriz Mothe, Anuska Llano, Javier Ibarrondo, Marcus Daniels, Cristina Miranda, Jennifer Zamarreno, Vanessa Bach, Rosario Zuniga, Susana Perez-Alvarez, Chirstoph T. Berger, Maria C. Puertas, Javier Martinez-Picado, Morgane Rolland, Marilu Farfan, James J. Szinger, William H. Hildebrand, Otto O. Yang, Victor Sanchez-Merino, Chanson J. Brumme, Zabrina L. Brumme, David Heckerman, Todd M. Allen, James I. Mullins, Guadalupe Gomez, Philip J. Goulder, Bruce D. Walker, Jose M. Gatell, Bonaventura Clotet, Better T. Korber, Jorge Sanchez, Chirstian Brander
  
  Journal of Translational Medicine | August 2011, Vol 9(208)
  
  Publication Publication
- HIV-1 Adaptation to NK-Cell-Mediated Immune Pressure
  
  Galit Alter, David Heckerman, Arne Schneidewind, Lena Fadda, Carl Kadie, Jonathan M. Carlson, Cesar Oniangue-Ndza, Maureen Martin, Bin Li, Salim I. Khakoo, Mary Carrington, Todd M. Allen, Marcus Altfeld
  
  Nature International weekly journal of science | August 2011, Vol 476: pp. 96-100
  
  Publication Publication Projet
- Conditional Random Fields for Fast, Large-Scale Genome-Wide Association Studies
  
  Jim Huang, Chris Meek, Carl Kadie, David Heckerman
  
  PLoS ONE | July 2011
  
  Publication
- Variable HIV Peptide Stability in Human Cytosol is Critical to Epitope Presentation and Immune Escape
  
  Estibaliz Lazaro, Carl Kadie, Pamela Stamegna, Shao Chong Zhang, Pauline Gourdain, Nicole Y. Lai, Mei Zhang, Sergio A. Martinez, David Heckerman, Sylvie Le Gall
  
  J Clin Invest | June 2011
  
  Publication Publication Publication
- Progression to AIDS in South Africa Is Associated with both Reverting and Compensatory Viral Mutations
  
  Kuan-Hsiang Gary Huang, Dominique Goedhals, Jonathan M. Carlson, Mark A. Brockman, Swati Mishra, Zabrina L. Brumme, Stephen Hickling, Christopher S.W. Tang, Toshiyuki Miura, Chris Seebregts, David Heckerman, Thumbi Ndung'u, Bruce Walker, Paul Klenerman, Dewald Steyn, Philip Goulder, Rodney Phillips, Bloemfotnein-Oxford Collaborative Group, Cloete van Vuuren, John Frater
  
  April 2011
  
  Publication Publication
- HLA-A*7401-Mediated Control of HIV Viremia Is Independent of Its Linkage Disequilibrium with HLA-B*5703
  
  Philippa C. Matthews, Emily Adland, Jennifer Listgarten, Alasdair Leslie, Nompumelelo Mkhwanazi, Jonathan M. Carlson, Mikkel Harndahl, Anette Stryhn, Rebecca P. Payne, Anthony Ogwu, Kuan-Hsiang Gary Huang, John Frater, Paolo Paioni, Henrik Kolverpris, Pieter Jooste, Dominique Goedhals, Cloete van Vuuren, Dewald Steyn, Lynn Riddell, Fabian Chen, Graz Luzzi, Thambiah Balachandran, Thumbi Ndung'u, Soren Buus, Mary Carrington, Roger Shapiro, David Heckerman, Philip J. R. Goulder
  
  The Journal of Immunology | April 2011
  
  Publication
- Increased breadth and depth of cytotoxic T lymphocytes responses against HIV-1-B Nef by inclusion of epitope variant sequences
  
  Morgane Rolland, Nicole Frahm, David C. Nickle, Nebojsa Jojic, Wenjie Deng, Todd M. Allen, Christian Brander, David Heckerman, James I. Mullins
  
  PLoS One | March 2011, Vol 28(6): pp. e17969
  
  Publication Publication
- Influence of Gag-Protease-Mediated Replication Capacity on Disease Progression in Individuals Recently Infected with HIV-1 Subtype C
  
  Jaclyn K. Wright, Vladimir Novitsky, Mark A. Brockman, Zabrina L. Brumme, Chanson J. Brumme, Jonathan M. Carlson, David Heckerman, Bingxia Wang, Elena Losina, Mopo Leshwedi, Mary van der Stok, Lungile Maphumulo, Nompumelelo Mkhwanazi, Fundisiwe Chonco, Philip J. R. Goulder, Max Essex, Bruce D. Walker, Thumbi Ndung'u
  
  February 2011
  
  Publication Publication
- Reduced Replication Capacity of NL4-3 Recombinant Viruses Encoding Reverse Transcriptase Integrase Sequences From HIV-1 Elite Controllers
  
  Zabrina L. Brumme, Chun Li, Toshiyuki Miura, Jennifer Sela, Pamela C. Rosato, Chanson J. Brumme, Tristan J. Markle, Eric Martin, Brian L. Block, Alicja Trocha, Carl Kadie, Todd M. Allen, Florencia Pereyra, David Heckerman, Bruce D. Walker, Mark A. Brockman
  
  J Acquir Immune Defic Syndr. | February 2011
  
  Publication Publication
- The Major Genetic Determinants of HIV-1 Control Affect HLA Class I Peptide Presentation
  
  David Heckerman
  
  Science The International HIV Controllers Study | December 2010, Vol 330(6010): pp. 1551-1557
  
  Publication Publication
- The hypervariable HIV-1 capsid protein residues comprise HLA-driven CD8+ T-cell escape mutations and covarying HLA-independent polymorphisms
  
  Hayley Crawford, Philippa C. Matthews, Malinda Schaefer, Jonathan M. Carlson, Alasdair Leslie, William Kilembe, Susan Allen, Thumbi Ndung'u, David Heckerman, Eric Hunter, Philip J. R. Goulder
  
  Journal of Virology | November 2010
  
  Publication Publication
- Early Selection in Gag by Protective HLA Alleles Contributes to Reduced HIV-1 Replication Capacity That May Be Largely Compensated for in Chronic Infection
  
  Mark A Brockman, Zabrina L Brumme, Chanson J Brumme, Toshiyuki Miura, Jennifer Sela, Pamela C Rosato, Carl Kadie, Jonathan M. Carlson, Tristan J Markle, Hendrik Streeck, Anthony D Kelleher, Martin Markowitz, Heiko Jessen, Eric Rosenberg, Marcus Altfeld, P Richard Harrigan, David Heckerman, Bruce D Walker, Todd M Allen
  
  Journal of Virology | November 2010, Vol 84(22): pp. 11937-11949
  
  Publication Publication
- Chromosome 9p21 in Amyotrophic Lateral Sclerosis in Finland: A Genome-Wide Association Study
  
  Hannu Laaksovirta, Terhi Peuralinna, Jennifer C. Schymick, Sonja W. Scholz, Shaoi-Lin Lai, Liisa Myllykangas, Raimo Sulkava, Lilja Jansson, Dena G. Hernandez, J. Raphael Gibbs, Michael A. Nalls, David Heckerman, Pentti J. Tienari, Bryan J. Traynor
  
  The Lancet Neurology | October 2010, pp. 978-985
  
  Publication
- Gag-Protease-Mediated Replication Capacity in HIV-1 1 Subtype C Chronic Infection: Associations with HLA Type and Clinical Parameters
  
  Jaclyn K. Wright, Zabrina L. Brumme, Jonathan M. Carlson, David Heckerman, Carl Kadie, Chanson J. Brumme, Bingxia Wang, Elena Losina, Toshiyuki Miura, Fundisiwe Chonco, Mary van der Stok, Zenele Mncube, Karen Bishop, Philip J.R. Goulder , Bruce D. Walker, Mark A. Brockman, Thumbi Ndung'u
  
  Journal of Virology | October 2010
  
  Publication Publication Publication
- Amino-Acid Co-Variation in HIV-1 Gag Subtype C: HLA-Mediated Selection Pressure and Compensatory Dynamics
  
  Morgane Rolland, Jonathan M. Carlson, Siriphan Manocheewa, J. Victor Swain, Erinn Lanxon-Cookson, Wenjie Deng, Christine M. Rousseau, Dana N. Raugi, Gerald H. Learn, Brandon S. Maust, Hoosen Coovadia, Thumbi Ndung'u, Philip J. R. Goulder, Bruce D. Walker, Christian Brander, David Heckerman, James I. Mullins
  
  PLoS ONE | September 2010, pp. e12463
  
  Publication Publication
- Correction for Hidden Confounders in the Genetic Analysis of Gene Expression
  
  Jennifer Listgarten, Carl Kadie, Eric E. Schadt, David Heckerman
  
  September 2010
  
  Publication Publication
- Adaptive Interactions between HLA and HIV-1: Highly Divergent Selection Imposed by HLA Class I Molecules with Common Supertype Motifs
  
  Mina John, David Heckerman, Ian James, Lawrence P. Park, Jonathan M. Carlson, Abha Chopra, Silvana Gaudieri, David Nolan, David W. Haas, Sharon A. Riddler, Richard Haubrich, Simon Mallal
  
  The Journal of Immunology | March 2010, Vol 184(8): pp. 4368-4377
  
  Publication
- Beyond Atopy: Multiple Patterns of Sensitization in Relation to Asthma in a Birth Cohort Study
  
  Angela Simpson, Vincent Y. Tan, John Winn, Markus Svensén, Christopher Bishop, David Heckerman, Iain Buchan, Adnan Custovic
  
  American Journal of Respiratory and Critical Care Medicine | February 2010, Vol 181: pp. 1200-1206
  
  Publication Publication Projet
- Additive Contribution of HLA Class I Alleles in the Immune Control of HIV-1 Infection
  
  Alasdair Leslie, Philippa C. Matthews, Jennifer Listgarten, Jonathan M. Carlson, Carl Kadie, Thumbi Ndung'u, Christian Brander, Hoosen Coovadia, Bruce D. Walker, David Heckerman, Philip J. R. Goulder
  
  Journal of Virology | February 2010, Vol 84(19): pp. 9879-9888
  
  Publication Publication
- CD8 T Cell Response and Evolutionary Pressure to HIV-1 Cryptic Epitopes Derived from Antisense Transcription
  
  Anju Bansal, Jonathan M. Carlson, Jiyu Yan, Olusimidele T. Akinsiku, Malinda Schaefer, Steffanie Sabbaj, Anne Bet, David N. Levy, Sonya Heath, Jianming Tang, Richard A Kaslow, Bruce D. Walker, Thumbi Ndung'u, Philip J. Goulder, David Heckerman, Eric Hunter, Paul A. Goepfert
  
  The Journal of Experimental Medicine | January 2010, Vol 207(1): pp. 51
  
  Publication Publication Projet
- Viral adaptation to immune selection pressure by HLA class I-restricted CTL responses targeting epitopes in HIV frameshift sequences
  
  Christopher T. Berger, Jonathan M. Carlson, Chanson J. Brumme, Kari L. Hartman, Zabrina L. Brumme, Leah M. Henry, Pamela C. Rosato, Alicja Piechocka-Trocha, Mark A. Brockman, P. Richard Harrigan, David Heckerman, Daniel E. Kaufmann, Christian Brander
  
  JEM | January 2010
  
  Publication Publication Projet
- Changes in impact of HLA class I allele expression on HIV-1 plasma virus loads at a population level over time
  
  Michiko Koga, Ai Kawana-Tachikawa, David Heckerman, Takashi Odawara, Hitomi Nakamura, Tomohiko Koibuchi, Takeshi Fujii, Toshiyuki Miura, Aikichi Iwamoto
  
  Microbiology and Immunology | January 2010, Vol 54(4): pp. 196-205
  
  Publication Publication
- PhyloDet: A Scalable Visualization Tool for Mapping Multiple Traits to Large Evolutionary Trees
  
  Bongshin Lee, Lev Nachmanson, George Robertson, Jonathan M. Carlson, David Heckerman
  
  Bioinformatics | October 2009, Vol 25(19): pp. 2611-2612
  
  Publication Publication
- HLA-Associated Immune Escape Pathways in HIV-1 Subtype B Gag, Pol and Nef Proteins
  
  Zabrina L. Brumme, Mina John, Jonathan M. Carlson, Chanson J. Brumme, Dennison Chan, Mark A. Brockman, Luke C. Swenson, Iris Tao, Sharon Szeto, Pamela Rosato, Jennifer Sela, Carl Kadie, Nicole Frahm, Christian Brander, David W. Haas, Sharon Riddler, Richard Haubrich, Bruce D. Walker, P. Richard Harrigan, David Heckerman, Simon Mallal
  
  August 2009
  
  Publication
- Unique Features of HLA-mediated HIV Evolution in a Mexican Cohort: A Comparative Study
  
  Santiago Avila-Rios, Christopher E. Ormsby, Jonathan M. Carlson, Humberto Valenzuela-Ponce, Juan Blanco-Heredia, Daniela Garrido-Rodriguez, Claudia Garcia-Morales, David Heckerman, Zabrina L. Brumme, Simon Mallal, Mina John, Enrique Espinosa, Gustavo Reyes-Teran
  
  Retrovirology | August 2009
  
  Publication Publication
- HLA-specific polymorphisms in HIV-1 Gag and their association with viral load in chronic untreated infection
  
  Zabrina L. Brumme, Iris Tao, Sharon Szeto, Chanson J. Brumme, Jonathan M. Carlson, Dennison Chan, Carl Kadie, Nicole Frahm, Christian Brander, Bruce Walker, David Heckerman, P. Richard Harrigan
  
  July 2009
  
  Publication
- Adaptation of HIV-1 to Human Leukocyte Antigen Class I
  
  Yuka Kawashima, Katja Pfafferott, John Frater, Philippa Matthews, Rebecca Payne, Marylyn Addo, Hiroyuki Gatanaga, Mamoru Fujiwara, Atsuko Hachiya, Hirokazu Koizumi, Nozomi Kuse, Shinichi Oka, Anna Duda, Andrew Pendergast, Hayley Crawford, Alasdair Leslie, Zabrina Brumme, Chanson Brumme, Todd Allen, Christian Brander, Richard Kaslow, James Tang, Eric Hunter, Susan Allen, Joseph Mulenga, Songee Branch, Tim Roach, Mina John, Simon Mallal, Anthony Ogwu, Roger Shapiro, Julia G. Prado, Sarah Fidler, Jonathan Weber, Oliver G. Pybus, Paul Klenerman, Thumbi Ndung'u, Rodney Phillips, David Heckerman, P. Richard Harrigan, Bruce D. Walker, Masafumi Takiguchi, Philip Goulder
  
  Nature | April 2009, Vol 458: pp. 641-645
  
  Publication Publication
- Rare HLA Drive Additional HIV Evolution Compared to More Frequent Alleles
  
  Christine M. Rousseau, David W. Lockhart, Jennifer Listgarten, Carl Kadie, Gerald H. Learn, David C. Nickle, David Heckerman, Wenjie Deng, Christian Brander, Thumbi Ndung'u, Hoosen Coovadia, Philip J. R. Goulder, Bette T. Korber, Bruce D. Walker, James I. Mullins
  
  AIDS Research and Human Retroviruses | March 2009
  
  Publication Publication
- HLA-Associated Alterations in Replication Capacity of Chimeric NL4-3 Viruses Carrying gag-protease from Elite Controllers of Human Immunodeficiency Virus Type 1
  
  Toshiyuki Miura, Mark A. Brockman, Zabrina L. Brumme, Chanson J. Brumme, Florencia Pereyra, Alicja Trocha, Brian L. Block, Arne Schneidewind, Todd M. Allen, David Heckerman, Bruce D. Walker
  
  Journal of Virology | January 2009, Vol 83(1): pp. 140-149
  
  Publication Publication
- HLA footprints on HIV-1 are associated with inter-clade polymorphisms and intra-clade phylogenetic clustering
  
  Philippa C Matthews, Alasdair J Leslie, Aris Katzourakis, Hayley Crawford, Rebecca Payne, Andrew Prendergast, Karen Power, Anthony D Kelleher, Paul Klenerman, Jonathan M. Carlson, David Heckerman, Thumbi Ndung'u, Bruce D Walker, Todd M Allen, Oliver G Pybus, Philip J R Goulder
  
  Journal of Virology | January 2009, pp. JVI.02017-08
  
  Publication
- Protective HLA class I Alleles That Restrict Acute-Phase CD8+ T-Cell Responses Are Associated with Viral Escape Mutations Located in Highly Conserved Regions of Human Immunodeficiency Virus Type 1
  
  Yaoyu E. Wang, Bin Li, Jonathan M. Carlson, Hendrik Streeck, Adrianne D. Gladden, Robert Goodman, Arne Schneidewind, Karen A. Power, Ildiko Toth, Nicole Frahm, Galit Alter, Christian Brander, Mary Carrington, Bruce D. Walker, Marcus Altfeld, David Heckerman, Todd M. Allen
  
  Journal of Virology | January 2009, Vol 83(4): pp. 1845-1855
  
  Publication Publication
- Design, Expression, and Processing of Epitomized Hepatitis C Virus-Encoded CTL Epitopes
  
  Daniel Yerly, David Heckerman, Todd Allen, Todd J. Suscovich, Nebojsa Jojic, Carl Kadie, Werner J. Pichler, Andreas Cerny, Christian Brander
  
  The Journal of Immunology | November 2008, Vol 181: pp. 6361-6370
  
  Publication Publication
- Phylogenetic Dependency Networks: Inferring Patterns of CTL Escape and Codon Covariation in HIV-1 Gag
  
  Jonathan M. Carlson, Zabrina L. Brumme, Christine M. Rousseau, Chanson J. Brumme, Philippa Matthews, Carl Kadie, James I. Mullins, Bruce D. Walker, P. Richard Harrigan, Philip J. R. Goulder, David Heckerman
  
  PLoS Computational Biology | November 2008, Vol 4: pp. e1000225
  
  Publication Publication Publication Projet
- In Silico Resolution of Ambiguous HLA Typing Data
  
  Jennifer Listgarten, Zabrina Brumme, Carl Kadie, Gao Xiaojiang, Bruce Walker, Mary Carrington, Phillip Goulder, David Heckerman
  
  October 2008
  
  Publication
- Central Role of Reverting Mutations in HLA Associations with Human Immunodeficiency Virus Set Point
  
  Philippa C. Matthews, Andrew Prendergast, Alasdair Leslie, Hayley Crawford, Rebecca Payne, Christine Rousseau, Isobella Honeyborne, Jonathan M. Carlson, Carl Kadie, Christian Brander, Karen Bishop, Nonkululeko Mlotshwa, James I. Mullins, Hoosen Coovadia, Thumbi Ndung'u, Bruce D. Walker, David Heckerman, Philip J. Goulder
  
  Journal of Virology | September 2008, Vol 82(17): pp. 8548-8559
  
  Publication Publication
- Comparison Of Immunogen Designs That Optimize Peptide Coverage: Reply To Fischer et al.
  
  David C Nickle, Nebojsa Jojic, David Heckerman, Darko Kirovski, Vladimir Jojic, Morgane Rolland, Sergei Kosakovsky Pond, James I Mullins
  
  PLoS Computational Biology | March 2008, pp. e25
  
  Publication Publication
- Efficient Control of Population Structure in Model Organism Association Mapping
  
  Hyun Min Kang, Noah A. Zaitlen, Claire M. Wade, Andrew Kirby, David Heckerman, Mark J. Daly, Eleazar Eskin
  
  Genetics | March 2008, Vol 178(3): pp. 1709-1723
  
  Publication Publication
- Targeting of a CD8 T cell env epitope presented by HLA-B*5802 is associated with markers of HIV disease progression and lack of selection pressure
  
  KC Ngumbela, CL Day, Z Mncube, K Nair, D Ramduth, C Thobakgale, E Moodley, S Reddy, C de Pierres, N Mkhwanazi, K Bishop, M van der Stok, N Ismail, I honeyborne, H Crawford, DG Kavanagh, C Rousseau, D Nickle, J Mullins, David Heckerman, B Korber, H Coovadia, P Kiepiela, PJ Goulder, BD Walker
  
  AIDS Res Hum Retroviruses | January 2008, Vol 24(1): pp. 72-82
  
  Publication Publication
- Broad and Gag-biased HIV-1 epitope repertoires are associated with lower viral loads
  
  Morgane Rolland, David Heckerman, Wenjie Deng, Christine M. Rousseau, Hoosen Coovadia, Karen Bishop, Philip J.R. Goulder, Bruce D. Walker, Chirstian Brander, James I. Mullins
  
  PLoS ONE | January 2008, pp. e1424
  
  Publication Publication
- Transmission of HIV-1 Gag immune escape mutations is associated with reduced viral load in linked recipients
  
  Paul A. Goepfert, Wendy Lumm, Paul Farmer, Philippa Matthews, Andrew Prendergast, Jonathan M. Carlson, Cynthia A. Derdeyn, Jianming Tang, Richard A. Kaslow, Anju Bansal, Karina Yusim, David Heckerman, Joseph Mulenga, Susan Allen, Philip J. R. Goulder, Eric Hunter
  
  Journal of Experimental Medicine | January 2008, Vol 205: pp. 1009-1017
  
  Publication Publication
- HLA Class I-Driven Evolution of Human Immunodeficiency Virus Type 1 Subtype C Proteome: immune Escape and Viral Load
  
  Christine M. Rousseau, Marcus G. Daniels, Jonathan M. Carlson, Carl Kadie, Hayley Crawford, Andrew Prendergast, Philippa Matthews, Rebecca Payne, Morgane Rolland, Dana N. Raugi, Brandon S. Maust, Gerald H. Learn, David C. Nickle, Hoosen Coovadia, Thumbi Ndung'u, Nicole Frahm, Christian Brander, Bruce D. Walker, Philip J. R. Goulder, Tanmoy Bhattacharya, David Heckerman, Bette T. Korber, James I. Mullins
  
  Journal of Virology | January 2008, Vol 82: pp. 6434-6446
  
  Publication
- Marked Epitope- and Allele-Specific Differences in Rates of Mutation in Human Immunodeficiency Type 1 (HIV-1) Gag, Pol, and Nef Cytotoxic T-Lymphocyte Epitopes in Acute/Early HIV-1 Infection
  
  Zabrina L. Brumme, Chanson J. Brumme, Jonathan M. Carlson, Hendrik Streeck, Mina John, Quentin Eichbaum, Brian L. Block, Brett Baker, Carl Kadie, Martin Markowitz, Heiko Jessen, Anthony D. Kelleher, Eric Rosenberg, John Kaldor, Yuko Yuki, Mary Carrington, Todd M. Allen, Simon Mallal, Marcus Altfeld, David Heckerman, Bruce D. Walker
  
  Journal of Virology | January 2008, Vol 82: pp. 9216-9227
  
  Publication Github Projet
- Naturally occurring dominant resistance mutations to hepatitis C virus protease and polymerase inhibitors in treatment-naÃ¯ve patients
  
  Thomas Kuntzen, Joerg Timm, Andrew Berical, Niall Lennon, Aaron M. Berlin, Sarah K. Young, Bongshin Lee, David Heckerman, Jonathan M. Carlson, Laura L. Reyor, Marianna Kleyman, Cory M. McMahon, Christopher Birch, Julian Schulze zur Wiesch, Timothy Ledlie, Michael Koehrsen, Chinnappa Kodira, Andrew D. Roberts, Georg M. Lauer, Hugo R. Rosen, Florian Bihl, Andreas Cerny, Ulrich Spengler, Zhimin Liu, Arthur Y. Kim, Yanming Xing, Arne Schneidewind, Margaret A. Madey, Jaquelyn F. Fleckenstein, Vicki M. Park, James E. Galagan, Chad Nusbaum, Bruce D. Walker, Gerond V. Lake-Bakaar, Eric S. Daar, Ira M. Jacobson, Edward D. Gomperts, Brian R. Edlin, Sharyne M. Donfield, Raymond T. Chung, Andrew H. Talal, Tony Marion, Bruce W. Birren, Matthew R. Henn, Todd M. Allen
  
  Hepatology | January 2008, Vol 48: pp. 1769-1778
  
  Publication
- Genetic Characterization of Human Immunodeficiency Virus type 1 in Elite Controllers: Lack of gross genetic defects or common amino acid changes
  
  Toshiyuki Miura, Mark A. Brockman, Chanson J. Brumme, Zabrina L. Brumme, Jonathan M. Carlson, Florencia Pereyra, Alicja Trocha, Marylyn M. Addo, Brian L. Block, Alissa C. Rothchild, Brett M. Baker, Theresa Flynn, Arne Schneidewind, Bin Li, Yaoyu E. Wang, David Heckerman, Todd M. Allen, Bruce D. Walker
  
  Journal of Virology | January 2008, pp. JVI.00535-8
  
  Publication Publication
- Increased Cytotoxic T-Lymphocyte Epitope Variant Cross-Recognition and Functional Avidity Are Associated with Hepatitis C Virus Clearance
  
  Daniel Yerly, David Heckerman, Todd M. Allen, John V. Chisholm III, Kellie Faircloth, Caitlyn H. Linde, Nicole Frahm, Joerg Timm, Werner J. Pichler, Andreas Cerny, Christian Brander
  
  Journal of Virology | October 2007, Vol 82(6): pp. 3147-3153
  
  Publication Publication
- A Statistical Framework for Modeling HLA-Dependent T Cell Response Data
  
  Jennifer Listgarten, Nicole Frahm, Carl Kadie, Christian Brander, David Heckerman
  
  PLoS Computational Biology | October 2007, Vol 4(10): pp. e188
  
  Publication Publication
- Extensive HLA class I allele promiscuity among viral CTL epitopes
  
  Nicole Frahm, Karina Yusim, Todd J. Suscovich, Sharon Adams, John Sidney, Peter Hraber, Hannah S. Hewitt, Caitlyn H. Linde, Daniel G. Kavanagh, Tonia Woodberry, Leah M. Henry, Kellie Faircloth, Jennifer Listgarten, Carl Kadie, Nebojsa Jojic, Kaori Sango, Nancy V. Brown, Eunice Pae, M. Tauheed Zaman, Florian Bihl, Ashok Khatri, Mina John, Simon Mallal, Francesco M. Marincola, Bruce D. Walker, Alessandro Sette, David Heckerman, Bette T. Korber, Christian Brander
  
  European Journal of Immunology | September 2007, Vol 37(9): pp. 2419-2433
  
  Publication Publication
- Leveraging Hierarchical Population Structure in Discrete Association Studies
  
  Jonathan M. Carlson, Carl Kadie, Simon Mallal, David Heckerman
  
  PLoS One | July 2007, Vol 2: pp. e591
  
  Publication Projet
- Extensive Intrasubtype Recombination in South African Human Immunodeficiency Virus Type 1 Subtype C Infections
  
  Christine M. Rousseau, Gerald H. Learn, Tanmoy Bhattacharya, David C. Nickle, David Heckerman, Senica Chetty, Christian Brander, Philip J. R. Goulder, Bruce D. Walker, Photini Kiepiela, Bette T. Korber, James I. Mullins
  
  Journal of Virology | May 2007
  
  Publication Publication
- Coping with Viral Diversity in HIV Vaccine Design
  
  David C. Nickle, Morgane Rolland, Mark A. Jensen, Sergei L. Kosakovsky Pond, Wenjie Deng, Mark Seligman, David Heckerman, James I. Mullins
  
  PLoS Computational Biology | April 2007, pp. e75
  
  Publication Publication
- Founder Effects in the Assessment of HIV Polymorphisms and HLA Allele Associations
  
  Tanmoy Bhattacharya, Marcus Daniels, David Heckerman, Brian Foley, Nicole Frahm, Carl Kadie, Jonathan M. Carlson, Karina Yusim, Ben McMahon, Brian Gaschen, Simon Mallal, James I. Mullins, David C. Nickle, Joshua Herbeck, Christine Rousseau, Gerald H. Learn, Toshiyuki Miura, Christian Brander, Bruce Walker, Bette Korber
  
  Science | January 2007, Vol 315: pp. 1583-1586
  
  Publication
- CD8+ T-cell responses to different HIV proteins have discordant associations with viral load
  
  Photini Kiepiela, Kholiswa Ngumbela, Christina Thobakgale, Dhanwanthia Ramduth, Isobella Honeyborne, Eshia Moodley, Shabashini Reddy, Chantal de Pierres, Zenele Mncube, Nompumelelo Mkhwanazi, Karen Bishop, Mary van der Stok, Kriebashnie Nair, Nasreen Khan, Hayley Crawford, Rebecca Payne, Alasdair Leslie, Julia Prado, Andrew Pendergast, John Frater, Noel McCarthy, Christian Brander, Gerald H. Learn, David Nickle, Christine Rousseau, Hoosen Coovadia, James I. Mullins, David Heckerman, Bruce D. Walker, Philip Goulder
  
  Nature Medicine | December 2006
  
  Publication
- Learning MHC I – Peptide Binding
  
  Nebojsa Jojic, Manuel Reyes-Gomez, David Heckerman, Carl Kadie, Ora Schueler-Furman
  
  June 2006, Vol 22(14): pp. e227-e235
  
  Publication Publication
- Considering Cost Asymmetry in Learning Classifiers
  
  Francis Bach, David Heckerman, Eric Horvitz
  
  Machine Learning Research | October 2005, Vol 7: pp. 1713-1741
  
  Publication
- Stopping Spam
  
  Joshua Goodman, David Heckerman, Robert Rounthwaite
  
  Scientific American | April 2005, Vol 292: pp. 42-49
  
  Publication Publication
- Large-Sample Learning of Bayesian Networks is NP-Hard
  
  Max Chickering, David Heckerman, Chris Meek
  
  Journal of Machine Learning Research | December 2004, Vol 5: pp. 1287-1330
  
  Publication Publication
- Model-Based Clustering and Visualization of Navigation Patterns on a Web Site
  
  Igor Cadez, David Heckerman, Chris Meek, Padhraic Smyth, Steven White
  
  Data Mining and Knowledge Discovery | October 2003, Vol 7(4): pp. 399-424
  
  Also in KDD 2000
  
  Publication Publication
- An Evaluation of the Diagnostic Accuracy of Pathfinder
  
  David Heckerman, Bharat N. Nathwani
  
  Comput Biomed Res | November 2001, Vol 25(1): pp. 56-74
  
  Publication Publication
- Learning Mixtures Of Smooth, Nonuniform Deformation Models For Probabilistic Image Matching
  
  Nebojsa Jojic, Brendan J. Frey, Patrice Simard, David Heckerman
  
  Proceedings of Eighth International Workshop on Artificial Intelligence and Statistics, Key West, FL | May 2001
  
  Publication
- Learning Bayesian Networks From Dependency Networks: A Preliminary Study
  
  Geoff Hulten, Max Chickering, David Heckerman
  
  Proceedings of the Ninth International Workshop on Artificial Intelligence and Statistics, ® Key West, FL | January 2001
  
  Publication
- The Learning-Curve Method Applied To Clustering
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Proceedings of Eighth International Workshop on Artificial Intelligence and Statistics, ® Key West, Florida | January 2001
  
  Publication
- Dependency Networks for Density Estimation, Collaborative Filtering, and Data Visualization
  
  David Heckerman, Max Chickering, Chris Meek, Robert Rounthwaite, Carl Kadie
  
  Proceedings of Sixteenth Conference on Uncertainty in Artificial Intelligence, ® Stanford, CA | January 2000
  
  Publication
- The Compilation of Decision Models
  
  David Heckerman, John Breese, Eric Horvitz
  
  March 1999
  
  Publication
- The Lumiere Project: Bayesian User Modeling for Inferring the Goals and Needs of Software Users
  
  Eric Horvitz, Jack Breese, David Heckerman, David Hovel, Koos Rommelse
  
  Proceedings of the Fourteenth Conference on Uncertainty in Artificial Intelligence, Madison, WI, July 1998, Morgan Kaufmann: San Francisco. | July 1998
  
  Publication Publication Vidéo
- A Bayesian Approach to Filtering Junk E-Mail
  
  David Heckerman, Eric Horvitz, Mehran Sahami, Susan Dumais
  
  AAAI Workshop on Learning for Text Categorization | July 1998
  
  Publication
- Inductive Learning Algorithms and Representations for Text Categorization
  
  Susan Dumais, John Platt, David Heckerman, Mehran Sahami
  
  7th International Conference on Information and Knowledge Management | January 1998
  
  Publication Publication Projet
- A Bayesian Approach To Learning Bayesian Networks With Local Structure
  
  Max Chickering, David Heckerman, Chris Meek
  
  Proceedings of Thirteenth Conference on Uncertainty in Artificial Intelligence, ® Providence, RI | August 1997
  
  Publication
- Structure and Parameter Learning for Causal Independence and Causal Interaction Models
  
  Chris Meek, David Heckerman
  
  Proceedings of Thirteenth Conference on Uncertainty in Artificial Intelligence, Providence, RI | August 1997
  
  Publication
- A Definition and Graphical Representation for Causality
  
  David Heckerman
  
  Proceedings of Eleventh Conference on Uncertainty in Artificial Intelligence, Montreal, Quebec | May 1995
  
  Publication
- Decision-Theoretic Troubleshooting
  
  David Heckerman, John S. Breese, Koos Rommelse
  
  CACM | May 1995
  
  Publication Publication
- Learning Bayesian Networks: Search Methods and Experimental Results
  
  Max Chickering, Dan Geiger, David Heckerman
  
  Proceedings of the Fifth International Workshop on Artificial Intelligence and Statistics | January 1995
  
  Publication
- An Approximate Nonmyopic Computation for Value of Information
  
  David Heckerman, Eric Horvitz, Blackford Middleton
  
  January 1993
  
  Publication
- Advances in Probabilistic Reasoning
  
  Dan Geiger, David Heckerman
  
  Proceedings of the Seventh Conference on Uncertainty in Artificial Intelligence | July 1991
  
  Publication
- Heuristic Abstraction in the Decision-Theoretic Pathfinder System
  
  Eric Horvitz, David Heckerman, Keung-Chi Ng, Bharat Nathwani
  
  Proceedings of the Symposium on Computers in Medical Care, Washington DC, IEEE Press: Silver Springs MD | November 1989
  
  Publication
- On the Expressiveness of Rule-based Systems for Reasoning with Uncertainty
  
  David Heckerman, Eric Horvitz
  
  AAAI-87 Proceedings | January 1987
  
  Publication
- Towards a Better Understanding of the INTERNIST-1 Knowledge Base
  
  David Heckerman, Randolph A. Miller
  
  Proceedings of Medinfo, Washington | October 1986
  
  Publication
- A Framework for Comparing Alternative Formalisms for Plausible Reasoning
  
  Eric Horvitz, David Heckerman, Curtis P. Langlotz
  
  AAAI-86 Proceedings | January 1986
  
  Publication
- The Inconsistent Use of Measures of Certainty in Artificial Intelligence Research
  
  Eric Horvitz, David Heckerman
  
  Uncertainty in Artificial Intelligence Annual Conference on Uncertainty in Artificial Intelligence (UAI-85) | August 1985
  
  Publication Publication
- Linear mixed model for heritability estimation that explicitly addresses environmental variation
  
  David Heckerman, Deepti Gurdasani, Carl Kadie, Cristina Pomilla, Tommy Carstensen, Hilary Martin, Kenneth Ekoru, Rebecca N. Nsubuga, Gerald Ssenyomo, Anatoli Kamali, Pontiano Kaleebu, Christian Widmer, Manjinder S. Sandhu
  
  Proceedings of the National Academy of Sciences | April 2016
  
  Publication Publication
- Literome: PubMed-scale Genomic Knowledge Base in the Cloud
  
  Hoifung Poon, Chris Quirk, Charlie DeZiel, David Heckerman
  
  Bioinformatics 2014 | May 2014
  
  Publication Publication Projet
- Pearl Causality and the Value of Control
  
  Ross Shachter, David Heckerman
  
  Heuristics, Probability and Causality: A Tribute to Judea Pearl | May 2010
  
  Publication
- Update on the Pathfinder Project
  
  David Heckerman, Eric Horvitz, Bharat Nathwani
  
  Proceedings of the Thirteenth Symposium on Computer Applications in Medical Care | May 2009
  
  Publication
- Human leukocyte antigen-specific polymorphisms in HIV-1 Gag and their association with viral load in chronic untreated infection
  
  Zabrina L Brumme, Iris Tao, Sharon Szeto, Chanson J Brumme, Jonathan M. Carlson, Dennison Chan, Carl Kadie, Nicole Frahm, Christian Brander, Bruce Walker, David Heckerman, P. Richard Harrigan
  
  AIDS | January 2008
  
  Publication Publication
- Reflection and Action Under Scarce Resources: Theoretical Principles and Empirical Study
  
  Eric Horvitz, Gregory Cooper, David Heckerman
  
  November 2007
  
  Publication
- Evidence of Differential HLA Class I-Mediated Viral Evolution in Functional and Accessory/Regulatory Genes of HIV-1
  
  Zabrina L Brumme, Chanson J Brumme, David Heckerman, Bette T Korber, Marcus Daniels, Carl Kadie, Tanmoy Bhattacharya, Celia Chui, James Szinger, Theresa Mo, Robert S Hogg, Julio S. G Montaner, Nicole Frahm, Christian Brander, Bruce D Walker, P. Richard Harrigan, Jonathan M. Carlson
  
  PLoS Pathogens | July 2007
  
  Publication
- Identifying the effects of human immune pressure on the evolution of HIV.
  
  Jonathan M. Carlson, Carl Kadie, David Heckerman
  
  December 2006
  
  Publication
- Using Epitomes To Model Genetic Diversity: Rational Design Of HIV Vaccines
  
  Nebojsa Jojic, Vladimir Jojic, Brendan J. Frey, Chris Meek, David Heckerman
  
  NIPS | May 2005
  
  Publication Publication
- ARMA Time-Series Modeling with Graphical Models
  
  Bo Thiesson, Max Chickering, David Heckerman, Chris Meek
  
  Proceedings of the Twentieth Conference on Uncertainty in Artificial Intelligence | July 2004
  
  Publication Publication
- Autoregressive Tree Models For Time-Series Analysis
  
  Chris Meek, Max Chickering, David Heckerman
  
  Proceedings of the Second International SIAM Conference on Data Mining | August 2002
  
  Publication Publication
- Staged Mixture Modeling and Boosting
  
  Chris Meek, Bo Thiesson, David Heckerman
  
  Proceedings of the Eighteenth Conference on Uncertainty in Artificial Intelligence | August 2002
  
  Publication
- Parameter Priors for Directed Acyclic Graphical Models and the Characterization of Several Probability Distributions
  
  Dan Geiger, David Heckerman
  
  MSR-TR-98-67 | January 2001
  
  Publication
- Dependency Networks for Inference, Collaborative Filtering, and Data Visualization
  
  David Heckerman, Max Chickering, Chris Meek, Robert Rounthwaite, Carl Kadie
  
  MSR-TR-2000-16 | October 2000
  
  Proceedings of the International Conference on Dependable Systems and Networks
  
  Publication
- Targeted Advertising with Inventory Management
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-49 | October 2000
  
  ACM Special Interest Group on E-Commerce (EC00), ® Minneapolis, MN
  
  Publication
- Goal-Oriented Clustering
  
  Max Chickering, David Heckerman, Chris Meek, John Platt, Bo Thiesson
  
  MSR-TR-2000-82 | May 2000
  
  Publication
- Visualization of Navigation Patterns on a Web Site Using Model Based Clustering
  
  Igor Cadez, David Heckerman, Chris Meek, Padhraic Smyth, Steven White
  
  MSR-TR-2000-18 | March 2000
  
  Publication
- A Decision-Theoretic Approach to Targeted Advertising
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-17 | February 2000
  
  Proceedings of the International Conference on Functional Programming
  
  Publication
- Fast Learning from Sparse Data
  
  Max Chickering, David Heckerman
  
  MSR-TR-2000-15 | August 1999
  
  Proceedings of the Fifth Workshop on Uncertainty in Artificial Intelligence, Windsor, ON
  
  Publication Publication
- Stratified Exponential Families: Graphical Models and Model Selection
  
  Dan Geiger, David Heckerman, Henry King, Chris Meek
  
  MSR-TR-98-31 | July 1998
  
  Publication
- Inferring Informational Goals from Free-Text Queries: A Bayesian Approach
  
  David Heckerman, Eric Horvitz
  
  MSR-TR-1998-5 | July 1998
  
  Proceedings of the Fourth Conference on Uncertainty in Artificial Intelligence (UAI1988)
  
  Publication Publication
- Empirical Analysis of Predictive Algorithms for Collaborative Filtering
  
  John S. Breese, David Heckerman, Carl Kadie
  
  MSR-TR-98-12 | May 1998
  
  Publication
- Learning Mixtures of DAG Models
  
  Bo Thiesson, Chris Meek, Max Chickering, David Heckerman
  
  MSR-TR-97-30 | December 1997
  
  Revised May 1998
  
  Publication Publication
- Models and Selection Criteria for Regression and Classification
  
  David Heckerman, Chris Meek
  
  MSR-TR-97-08 | August 1997
  
  Symposium on Discrete Algorithms
  
  Publication
- Embedded Bayesian Network Classifiers
  
  David Heckerman, Chris Meek
  
  MSR-TR-97-06 | March 1997
  
  Publication
- A Comparison of Scientific and Engineering Criteria for Bayesian Model Selection
  
  David Heckerman, Max Chickering
  
  MSR-TR-96-12 | June 1996
  
  Tools and Algorithms for the Construction and Analysis of Systems (TACAS '07)
  
  Publication
- Decision-Theoretic Case-Based Reasoning
  
  John S. Breese, David Heckerman
  
  MSR-TR-95-03 | May 1996
  
  IEEE Transactions on Systems, Man, and Cybernetics
  
  Publication Publication Publication
- Decision-Theoretic Troubleshooting: A Framework for Repair and Experiment
  
  John S. Breese, David Heckerman
  
  MSR-TR-96-06 | March 1996
  
  Publication Publication
- Probabilistic Independence Networks for Hidden Markov Probability Models
  
  Padhraic Smyth, David Heckerman, Michael I. Jordan
  
  MSR-TR-96-03 | January 1996
  
  Publication Publication
- A Characterization of the Bivariate Normal-Wishart Distribution
  
  Dan Geiger, David Heckerman
  
  MSR-TR-95-53 | November 1995
  
  Publication
- Learning Bayesian Networks: A Unification for Discrete and Gaussian Domains
  
  David Heckerman, Dan Geiger
  
  UAI-P-1995-PG-274-284 | August 1995
  
  Robotics Science and System Workshop on Task and Motion Planning
  
  Publication Publication
- A Characterization of the Dirichlet Distribution with Application to Learning Bayesian Networks
  
  Dan Geiger, David Heckerman
  
  UAI-P-1995-PG-196-207 | August 1995
  
  Real-Time Graphics Architectures, Algorithms, and Programming Systems: Project Technical Report
  
  Publication Publication
- A Bayesian Approach to Learning Causal Networks
  
  David Heckerman
  
  MSR-TR-95-04 | August 1995
  
  Proceedings of the Eleventh Conference on Uncertainty in Artificial Intelligence (UAI1995)
  
  Publication Publication
- A Tutorial on Learning With Bayesian Networks
  
  David Heckerman
  
  MSR-TR-95-06 | March 1995
  
  Publication
- A New Look at Causal Independence
  
  David Heckerman, John S. Breese
  
  UAI-P-1994-PG-286-292 | July 1994
  
  Proceedings of the Ninth Conference on Uncertainty in Artificial Intelligence (UAI1993)
  
  Publication Publication
- A Decision-Based View of Causality
  
  David Heckerman, Ross D. Shachter
  
  UAI-P-1994-PG-302-310 | July 1994
  
  Proceedings of the Second Conference on Uncertainty in Artificial Intelligence (UAI1986)
  
  Publication Publication
- Decision-Theoretic Foundations for Causal Reasoning
  
  David Heckerman, Ross Shachter
  
  MSR-TR-94-11 | March 1994
  
  Publication Publication Publication
- Causal Independence for Probability Assessment and Inference Using Bayesian Networks
  
  John S. Breese, David Heckerman
  
  MSR-TR-94-08 | March 1994
  
  Publication Publication
- Learning Gaussian Networks
  
  Dan Geiger, David Heckerman
  
  MSR-TR-94-10 | January 1994
  
  Publication
- Troubleshooting Under Uncertainty
  
  David Heckerman, John S. Breese, Koos Rommelse
  
  MSR-TR-94-07 | January 1994
  
  Publication
- Inference Algorithms for Similarity Networks
  
  Dan Geiger, David Heckerman
  
  MSR-TR-93-09 | July 1993
  
  Proceedings of the IEEE International Conference on Data Mining (ICDM)
  
  Publication Publication
- Diagnosis of Multiple Faults: A Sensitivity Analysis
  
  David Heckerman, Michael Shwe
  
  MSR-TR-93-11 | June 1993
  
  SPIE Astronomy Telescopes and Instruments
  
  Publication Publication
- Efficient Approximations for the Marginal Likelihood of Incomplete Data Given a Bayesian Network
  
  Max Chickering, David Heckerman
  
  MSR-TR-96-08 | May 1993
  
  Publication Publication Publication
- Separable and Transitive Graphoids
  
  Dan Geiger, David Heckerman
  
  UAI-P-1990-PG-538-545 | August 1990
  
  SRC Technical Note 1994-001 (December 1994).
  
  Publication Publication
- A Combination of Cutset Conditioning with Clique-tree Propagation in the Pathfinder System
  
  Jaap Suermondt, Gregory F. Cooper, David Heckerman
  
  UAI-P-1990-PG-273-280 | August 1990
  
  SRI International
  
  Publication Publication
- Similarity Networks for the Construction of Multiple-Fault Belief Networks
  
  David Heckerman
  
  UAI-P-1990-PG-32-39 | July 1990
  
  Stanford University Interactive Workspaces Project Technical Note 2001-1
  
  Publication Publication
- A Tractable Algorithm for Diagnosing Multiple Diseases
  
  David Heckerman
  
  UAI-P-1989-PG-174-181 | July 1990
  
  Secure Internet Programming
  
  Publication Publication
- An Empirical Comparison of Three Inference Methods
  
  David Heckerman
  
  UAI-P-1988-PG-158-169 | August 1988
  
  SIGCOMM 2014
  
  Publication Publication
- A Method for Temporal Probabilistic Reasoning
  
  Gregory F. Cooper, Eric Horvitz, David Heckerman
  
  KSL-88-30 | July 1988
  
  Knowledge Systems Laboratory
  
  Publication
- The Myth of Modularity in Rule-Based Systems for Reasoning with Uncertainty
  
  David Heckerman, Eric Horvitz
  
  UAI-P-1986-PG-115-122 | January 1988
  
  Publication Publication
- A Perspective on Confidence and its use in Focusing Attention During Knowledge Acquisition
  
  David Heckerman, Holly Jimison
  
  UAI-P-1987-PG-123-131 | July 1987
  
  In Proceedings of the Third Workshop on Uncertainty in Artificial Intelligence, Seattle, WA (UAI1987)
  
  Publication Publication
- An Axiomatic Framework for Belief Updates
  
  David Heckerman
  
  UAI-P-1986-PG-123-128 | October 1986
  
  SPIE Astronomy Telescopes and Instruments
  
  Publication Publication
- Probabilistic Interpretations for MYCIN’s Certainty Factors
  
  David Heckerman
  
  UAI-P-1985-PG-9-20 | November 2016
  
  In Proceedings of the Workshop on Uncertainty and Probability in Artificial Intelligence, Los Angeles, CA
  
  Publication
- Quantifying the Uncertainty in Heritability
  
  Nicholas Furlotte, David Heckerman, Christoph Lippert
  
  MSR-TR-2014-161 | March 2014
  
  Publication Publication Publication
- The benefits of selecting phenotype-specific variants for applications of mixed models in genomics
  
  Christoph Lippert, Gerald Quon, Eun Yong Kang, Carl Kadie, Jennifer Listgarten, David Heckerman
  
  MSR-TR-2013-138 | May 2013
  
  Publication
- FaST-LMM-Select for addressing confounding from spatial structure and rare variants
  
  Jennifer Listgarten, Christoph Lippert, David Heckerman
  
  MSR-TR-2013-137 | April 2013
  
  Second International Enterprise Distributed Object Computing Workshop (EDOC )
  
  Publication Publication
- Causal Independence for Knowledge Acquisition and Inference
  
  David Heckerman
  
  MSR-TR-93-10 | March 2013
  
  Publication Publication
- Asymptotic Model Selection for Directed Networks with Hidden Variables
  
  Dan Geiger, David Heckerman, Chris Meek
  
  MSR-TR-96-07 | February 2013
  
  Publication Publication
- An Experimental Comparison of Several Clustering and Initialization Methods
  
  Marina Meila, David Heckerman
  
  MSR-TR-98-06 | January 2013
  
  Publication Publication Publication
- Extraneous markers used for genetic similarity leads to loss of power in GWAS and heritability determination
  
  Christoph Lippert, Gerald Quon, Jennifer Listgarten, David Heckerman
  
  MSR-TR-2012-120 | December 2012
  
  Publication
- Problem Formulation as the Reduction of a Decision Model
  
  David Heckerman, Eric Horvitz
  
  UAI-P-1990-PG-82-89 | May 2009
  
  SRC Technical Note 1998-004 (March 1998). Rejected by Information Processing Letters.
  
  Publication Publication
- Estimating false discovery rates for contingency tables
  
  Jonathan M. Carlson, David Heckerman, Guy Shani
  
  MSR-TR-2009-53 | May 2009
  
  Publication
- Continuous Time Dynamic Topic Models
  
  Chong Wang, David Blei, David Heckerman
  
  UAI-P-2008-PG-579-586 | July 2008
  
  Tech Report 2003 61
  
  Publication Publication
- Det. (Distance Encoded Tree): A Scalable Visualization Tool for Mapping Multiple Traits to Large Evolutionary Trees
  
  Bongshin Lee, Lev Nachmanson, George Robertson, Jonathan M. Carlson, David Heckerman
  
  MSR-TR-2008-97 | July 2008
  
  Publication
- Statistical Resolution of Ambiguous HLA Typing Data
  
  Jennifer Listgarten, Zabrina Brumme, Carl Kadie, Gao Xiaojiang, Bruce Walker, Mary Carrington, Philip Goulder, David Heckerman
  
  MSR-TR-2008-07 | January 2008
  
  Publication
- Combinatorics of The Vaccine Design Problem: Definition and An Algorithm
  
  Darko Kirovski, David Heckerman, Nebojsa Jojic
  
  MSR-TR-2007-148 | November 2007
  
  Publication
- Determining the Number of Non-Spurious Arcs in a Learned DAG Model: Investigation of a Bayesian and a Frequentist Approach
  
  Jennifer Listgarten, David Heckerman
  
  MSR-TR-2007-60 | May 2007
  
  Publication
- Leveraging Information Across HLA Alleles/Supertypes Improves HLA-Specific Epitope Prediction
  
  David Heckerman, Carl Kadie, Jennifer Listgarten
  
  MSR-TR-2005-127 | September 2005
  
  Publication
- Variations on Undirected Graphical Models and their Relationships
  
  David Heckerman, Chris Meek, Thomas Richardson
  
  MSR-TR-2004-94 | September 2004
  
  Publication
- Joint Discovery Of Haplotype Blocks And Complex Trait Associations From SNP Sequences
  
  Nebojsa Jojic, Vladimir Jojic, David Heckerman
  
  UAI-P-2004-PG-286-292 | July 2004
  
  Symposium on Networked Systems Design and Implemenentation (NSDI)
  
  Publication
- Probabilistic Models for Relational Data
  
  David Heckerman, Chris Meek, Daphne Koller
  
  MSR-TR-2004-30 | March 2004
  
  Publication
- A Characterization of the Dirichlet Distribution Through Global and Local Independence
  
  Dan Geiger, David Heckerman
  
  MSR-TR-94-16 | November 2003
  
  Annal Statistics
  
  Publication Publication
- Efficient Approximations for Learning Phylogenetic HMM Models from Data
  
  Vladimir Jojic, Nebojsa Jojic, Chris Meek, Daniel Geiger, Adam Siepel, David Haussler, David Heckerman
  
  MSR-TR-2003-62 | October 2003
  
  Publication
- An MDP-Based Recommender System
  
  Guy Shani, Ronen I. Brafman, David Heckerman
  
  UAI-P-2002-PG-453-460 | August 2002
  
  Proceedings of Twentieth Conference on Uncertainty in Artificial Intelligence, Banff, Canada, UAI Press
  
  Publication Publication Publication
- CFW: A Collaborative Filtering System Using Posteriors Over Weights of Evidence
  
  Carl Kadie, Chris Meek, David Heckerman
  
  MSR-TR-2002-46 | August 2002
  
  Proceedings of Twenty Fourth Conference on Uncertainty in Artificial Intelligence, Helsinki, Finland, UAI Press
  
  Publication
- Probabilistic Similarity Networks
  
  David Heckerman
  
  Published by MIT Press - Cambridge, MA | August 1991
  
  Publication Publication
- The Use of a Heuristic Problem-Solving Hierarchy to Facilitate the Explanation of Hypothesis-Directed Reasoning
  
  Eric Horvitz, David Heckerman, Bharat Nathwani, Lawrence Fagan
  
  January 1986, pp. 27-31
  
  Publication
- Computationally Efficient Methods for Selecting Among Mixtures of Graphical Models
  
  Max Chickering, David Heckerman, Chris Meek
  
  Bayesian Statistics 6 | Publié par Oxford University Press | 1999 | Bayesian Statistics 6 edition
  
  Publication Publication
- Computationally Efficient Methods For Selecting Among Mixtures Of Graphical Models, With Discussion
  
  Bo Thiesson, Chris Meek, David Maxwell Chickering, David Heckerman
  
  Bayesian Statistics 6: Proceedings of the Sixth Valencia International Meeting | Publié par Oxford University Press | 1999 | Bayesian Statistics 6: Proceedings of the Sixth Valencia International Meeting edition
  
  Editors: Bernardo, J., Berger, J., Dawid, A., and Smith, A.
  
  Publication
- A Bayesian Approach to Causal Discovery
  
  David Heckerman, Chris Meek, Gregory Cooper
  
  Computation, Causation, and Discovery | Publié par AAAI Press | 2006 | Computation, Causation, and Discovery edition
  
  ISBN: 978-3-540-30609-2
  
  Publication Publication
- Probabilistic Entity-Relationship Models, PRMs and Plate Models
  
  David Heckerman, Chris Meek, Daphne Koller
  
  Introduction to Statistical Relational Learning | Publié par MIT Press | 2004
  
  Publication