Hybridization-Encoded DNA Tags with Paper-Based Readout for Anti-Forgery Raw Material Tracking
Jiaming Li, Alex Crown, Peter Ney, Sergey Yekhanin, …, Karin Strauss, Ranveer Chandra, Yuan-Jyue Chen
June 2025
Nature Communications, accepted (2025)
Yuan-Jyue Chen
Senior Researcher
Papiers de Collaboration
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Nature Language Model: Deciphering the Language of Nature for Scientific Discovery
Yingce Xia, Peiran Jin, Shufang Xie, Liang He, Chuan Cao, Renqian Luo, Guoqing Liu, Yue Wang, Zequn Liu, Yuan-Jyue Chen, Yuan Chen, Zekun Guo, Yeqi Bai, Pan Deng, Yaosen Min, Zi‐Ang Lu, Hongxia Hao, Han Yang, Jielan Li, Chang Liu, Jia Zhang, Jian-Bo Zhu, Ke-Ming Wu, Wei Zhang, Kaiyuan Gao, Qizhi Pei, Qian Wang, Xixian Liu, Yanting Li, Houtian Zhu, Yeqing Lu, Mingqian Ma, Zun Wang, Tian Xie, Krzysztof Maziarz, Marwin H. S. Segler, Zhao Yang, Zi-wei Chen, Yu Shi, Shuxin Zheng, Lijun Wu, Chen Hu, Peggy Dai, Tiemin Liu, Hai-Long Liu, Tao Qin
March 2025
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HybriDNA: A Hybrid Transformer-Mamba2 Long-Range DNA Language Model
Mingqian Ma, Guoqing Liu, Chuan Cao, Pan Deng, Tri Dao, Albert Gu, Peiran Jin, Zhao Yang, Yingce Xia, Renqian Luo, Pipi Hu, Zun Wang, Yuan-Jyue Chen, Haiguang Liu, Tao Qin
February 2025
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What are the Desired Characteristics of Calibration Sets? Identifying Correlates on Long Form Scientific Summarization
Griffin Adams, Bichlien Nguyen, Jake Smith, Yingce Xia, Shufang Xie, Anna Ostropolets, Budhaditya Deb, Yuan-Jyue Chen, Tristan Naumann, Noémie Elhadad
ACL 2023 | July 2023
-
DNA storage in thermoresponsive microcapsules for repeated random multiplexed data access
Bas W. A. Bögels, Bichlien Nguyen, David Ward, Levena Gascoigne, David P. Schrijver, Anna-Maria Makri Pistikou, Alex Joesaar, Shuo Yang, Ilja K. Voets, Willem J. M. Mulder, Andrew Phillips, Stephen Mann, Georg Seelig, Karin Strauss, Yuan-Jyue Chen, Tom F. A. de Greef
Nature Nanotechnology | May 2023
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A Combinatorial PCR Method for Efficient, Selective Oligo Retrieval from Complex Oligo Pools
Claris Winston, Lee Organick, David Ward, Luis Ceze, Karin Strauss, Yuan-Jyue Chen
ACS Synthetic Biology | February 2022
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Synthetic DNA applications in information technology
Linda C. Meiser, Bichlien Nguyen, Yuan-Jyue Chen, Jeff Nivala, Karin Strauss, Luis Ceze, Robert N. Grass
Nature Communications | January 2022
-
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-
Robust Digital Molecular Design of Binarized Neural Networks
Johannes Linder, Yuan-Jyue Chen, David Wong, Georg Seelig, Luis Ceze, Karin Strauss
Leibniz International Proceedings in Informatics (LIPIcs) | September 2021, Vol 205(DNA 27)
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Molecular-level similarity search brings computing to DNA data storage
Callista Bee, Yuan-Jyue Chen, Melissa Queen, David Ward, Xiaomeng Liu, Lee Organick, Georg Seelig, Karin Strauss, Luis Ceze
Nature Communications | August 2021, Vol 12(4764)
-
A deep learning model for predicting next-generation sequencing depth from DNA sequence
Jinny X. Zhang, Boyan Yordanov, Alexander Gaunt, Michael X. Wang, Peng Dai, Yuan-Jyue Chen, Kerou Zhang, John Z. Fang, Neil Dalchau, Jiaming Li, Andrew Phillips, David Yu Zhang
Nature Communications | July 2021, Vol 12
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Quantifying Molecular Bias in DNA Data Storage
Yuan-Jyue Chen, Christopher N. Takahashi, Lee Organick, Callista Bee, Siena Dumas Ang, Patrick Weiss, Bill Peck, Georg Seelig, Luis Ceze, Karin Strauss
Nature Communications | June 2020, Vol 11(3264)
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Content-Based Similarity Search in Large-Scale DNA Data Storage Systems
Callista Bee, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
May 2020
-
Using Strand Displacing Polymerase To Program Chemical Reaction Networks
Shalin Shah, Jasmine Wee, Tianqi Song, Luis Ceze, Karin Strauss, Yuan-Jyue Chen, John Reif
Journal of the American Chemical Society | May 2020, Vol 142(21): pp. 9587-9593
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Probing the Physical Limits of Reliable DNA Data Retrieval
Lee Organick, Yuan-Jyue Chen, Siena Dumas Ang, Randolph Lopez, Xiaomeng Liu, Karin Strauss, Luis Ceze
Nature Communications | January 2020, Vol 11(616)
-
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DNA Assembly for Nanopore Data Storage Readout
Randolph Lopez, Yuan-Jyue Chen, Siena Dumas Ang, Sergey Yekhanin, Konstantin Makarychev, Miklos Z. Racz, Georg Seelig, Karin Strauss, Luis Ceze
Nature Communications | July 2019, Vol 10:2933
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Nucleic Acid Strand Displacement with Synthetic mRNA Inputs in Living Mammalian Cells
Gourab Chatterjee, Yuan-Jyue Chen, Georg Seelig
ACS Synthetic Biology | November 2018, Vol 7(12): pp. 2737-2741
-
A Content-Addressable DNA Database with Learned Sequence Encodings
Kendall Stewart, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
24th International Conference On DNA Computing and Molecular Programming | October 2018
-
Random Access in Large-Scale DNA Data Storage
Lee Organick, Siena Dumas Ang, Yuan-Jyue Chen, Randolph Lopez, Sergey Yekhanin, Konstantin Makarychev, Miklos Z Racz, Govinda Kamath, Parikshit Gopalan, Bichlien Nguyen, Christopher N Takahashi, Sharon Newman, Hsing-Yeh Parker, Cyrus Rashtchian, Kendall Stewart, Gagan Gupta, Robert Carlson, John Mulligan, Doug Carmean, Georg Seelig, Luis Ceze, Karin Strauss
Nature Biotechnology | March 2018, Vol 36(3)
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Computing in mammalian cells with nucleic acid strand exchange
Benjamin Groves, Yuan-Jyue Chen, Chiara Zurla, Sergii Pochekailov, Jonathan L. Kirschman, Philip J. Santangelo, Georg Seelig
Nature Nanotechnology | December 2015, Vol 11(3): pp. 287-294
-
Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks
Yuan-Jyue Chen, Sundipta D. Rao, Georg Seelig
The Journal of Visualized Experiments | November 2015
-
DNA nanotechnology from the test tube to the cell
Yuan-Jyue Chen, Benjamin Groves, Richard A. Muscat, Georg Seelig
Nature Nanotechnology | September 2015, Vol 10: pp. 748-760
-
-
-
Programmable chemical controllers made from DNA
Yuan-Jyue Chen, Neil Dalchau, Niranjan Srnivas, Andrew Phillips, Luca Cardelli, David Soloveichik, Georg Seelig
Nature Nanotechnology | September 2013, Vol 8: pp. 755-762
-
-
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Hybridization-Encoded DNA Tags with Paper-Based Readout for Anti-Forgery Raw Material Tracking
Jiaming Li, Alex Crown, Peter Ney, Sergey Yekhanin, …, Karin Strauss, Ranveer Chandra, Yuan-Jyue Chen
June 2025
Nature Communications, accepted (2025)
-
Nature Language Model: Deciphering the Language of Nature for Scientific Discovery
Yingce Xia, Peiran Jin, Shufang Xie, Liang He, Chuan Cao, Renqian Luo, Guoqing Liu, Yue Wang, Zequn Liu, Yuan-Jyue Chen, Yuan Chen, Zekun Guo, Yeqi Bai, Pan Deng, Yaosen Min, Zi‐Ang Lu, Hongxia Hao, Han Yang, Jielan Li, Chang Liu, Jia Zhang, Jian-Bo Zhu, Ke-Ming Wu, Wei Zhang, Kaiyuan Gao, Qizhi Pei, Qian Wang, Xixian Liu, Yanting Li, Houtian Zhu, Yeqing Lu, Mingqian Ma, Zun Wang, Tian Xie, Krzysztof Maziarz, Marwin H. S. Segler, Zhao Yang, Zi-wei Chen, Yu Shi, Shuxin Zheng, Lijun Wu, Chen Hu, Peggy Dai, Tiemin Liu, Hai-Long Liu, Tao Qin
March 2025
-
HybriDNA: A Hybrid Transformer-Mamba2 Long-Range DNA Language Model
Mingqian Ma, Guoqing Liu, Chuan Cao, Pan Deng, Tri Dao, Albert Gu, Peiran Jin, Zhao Yang, Yingce Xia, Renqian Luo, Pipi Hu, Zun Wang, Yuan-Jyue Chen, Haiguang Liu, Tao Qin
February 2025
-
Robust Digital Molecular Design of Binarized Neural Networks
Johannes Linder, Yuan-Jyue Chen, David Wong, Georg Seelig, Luis Ceze, Karin Strauss
Leibniz International Proceedings in Informatics (LIPIcs) | September 2021, Vol 205(DNA 27)
-
A deep learning model for predicting next-generation sequencing depth from DNA sequence
Jinny X. Zhang, Boyan Yordanov, Alexander Gaunt, Michael X. Wang, Peng Dai, Yuan-Jyue Chen, Kerou Zhang, John Z. Fang, Neil Dalchau, Jiaming Li, Andrew Phillips, David Yu Zhang
Nature Communications | July 2021, Vol 12
-
-
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What are the Desired Characteristics of Calibration Sets? Identifying Correlates on Long Form Scientific Summarization
Griffin Adams, Bichlien Nguyen, Jake Smith, Yingce Xia, Shufang Xie, Anna Ostropolets, Budhaditya Deb, Yuan-Jyue Chen, Tristan Naumann, Noémie Elhadad
ACL 2023 | July 2023
-
-
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What are the Desired Characteristics of Calibration Sets? Identifying Correlates on Long Form Scientific Summarization
Griffin Adams, Bichlien Nguyen, Jake Smith, Yingce Xia, Shufang Xie, Anna Ostropolets, Budhaditya Deb, Yuan-Jyue Chen, Tristan Naumann, Noémie Elhadad
ACL 2023 | July 2023
-
A Combinatorial PCR Method for Efficient, Selective Oligo Retrieval from Complex Oligo Pools
Claris Winston, Lee Organick, David Ward, Luis Ceze, Karin Strauss, Yuan-Jyue Chen
ACS Synthetic Biology | February 2022
-
Synthetic DNA applications in information technology
Linda C. Meiser, Bichlien Nguyen, Yuan-Jyue Chen, Jeff Nivala, Karin Strauss, Luis Ceze, Robert N. Grass
Nature Communications | January 2022
-
A deep learning model for predicting next-generation sequencing depth from DNA sequence
Jinny X. Zhang, Boyan Yordanov, Alexander Gaunt, Michael X. Wang, Peng Dai, Yuan-Jyue Chen, Kerou Zhang, John Z. Fang, Neil Dalchau, Jiaming Li, Andrew Phillips, David Yu Zhang
Nature Communications | July 2021, Vol 12
-
Quantifying Molecular Bias in DNA Data Storage
Yuan-Jyue Chen, Christopher N. Takahashi, Lee Organick, Callista Bee, Siena Dumas Ang, Patrick Weiss, Bill Peck, Georg Seelig, Luis Ceze, Karin Strauss
Nature Communications | June 2020, Vol 11(3264)
-
Content-Based Similarity Search in Large-Scale DNA Data Storage Systems
Callista Bee, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
May 2020
-
Using Strand Displacing Polymerase To Program Chemical Reaction Networks
Shalin Shah, Jasmine Wee, Tianqi Song, Luis Ceze, Karin Strauss, Yuan-Jyue Chen, John Reif
Journal of the American Chemical Society | May 2020, Vol 142(21): pp. 9587-9593
-
DNA Assembly for Nanopore Data Storage Readout
Randolph Lopez, Yuan-Jyue Chen, Siena Dumas Ang, Sergey Yekhanin, Konstantin Makarychev, Miklos Z. Racz, Georg Seelig, Karin Strauss, Luis Ceze
Nature Communications | July 2019, Vol 10:2933
-
Nucleic Acid Strand Displacement with Synthetic mRNA Inputs in Living Mammalian Cells
Gourab Chatterjee, Yuan-Jyue Chen, Georg Seelig
ACS Synthetic Biology | November 2018, Vol 7(12): pp. 2737-2741
-
Computing in mammalian cells with nucleic acid strand exchange
Benjamin Groves, Yuan-Jyue Chen, Chiara Zurla, Sergii Pochekailov, Jonathan L. Kirschman, Philip J. Santangelo, Georg Seelig
Nature Nanotechnology | December 2015, Vol 11(3): pp. 287-294
-
Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks
Yuan-Jyue Chen, Sundipta D. Rao, Georg Seelig
The Journal of Visualized Experiments | November 2015
-
DNA nanotechnology from the test tube to the cell
Yuan-Jyue Chen, Benjamin Groves, Richard A. Muscat, Georg Seelig
Nature Nanotechnology | September 2015, Vol 10: pp. 748-760
-
-
-
DNA storage in thermoresponsive microcapsules for repeated random multiplexed data access
Bas W. A. Bögels, Bichlien Nguyen, David Ward, Levena Gascoigne, David P. Schrijver, Anna-Maria Makri Pistikou, Alex Joesaar, Shuo Yang, Ilja K. Voets, Willem J. M. Mulder, Andrew Phillips, Stephen Mann, Georg Seelig, Karin Strauss, Yuan-Jyue Chen, Tom F. A. de Greef
Nature Nanotechnology | May 2023
-
Molecular-level similarity search brings computing to DNA data storage
Callista Bee, Yuan-Jyue Chen, Melissa Queen, David Ward, Xiaomeng Liu, Lee Organick, Georg Seelig, Karin Strauss, Luis Ceze
Nature Communications | August 2021, Vol 12(4764)
-
Content-Based Similarity Search in Large-Scale DNA Data Storage Systems
Callista Bee, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
May 2020
-
A Content-Addressable DNA Database with Learned Sequence Encodings
Kendall Stewart, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
24th International Conference On DNA Computing and Molecular Programming | October 2018
-
-
-
DNA storage in thermoresponsive microcapsules for repeated random multiplexed data access
Bas W. A. Bögels, Bichlien Nguyen, David Ward, Levena Gascoigne, David P. Schrijver, Anna-Maria Makri Pistikou, Alex Joesaar, Shuo Yang, Ilja K. Voets, Willem J. M. Mulder, Andrew Phillips, Stephen Mann, Georg Seelig, Karin Strauss, Yuan-Jyue Chen, Tom F. A. de Greef
Nature Nanotechnology | May 2023
-
Synthetic DNA applications in information technology
Linda C. Meiser, Bichlien Nguyen, Yuan-Jyue Chen, Jeff Nivala, Karin Strauss, Luis Ceze, Robert N. Grass
Nature Communications | January 2022
-
-
-
A Combinatorial PCR Method for Efficient, Selective Oligo Retrieval from Complex Oligo Pools
Claris Winston, Lee Organick, David Ward, Luis Ceze, Karin Strauss, Yuan-Jyue Chen
ACS Synthetic Biology | February 2022
-
-
-
A Combinatorial PCR Method for Efficient, Selective Oligo Retrieval from Complex Oligo Pools
Claris Winston, Lee Organick, David Ward, Luis Ceze, Karin Strauss, Yuan-Jyue Chen
ACS Synthetic Biology | February 2022
-
Robust Digital Molecular Design of Binarized Neural Networks
Johannes Linder, Yuan-Jyue Chen, David Wong, Georg Seelig, Luis Ceze, Karin Strauss
Leibniz International Proceedings in Informatics (LIPIcs) | September 2021, Vol 205(DNA 27)
-
Molecular-level similarity search brings computing to DNA data storage
Callista Bee, Yuan-Jyue Chen, Melissa Queen, David Ward, Xiaomeng Liu, Lee Organick, Georg Seelig, Karin Strauss, Luis Ceze
Nature Communications | August 2021, Vol 12(4764)
-
Quantifying Molecular Bias in DNA Data Storage
Yuan-Jyue Chen, Christopher N. Takahashi, Lee Organick, Callista Bee, Siena Dumas Ang, Patrick Weiss, Bill Peck, Georg Seelig, Luis Ceze, Karin Strauss
Nature Communications | June 2020, Vol 11(3264)
-
Content-Based Similarity Search in Large-Scale DNA Data Storage Systems
Callista Bee, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
May 2020
-
Probing the Physical Limits of Reliable DNA Data Retrieval
Lee Organick, Yuan-Jyue Chen, Siena Dumas Ang, Randolph Lopez, Xiaomeng Liu, Karin Strauss, Luis Ceze
Nature Communications | January 2020, Vol 11(616)
-
-
-
Synthetic DNA applications in information technology
Linda C. Meiser, Bichlien Nguyen, Yuan-Jyue Chen, Jeff Nivala, Karin Strauss, Luis Ceze, Robert N. Grass
Nature Communications | January 2022
-
Probing the Physical Limits of Reliable DNA Data Retrieval
Lee Organick, Yuan-Jyue Chen, Siena Dumas Ang, Randolph Lopez, Xiaomeng Liu, Karin Strauss, Luis Ceze
Nature Communications | January 2020, Vol 11(616)
-
-
-
Synthetic DNA applications in information technology
Linda C. Meiser, Bichlien Nguyen, Yuan-Jyue Chen, Jeff Nivala, Karin Strauss, Luis Ceze, Robert N. Grass
Nature Communications | January 2022
-
DNA Assembly for Nanopore Data Storage Readout
Randolph Lopez, Yuan-Jyue Chen, Siena Dumas Ang, Sergey Yekhanin, Konstantin Makarychev, Miklos Z. Racz, Georg Seelig, Karin Strauss, Luis Ceze
Nature Communications | July 2019, Vol 10:2933
-
-
-
Quantifying Molecular Bias in DNA Data Storage
Yuan-Jyue Chen, Christopher N. Takahashi, Lee Organick, Callista Bee, Siena Dumas Ang, Patrick Weiss, Bill Peck, Georg Seelig, Luis Ceze, Karin Strauss
Nature Communications | June 2020, Vol 11(3264)
-
Content-Based Similarity Search in Large-Scale DNA Data Storage Systems
Callista Bee, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
May 2020
-
Probing the Physical Limits of Reliable DNA Data Retrieval
Lee Organick, Yuan-Jyue Chen, Siena Dumas Ang, Randolph Lopez, Xiaomeng Liu, Karin Strauss, Luis Ceze
Nature Communications | January 2020, Vol 11(616)
-
A Content-Addressable DNA Database with Learned Sequence Encodings
Kendall Stewart, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
24th International Conference On DNA Computing and Molecular Programming | October 2018
-
-
-
Random Access in Large-Scale DNA Data Storage
Lee Organick, Siena Dumas Ang, Yuan-Jyue Chen, Randolph Lopez, Sergey Yekhanin, Konstantin Makarychev, Miklos Z Racz, Govinda Kamath, Parikshit Gopalan, Bichlien Nguyen, Christopher N Takahashi, Sharon Newman, Hsing-Yeh Parker, Cyrus Rashtchian, Kendall Stewart, Gagan Gupta, Robert Carlson, John Mulligan, Doug Carmean, Georg Seelig, Luis Ceze, Karin Strauss
Nature Biotechnology | March 2018, Vol 36(3)
-
-
-
Programmable chemical controllers made from DNA
Yuan-Jyue Chen, Neil Dalchau, Niranjan Srnivas, Andrew Phillips, Luca Cardelli, David Soloveichik, Georg Seelig
Nature Nanotechnology | September 2013, Vol 8: pp. 755-762
-
-
-
Hybridization-Encoded DNA Tags with Paper-Based Readout for Anti-Forgery Raw Material Tracking
Jiaming Li, Alex Crown, Peter Ney, Sergey Yekhanin, …, Karin Strauss, Ranveer Chandra, Yuan-Jyue Chen
June 2025
Nature Communications, accepted (2025)
-
-
-
Nature Language Model: Deciphering the Language of Nature for Scientific Discovery
Yingce Xia, Peiran Jin, Shufang Xie, Liang He, Chuan Cao, Renqian Luo, Guoqing Liu, Yue Wang, Zequn Liu, Yuan-Jyue Chen, Yuan Chen, Zekun Guo, Yeqi Bai, Pan Deng, Yaosen Min, Zi‐Ang Lu, Hongxia Hao, Han Yang, Jielan Li, Chang Liu, Jia Zhang, Jian-Bo Zhu, Ke-Ming Wu, Wei Zhang, Kaiyuan Gao, Qizhi Pei, Qian Wang, Xixian Liu, Yanting Li, Houtian Zhu, Yeqing Lu, Mingqian Ma, Zun Wang, Tian Xie, Krzysztof Maziarz, Marwin H. S. Segler, Zhao Yang, Zi-wei Chen, Yu Shi, Shuxin Zheng, Lijun Wu, Chen Hu, Peggy Dai, Tiemin Liu, Hai-Long Liu, Tao Qin
March 2025
-
HybriDNA: A Hybrid Transformer-Mamba2 Long-Range DNA Language Model
Mingqian Ma, Guoqing Liu, Chuan Cao, Pan Deng, Tri Dao, Albert Gu, Peiran Jin, Zhao Yang, Yingce Xia, Renqian Luo, Pipi Hu, Zun Wang, Yuan-Jyue Chen, Haiguang Liu, Tao Qin
February 2025
-
Content-Based Similarity Search in Large-Scale DNA Data Storage Systems
Callista Bee, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
May 2020
-
-
-
What are the Desired Characteristics of Calibration Sets? Identifying Correlates on Long Form Scientific Summarization
Griffin Adams, Bichlien Nguyen, Jake Smith, Yingce Xia, Shufang Xie, Anna Ostropolets, Budhaditya Deb, Yuan-Jyue Chen, Tristan Naumann, Noémie Elhadad
ACL 2023 | July 2023
-
A Content-Addressable DNA Database with Learned Sequence Encodings
Kendall Stewart, Yuan-Jyue Chen, David Ward, Xiaomeng Liu, Georg Seelig, Karin Strauss, Luis Ceze
24th International Conference On DNA Computing and Molecular Programming | October 2018
-
-
-
DNA storage in thermoresponsive microcapsules for repeated random multiplexed data access
Bas W. A. Bögels, Bichlien Nguyen, David Ward, Levena Gascoigne, David P. Schrijver, Anna-Maria Makri Pistikou, Alex Joesaar, Shuo Yang, Ilja K. Voets, Willem J. M. Mulder, Andrew Phillips, Stephen Mann, Georg Seelig, Karin Strauss, Yuan-Jyue Chen, Tom F. A. de Greef
Nature Nanotechnology | May 2023
-
A Combinatorial PCR Method for Efficient, Selective Oligo Retrieval from Complex Oligo Pools
Claris Winston, Lee Organick, David Ward, Luis Ceze, Karin Strauss, Yuan-Jyue Chen
ACS Synthetic Biology | February 2022
-
Synthetic DNA applications in information technology
Linda C. Meiser, Bichlien Nguyen, Yuan-Jyue Chen, Jeff Nivala, Karin Strauss, Luis Ceze, Robert N. Grass
Nature Communications | January 2022
-
Robust Digital Molecular Design of Binarized Neural Networks
Johannes Linder, Yuan-Jyue Chen, David Wong, Georg Seelig, Luis Ceze, Karin Strauss
Leibniz International Proceedings in Informatics (LIPIcs) | September 2021, Vol 205(DNA 27)
-
Molecular-level similarity search brings computing to DNA data storage
Callista Bee, Yuan-Jyue Chen, Melissa Queen, David Ward, Xiaomeng Liu, Lee Organick, Georg Seelig, Karin Strauss, Luis Ceze
Nature Communications | August 2021, Vol 12(4764)
-
A deep learning model for predicting next-generation sequencing depth from DNA sequence
Jinny X. Zhang, Boyan Yordanov, Alexander Gaunt, Michael X. Wang, Peng Dai, Yuan-Jyue Chen, Kerou Zhang, John Z. Fang, Neil Dalchau, Jiaming Li, Andrew Phillips, David Yu Zhang
Nature Communications | July 2021, Vol 12
-
Quantifying Molecular Bias in DNA Data Storage
Yuan-Jyue Chen, Christopher N. Takahashi, Lee Organick, Callista Bee, Siena Dumas Ang, Patrick Weiss, Bill Peck, Georg Seelig, Luis Ceze, Karin Strauss
Nature Communications | June 2020, Vol 11(3264)
-
Using Strand Displacing Polymerase To Program Chemical Reaction Networks
Shalin Shah, Jasmine Wee, Tianqi Song, Luis Ceze, Karin Strauss, Yuan-Jyue Chen, John Reif
Journal of the American Chemical Society | May 2020, Vol 142(21): pp. 9587-9593
-
Probing the Physical Limits of Reliable DNA Data Retrieval
Lee Organick, Yuan-Jyue Chen, Siena Dumas Ang, Randolph Lopez, Xiaomeng Liu, Karin Strauss, Luis Ceze
Nature Communications | January 2020, Vol 11(616)
-
DNA Assembly for Nanopore Data Storage Readout
Randolph Lopez, Yuan-Jyue Chen, Siena Dumas Ang, Sergey Yekhanin, Konstantin Makarychev, Miklos Z. Racz, Georg Seelig, Karin Strauss, Luis Ceze
Nature Communications | July 2019, Vol 10:2933
-
Nucleic Acid Strand Displacement with Synthetic mRNA Inputs in Living Mammalian Cells
Gourab Chatterjee, Yuan-Jyue Chen, Georg Seelig
ACS Synthetic Biology | November 2018, Vol 7(12): pp. 2737-2741
-
Random Access in Large-Scale DNA Data Storage
Lee Organick, Siena Dumas Ang, Yuan-Jyue Chen, Randolph Lopez, Sergey Yekhanin, Konstantin Makarychev, Miklos Z Racz, Govinda Kamath, Parikshit Gopalan, Bichlien Nguyen, Christopher N Takahashi, Sharon Newman, Hsing-Yeh Parker, Cyrus Rashtchian, Kendall Stewart, Gagan Gupta, Robert Carlson, John Mulligan, Doug Carmean, Georg Seelig, Luis Ceze, Karin Strauss
Nature Biotechnology | March 2018, Vol 36(3)
-
Computing in mammalian cells with nucleic acid strand exchange
Benjamin Groves, Yuan-Jyue Chen, Chiara Zurla, Sergii Pochekailov, Jonathan L. Kirschman, Philip J. Santangelo, Georg Seelig
Nature Nanotechnology | December 2015, Vol 11(3): pp. 287-294
-
Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks
Yuan-Jyue Chen, Sundipta D. Rao, Georg Seelig
The Journal of Visualized Experiments | November 2015
-
DNA nanotechnology from the test tube to the cell
Yuan-Jyue Chen, Benjamin Groves, Richard A. Muscat, Georg Seelig
Nature Nanotechnology | September 2015, Vol 10: pp. 748-760
-
Programmable chemical controllers made from DNA
Yuan-Jyue Chen, Neil Dalchau, Niranjan Srnivas, Andrew Phillips, Luca Cardelli, David Soloveichik, Georg Seelig
Nature Nanotechnology | September 2013, Vol 8: pp. 755-762
-