DNA Storage

Evaluating the risk of data loss due to particle radiation damage in a DNA data storage system

Christopher N. Takahashi, David P. Ward, Carlo Cazzaniga, Christopher D. Frost, Paolo Rech, Kumkum Ganguly, Sean Blanchard, Steve Wender, Bichlien Nguyen, Jake Smith

Nature Communications | September 2024, Vol 15: pp. 8067

DOI Publication Publication

The DNA Data Storage Model

Dave Landsman, Karin Strauss

IEEE Computer | June 2023, Vol 56(7): pp. 78-85

Publication

Spatially Selective Electrochemical Cleavage of a Polymerase-Nucleotide Conjugate

Jake Smith, Bichlien Nguyen, Rob Carlson, Jeffrey G. Bertram, Sebastian Palluk, Daniel H. Arlow, Karin Strauss

ACS Synthetic Biology | May 2023

Publication

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

Publication

Information decay and enzymatic information recovery for DNA data storage

Linda C. Meiser, Andreas L. Gimpel, Tejas Deshpande, Gabriela Libort, Weida D. Chen, Reinhard Heckel, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Communications Biology | October 2022

Publication

Preserving DNA in Biodegradable Organosilica Encapsulates

Julian Koch, Ann-Christin Kerl, Natascha Schawalder, Anne M. Luescher, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Langmuir | September 2022

Publication

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

Publication

Anhydrous calcium phosphate crystals stabilize DNA for dry storage

Philipp L. Antkowiak , Julian Koch, Przemyslaw Rzepka, Bichlien Nguyen, Karin Strauss, Wendelin Jan Stark, Robert N. Grass

Chemical Communications | February 2022

Publication

Scaling DNA data storage with nanoscale electrode wells

Bichlien Nguyen, Christopher Takahashi, Gagan Gupta, Jake Smith, Richard Rouse, Paul Berndt, Sergey Yekhanin, David Ward, Siena Ang, Patrick Garvan, Hsing-Yeh Parker, Rob Carlson, Douglas Carmean, Luis Ceze, Karin Strauss

Science Advances | November 2021

Publication

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)

Publication DOI

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)

DOI Publication

Batch optimization for DNA synthesis

Konstantin Makarychev, Miklos Racz, Cyrus Rashtchian, Sergey Yekhanin

International Symposium on Information Theory (ISIT) | July 2021

Publication

Trellis BMA: coded trace reconstruction on IDS channels for DNA storage

Sundara Rajan Srinivasavaradhan, Sivakanth Gopi, Henry Pfister, Sergey Yekhanin

International Symposium on Information Theory (ISIT) | July 2021

Publication Github

An Empirical Comparison of Preservation Methods for Synthetic DNA Data Storage

Lee Organick, Bichlien Nguyen, Rachel McAmis, Weida D. Chen, A. Xavier Kohll, Siena Dumas Ang, Robert Grass, Luis Ceze, Karin Strauss

Small Methods | January 2021

Publication

Rapid and robust assembly and decoding of molecular tags with DNA-based nanopore signatures

Kathryn Doroschak, Karen Zhang, Melissa Queen, Aishwarya Mandyam, Karin Strauss, Luis Ceze, Jeff Nivalla

Nature Communications | November 2020, Vol 11(5454)

DOI Publication

Architecting Datacenters for Sustainability: Greener Data Storage using Synthetic DNA

Bichlien Nguyen, Julie Sinistore, Jake Smith, Praneet S. Arshi, Lauren M. Johnson, Tim Kidman, T.J. diCaprio, Doug Carmean, Karin Strauss

Electronics Goes Green 2020 | September 2020

Publication

PurpleDrop: A Digital Microfluidics-based Platform for Hybrid Molecular-Electronics Applications

Ashley Stephenson, Max Willsey, Jeff McBride, Sharon Newman, Bichlien Nguyen, Christopher N Takahashi, Karin Strauss, Luis Ceze

IEEE Micro | September 2020, Vol 40(5): pp. 76-86

Publication DOI

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)

Publication DOI PDF

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

Author's Version DOI PDF

Stabilizing Synthetic DNA for Long-term Data Storage with Earth Alkaline Salts

A. Xavier Kohll , Philipp L. Antkowiak, Weida D. Chen , Bichlien Nguyen, Wendelin J. Stark , Luis Ceze, Karin Strauss, Robert N. Grass

Chemical Communications | February 2020

Publication

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)

PDF Publication

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

PDF DOI

Combining Data Longevity with High Storage Capacity—Layer‐by‐Layer DNA Encapsulated in Magnetic Nanoparticles

Weida D. Chen, A. Xavier Kohll, Bichlien Nguyen, Julian Koch, Reinhard Heckel, Wendelin J. Stark, Luis Ceze, Karin Strauss, Robert N. Grass

Advanced Functional Materials | May 2019

Publication

Molecular Digital Data Storage using DNA

Luis Ceze, Jeff Nivala, Karin Strauss

Nature Reviews Genetics | May 2019

Publication Video

Puddle: A Dynamic, Error-Correcting, Full-Stack Microfluidics Platform

Max Willsey, Ashley Stephenson, Chris Takahashi, Pranav Vaid, Bichlien Nguyen, Michal Piszczek, Christine Betts, Sharon Newman, Sarang Joshi, Karin Strauss, Luis Ceze

ASPLOS ’19 | April 2019

PDF

High Density DNA Data Storage Library via Dehydration with Digital Microfluidic Retrieval

Sharon Newman, Ashley Stephenson, Max Willsey, Bichlien Nguyen, Christopher N. Takahashi, Karin Strauss, Luis Ceze

Nature Communications | April 2019, Vol 9

(2019)10:1706

Publication

Demonstration of End-to-End Automation of DNA Data Storage

Christopher N. Takahashi, Bichlien Nguyen, Karin Strauss, Luis Ceze

Nature Scientific Reports | March 2019, Vol 9

Article number: 4998 (2019)

Publication Video

DNA Data Storage and Hybrid Molecular–Electronic Computing

Doug Carmean, Luis Ceze, Georg Seelig, Kendall Stewart, Karin Strauss, Max Willsey

Proceedings of the IEEE | December 2018, Vol 107(1)

Publication

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

Video

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)

Publication

Scaling up DNA data storage and random access retrieval

Doug Carmean, Luis Ceze, Karin Strauss, Siena Dumas Ang, Robert Carlson, Yuan-Jyue Chen, Parikshit Gopalan, Gagan Gupta, Govinda Kamath, Randolph Lopez, Konstantin Makarychev, John Mulligan, Sharon Newman, Bichlien Nguyen, Lee Organick, Hsing-Yeh Parker, Miklos Z. Racz, Cyrus Rashtchian, Georg Seelig, Kendall Stewart, Christopher Takahashi, Sergey Yekhanin

Nature Biotechnology | March 2018, Vol 36: pp. 242-248

Publication Publication

Clustering Billions of Reads for DNA Data Storage

Cyrus Rashtchian, Konstantin Makarychev, Miklos Racz, Siena Ang, Djordje Jevdjic, Sergey Yekhanin, Luis Ceze, Karin Strauss

Advances in Neural Information Processing Systems 30 | December 2017

Publication

A DNA-based Archival Storage System

James Bornholt, Randolph Lopez, Doug Carmean, Luis Ceze, Georg Seelig, Karin Strauss

ASPLOS 2016 (International Conference on Architectural Support for Programming Languages and Operating Systems) – to appear | April 2016

Publication

Evaluating the risk of data loss due to particle radiation damage in a DNA data storage system

Christopher N. Takahashi, David P. Ward, Carlo Cazzaniga, Christopher D. Frost, Paolo Rech, Kumkum Ganguly, Sean Blanchard, Steve Wender, Bichlien Nguyen, Jake Smith

Nature Communications | September 2024, Vol 15: pp. 8067

DOI Publication Publication

Spatially Selective Electrochemical Cleavage of a Polymerase-Nucleotide Conjugate

Jake Smith, Bichlien Nguyen, Rob Carlson, Jeffrey G. Bertram, Sebastian Palluk, Daniel H. Arlow, Karin Strauss

ACS Synthetic Biology | May 2023

Publication

Scaling DNA data storage with nanoscale electrode wells

Bichlien Nguyen, Christopher Takahashi, Gagan Gupta, Jake Smith, Richard Rouse, Paul Berndt, Sergey Yekhanin, David Ward, Siena Ang, Patrick Garvan, Hsing-Yeh Parker, Rob Carlson, Douglas Carmean, Luis Ceze, Karin Strauss

Science Advances | November 2021

Publication

An Empirical Comparison of Preservation Methods for Synthetic DNA Data Storage

Lee Organick, Bichlien Nguyen, Rachel McAmis, Weida D. Chen, A. Xavier Kohll, Siena Dumas Ang, Robert Grass, Luis Ceze, Karin Strauss

Small Methods | January 2021

Publication

Architecting Datacenters for Sustainability: Greener Data Storage using Synthetic DNA

Bichlien Nguyen, Julie Sinistore, Jake Smith, Praneet S. Arshi, Lauren M. Johnson, Tim Kidman, T.J. diCaprio, Doug Carmean, Karin Strauss

Electronics Goes Green 2020 | September 2020

Publication

PurpleDrop: A Digital Microfluidics-based Platform for Hybrid Molecular-Electronics Applications

Ashley Stephenson, Max Willsey, Jeff McBride, Sharon Newman, Bichlien Nguyen, Christopher N Takahashi, Karin Strauss, Luis Ceze

IEEE Micro | September 2020, Vol 40(5): pp. 76-86

Publication DOI

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)

Publication DOI PDF

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

Author's Version DOI PDF

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)

PDF Publication

Combining Data Longevity with High Storage Capacity—Layer‐by‐Layer DNA Encapsulated in Magnetic Nanoparticles

Weida D. Chen, A. Xavier Kohll, Bichlien Nguyen, Julian Koch, Reinhard Heckel, Wendelin J. Stark, Luis Ceze, Karin Strauss, Robert N. Grass

Advanced Functional Materials | May 2019

Publication

Molecular Digital Data Storage using DNA

Luis Ceze, Jeff Nivala, Karin Strauss

Nature Reviews Genetics | May 2019

Publication Video

Puddle: A Dynamic, Error-Correcting, Full-Stack Microfluidics Platform

Max Willsey, Ashley Stephenson, Chris Takahashi, Pranav Vaid, Bichlien Nguyen, Michal Piszczek, Christine Betts, Sharon Newman, Sarang Joshi, Karin Strauss, Luis Ceze

ASPLOS ’19 | April 2019

PDF

High Density DNA Data Storage Library via Dehydration with Digital Microfluidic Retrieval

Sharon Newman, Ashley Stephenson, Max Willsey, Bichlien Nguyen, Christopher N. Takahashi, Karin Strauss, Luis Ceze

Nature Communications | April 2019, Vol 9

(2019)10:1706

Publication

Demonstration of End-to-End Automation of DNA Data Storage

Christopher N. Takahashi, Bichlien Nguyen, Karin Strauss, Luis Ceze

Nature Scientific Reports | March 2019, Vol 9

Article number: 4998 (2019)

Publication Video

DNA Data Storage and Hybrid Molecular–Electronic Computing

Doug Carmean, Luis Ceze, Georg Seelig, Kendall Stewart, Karin Strauss, Max Willsey

Proceedings of the IEEE | December 2018, Vol 107(1)

Publication

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

Video

Evaluating the risk of data loss due to particle radiation damage in a DNA data storage system

Christopher N. Takahashi, David P. Ward, Carlo Cazzaniga, Christopher D. Frost, Paolo Rech, Kumkum Ganguly, Sean Blanchard, Steve Wender, Bichlien Nguyen, Jake Smith

Nature Communications | September 2024, Vol 15: pp. 8067

DOI Publication Publication

Spatially Selective Electrochemical Cleavage of a Polymerase-Nucleotide Conjugate

Jake Smith, Bichlien Nguyen, Rob Carlson, Jeffrey G. Bertram, Sebastian Palluk, Daniel H. Arlow, Karin Strauss

ACS Synthetic Biology | May 2023

Publication

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

Publication

Information decay and enzymatic information recovery for DNA data storage

Linda C. Meiser, Andreas L. Gimpel, Tejas Deshpande, Gabriela Libort, Weida D. Chen, Reinhard Heckel, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Communications Biology | October 2022

Publication

Preserving DNA in Biodegradable Organosilica Encapsulates

Julian Koch, Ann-Christin Kerl, Natascha Schawalder, Anne M. Luescher, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Langmuir | September 2022

Publication

Anhydrous calcium phosphate crystals stabilize DNA for dry storage

Philipp L. Antkowiak , Julian Koch, Przemyslaw Rzepka, Bichlien Nguyen, Karin Strauss, Wendelin Jan Stark, Robert N. Grass

Chemical Communications | February 2022

Publication

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)

DOI Publication

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

Author's Version DOI PDF

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

Video

Evaluating the risk of data loss due to particle radiation damage in a DNA data storage system

Christopher N. Takahashi, David P. Ward, Carlo Cazzaniga, Christopher D. Frost, Paolo Rech, Kumkum Ganguly, Sean Blanchard, Steve Wender, Bichlien Nguyen, Jake Smith

Nature Communications | September 2024, Vol 15: pp. 8067

DOI Publication Publication

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

Publication

Information decay and enzymatic information recovery for DNA data storage

Linda C. Meiser, Andreas L. Gimpel, Tejas Deshpande, Gabriela Libort, Weida D. Chen, Reinhard Heckel, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Communications Biology | October 2022

Publication

Preserving DNA in Biodegradable Organosilica Encapsulates

Julian Koch, Ann-Christin Kerl, Natascha Schawalder, Anne M. Luescher, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Langmuir | September 2022

Publication

Anhydrous calcium phosphate crystals stabilize DNA for dry storage

Philipp L. Antkowiak , Julian Koch, Przemyslaw Rzepka, Bichlien Nguyen, Karin Strauss, Wendelin Jan Stark, Robert N. Grass

Chemical Communications | February 2022

Publication

Scaling DNA data storage with nanoscale electrode wells

Bichlien Nguyen, Christopher Takahashi, Gagan Gupta, Jake Smith, Richard Rouse, Paul Berndt, Sergey Yekhanin, David Ward, Siena Ang, Patrick Garvan, Hsing-Yeh Parker, Rob Carlson, Douglas Carmean, Luis Ceze, Karin Strauss

Science Advances | November 2021

Publication

The DNA Data Storage Model

Dave Landsman, Karin Strauss

IEEE Computer | June 2023, Vol 56(7): pp. 78-85

Publication

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

Publication

Scaling DNA data storage with nanoscale electrode wells

Bichlien Nguyen, Christopher Takahashi, Gagan Gupta, Jake Smith, Richard Rouse, Paul Berndt, Sergey Yekhanin, David Ward, Siena Ang, Patrick Garvan, Hsing-Yeh Parker, Rob Carlson, Douglas Carmean, Luis Ceze, Karin Strauss

Science Advances | November 2021

Publication

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)

Publication DOI

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)

DOI Publication

An Empirical Comparison of Preservation Methods for Synthetic DNA Data Storage

Lee Organick, Bichlien Nguyen, Rachel McAmis, Weida D. Chen, A. Xavier Kohll, Siena Dumas Ang, Robert Grass, Luis Ceze, Karin Strauss

Small Methods | January 2021

Publication

Rapid and robust assembly and decoding of molecular tags with DNA-based nanopore signatures

Kathryn Doroschak, Karen Zhang, Melissa Queen, Aishwarya Mandyam, Karin Strauss, Luis Ceze, Jeff Nivalla

Nature Communications | November 2020, Vol 11(5454)

DOI Publication

Architecting Datacenters for Sustainability: Greener Data Storage using Synthetic DNA

Bichlien Nguyen, Julie Sinistore, Jake Smith, Praneet S. Arshi, Lauren M. Johnson, Tim Kidman, T.J. diCaprio, Doug Carmean, Karin Strauss

Electronics Goes Green 2020 | September 2020

Publication

PurpleDrop: A Digital Microfluidics-based Platform for Hybrid Molecular-Electronics Applications

Ashley Stephenson, Max Willsey, Jeff McBride, Sharon Newman, Bichlien Nguyen, Christopher N Takahashi, Karin Strauss, Luis Ceze

IEEE Micro | September 2020, Vol 40(5): pp. 76-86

Publication DOI

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)

Publication DOI PDF

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

Author's Version DOI PDF

Stabilizing Synthetic DNA for Long-term Data Storage with Earth Alkaline Salts

A. Xavier Kohll , Philipp L. Antkowiak, Weida D. Chen , Bichlien Nguyen, Wendelin J. Stark , Luis Ceze, Karin Strauss, Robert N. Grass

Chemical Communications | February 2020

Publication

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)

PDF Publication

Combining Data Longevity with High Storage Capacity—Layer‐by‐Layer DNA Encapsulated in Magnetic Nanoparticles

Weida D. Chen, A. Xavier Kohll, Bichlien Nguyen, Julian Koch, Reinhard Heckel, Wendelin J. Stark, Luis Ceze, Karin Strauss, Robert N. Grass

Advanced Functional Materials | May 2019

Publication

Molecular Digital Data Storage using DNA

Luis Ceze, Jeff Nivala, Karin Strauss

Nature Reviews Genetics | May 2019

Publication Video

Puddle: A Dynamic, Error-Correcting, Full-Stack Microfluidics Platform

Max Willsey, Ashley Stephenson, Chris Takahashi, Pranav Vaid, Bichlien Nguyen, Michal Piszczek, Christine Betts, Sharon Newman, Sarang Joshi, Karin Strauss, Luis Ceze

ASPLOS ’19 | April 2019

PDF

High Density DNA Data Storage Library via Dehydration with Digital Microfluidic Retrieval

Sharon Newman, Ashley Stephenson, Max Willsey, Bichlien Nguyen, Christopher N. Takahashi, Karin Strauss, Luis Ceze

Nature Communications | April 2019, Vol 9

(2019)10:1706

Publication

Demonstration of End-to-End Automation of DNA Data Storage

Christopher N. Takahashi, Bichlien Nguyen, Karin Strauss, Luis Ceze

Nature Scientific Reports | March 2019, Vol 9

Article number: 4998 (2019)

Publication Video

DNA Data Storage and Hybrid Molecular–Electronic Computing

Doug Carmean, Luis Ceze, Georg Seelig, Kendall Stewart, Karin Strauss, Max Willsey

Proceedings of the IEEE | December 2018, Vol 107(1)

Publication

Scaling up DNA data storage and random access retrieval

Doug Carmean, Luis Ceze, Karin Strauss, Siena Dumas Ang, Robert Carlson, Yuan-Jyue Chen, Parikshit Gopalan, Gagan Gupta, Govinda Kamath, Randolph Lopez, Konstantin Makarychev, John Mulligan, Sharon Newman, Bichlien Nguyen, Lee Organick, Hsing-Yeh Parker, Miklos Z. Racz, Cyrus Rashtchian, Georg Seelig, Kendall Stewart, Christopher Takahashi, Sergey Yekhanin

Nature Biotechnology | March 2018, Vol 36: pp. 242-248

Publication Publication

A DNA-based Archival Storage System

James Bornholt, Randolph Lopez, Doug Carmean, Luis Ceze, Georg Seelig, Karin Strauss

ASPLOS 2016 (International Conference on Architectural Support for Programming Languages and Operating Systems) – to appear | April 2016

Publication

Information decay and enzymatic information recovery for DNA data storage

Linda C. Meiser, Andreas L. Gimpel, Tejas Deshpande, Gabriela Libort, Weida D. Chen, Reinhard Heckel, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Communications Biology | October 2022

Publication

Trellis BMA: coded trace reconstruction on IDS channels for DNA storage

Sundara Rajan Srinivasavaradhan, Sivakanth Gopi, Henry Pfister, Sergey Yekhanin

International Symposium on Information Theory (ISIT) | July 2021

Publication Github

Batch optimization for DNA synthesis

Konstantin Makarychev, Miklos Racz, Cyrus Rashtchian, Sergey Yekhanin

International Symposium on Information Theory (ISIT) | July 2021

Publication

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)

PDF Publication

Puddle: A Dynamic, Error-Correcting, Full-Stack Microfluidics Platform

Max Willsey, Ashley Stephenson, Chris Takahashi, Pranav Vaid, Bichlien Nguyen, Michal Piszczek, Christine Betts, Sharon Newman, Sarang Joshi, Karin Strauss, Luis Ceze

ASPLOS ’19 | April 2019

PDF

Demonstration of End-to-End Automation of DNA Data Storage

Christopher N. Takahashi, Bichlien Nguyen, Karin Strauss, Luis Ceze

Nature Scientific Reports | March 2019, Vol 9

Article number: 4998 (2019)

Publication Video

Clustering Billions of Reads for DNA Data Storage

Cyrus Rashtchian, Konstantin Makarychev, Miklos Racz, Siena Ang, Djordje Jevdjic, Sergey Yekhanin, Luis Ceze, Karin Strauss

Advances in Neural Information Processing Systems 30 | December 2017

Publication

Information decay and enzymatic information recovery for DNA data storage

Linda C. Meiser, Andreas L. Gimpel, Tejas Deshpande, Gabriela Libort, Weida D. Chen, Reinhard Heckel, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Communications Biology | October 2022

Publication

Preserving DNA in Biodegradable Organosilica Encapsulates

Julian Koch, Ann-Christin Kerl, Natascha Schawalder, Anne M. Luescher, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Langmuir | September 2022

Publication

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

Publication

Anhydrous calcium phosphate crystals stabilize DNA for dry storage

Philipp L. Antkowiak , Julian Koch, Przemyslaw Rzepka, Bichlien Nguyen, Karin Strauss, Wendelin Jan Stark, Robert N. Grass

Chemical Communications | February 2022

Publication

An Empirical Comparison of Preservation Methods for Synthetic DNA Data Storage

Lee Organick, Bichlien Nguyen, Rachel McAmis, Weida D. Chen, A. Xavier Kohll, Siena Dumas Ang, Robert Grass, Luis Ceze, Karin Strauss

Small Methods | January 2021

Publication

PurpleDrop: A Digital Microfluidics-based Platform for Hybrid Molecular-Electronics Applications

Ashley Stephenson, Max Willsey, Jeff McBride, Sharon Newman, Bichlien Nguyen, Christopher N Takahashi, Karin Strauss, Luis Ceze

IEEE Micro | September 2020, Vol 40(5): pp. 76-86

Publication DOI

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)

Publication DOI PDF

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

Author's Version DOI PDF

Stabilizing Synthetic DNA for Long-term Data Storage with Earth Alkaline Salts

A. Xavier Kohll , Philipp L. Antkowiak, Weida D. Chen , Bichlien Nguyen, Wendelin J. Stark , Luis Ceze, Karin Strauss, Robert N. Grass

Chemical Communications | February 2020

Publication

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

PDF DOI

Combining Data Longevity with High Storage Capacity—Layer‐by‐Layer DNA Encapsulated in Magnetic Nanoparticles

Weida D. Chen, A. Xavier Kohll, Bichlien Nguyen, Julian Koch, Reinhard Heckel, Wendelin J. Stark, Luis Ceze, Karin Strauss, Robert N. Grass

Advanced Functional Materials | May 2019

Publication

Molecular Digital Data Storage using DNA

Luis Ceze, Jeff Nivala, Karin Strauss

Nature Reviews Genetics | May 2019

Publication Video

High Density DNA Data Storage Library via Dehydration with Digital Microfluidic Retrieval

Sharon Newman, Ashley Stephenson, Max Willsey, Bichlien Nguyen, Christopher N. Takahashi, Karin Strauss, Luis Ceze

Nature Communications | April 2019, Vol 9

(2019)10:1706

Publication

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

Publication

Architecting Datacenters for Sustainability: Greener Data Storage using Synthetic DNA

Bichlien Nguyen, Julie Sinistore, Jake Smith, Praneet S. Arshi, Lauren M. Johnson, Tim Kidman, T.J. diCaprio, Doug Carmean, Karin Strauss

Electronics Goes Green 2020 | September 2020

Publication

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)

Publication DOI

Trellis BMA: coded trace reconstruction on IDS channels for DNA storage

Sundara Rajan Srinivasavaradhan, Sivakanth Gopi, Henry Pfister, Sergey Yekhanin

International Symposium on Information Theory (ISIT) | July 2021

Publication Github

Batch optimization for DNA synthesis

Konstantin Makarychev, Miklos Racz, Cyrus Rashtchian, Sergey Yekhanin

International Symposium on Information Theory (ISIT) | July 2021

Publication

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

PDF DOI

Clustering Billions of Reads for DNA Data Storage

Cyrus Rashtchian, Konstantin Makarychev, Miklos Racz, Siena Ang, Djordje Jevdjic, Sergey Yekhanin, Luis Ceze, Karin Strauss

Advances in Neural Information Processing Systems 30 | December 2017

Publication

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)

Publication

Evaluating the risk of data loss due to particle radiation damage in a DNA data storage system

Christopher N. Takahashi, David P. Ward, Carlo Cazzaniga, Christopher D. Frost, Paolo Rech, Kumkum Ganguly, Sean Blanchard, Steve Wender, Bichlien Nguyen, Jake Smith

Nature Communications | September 2024, Vol 15: pp. 8067

DOI Publication Publication

The DNA Data Storage Model

Dave Landsman, Karin Strauss

IEEE Computer | June 2023, Vol 56(7): pp. 78-85

Publication

Spatially Selective Electrochemical Cleavage of a Polymerase-Nucleotide Conjugate

Jake Smith, Bichlien Nguyen, Rob Carlson, Jeffrey G. Bertram, Sebastian Palluk, Daniel H. Arlow, Karin Strauss

ACS Synthetic Biology | May 2023

Publication

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

Publication

Information decay and enzymatic information recovery for DNA data storage

Linda C. Meiser, Andreas L. Gimpel, Tejas Deshpande, Gabriela Libort, Weida D. Chen, Reinhard Heckel, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Communications Biology | October 2022

Publication

Preserving DNA in Biodegradable Organosilica Encapsulates

Julian Koch, Ann-Christin Kerl, Natascha Schawalder, Anne M. Luescher, Bichlien Nguyen, Karin Strauss, Wendelin J. Stark, Robert N. Grass

Langmuir | September 2022

Publication

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

Publication

Anhydrous calcium phosphate crystals stabilize DNA for dry storage

Philipp L. Antkowiak , Julian Koch, Przemyslaw Rzepka, Bichlien Nguyen, Karin Strauss, Wendelin Jan Stark, Robert N. Grass

Chemical Communications | February 2022

Publication

Scaling DNA data storage with nanoscale electrode wells

Bichlien Nguyen, Christopher Takahashi, Gagan Gupta, Jake Smith, Richard Rouse, Paul Berndt, Sergey Yekhanin, David Ward, Siena Ang, Patrick Garvan, Hsing-Yeh Parker, Rob Carlson, Douglas Carmean, Luis Ceze, Karin Strauss

Science Advances | November 2021

Publication

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)

Publication DOI

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)

DOI Publication

An Empirical Comparison of Preservation Methods for Synthetic DNA Data Storage

Lee Organick, Bichlien Nguyen, Rachel McAmis, Weida D. Chen, A. Xavier Kohll, Siena Dumas Ang, Robert Grass, Luis Ceze, Karin Strauss

Small Methods | January 2021

Publication

Rapid and robust assembly and decoding of molecular tags with DNA-based nanopore signatures

Kathryn Doroschak, Karen Zhang, Melissa Queen, Aishwarya Mandyam, Karin Strauss, Luis Ceze, Jeff Nivalla

Nature Communications | November 2020, Vol 11(5454)

DOI Publication

PurpleDrop: A Digital Microfluidics-based Platform for Hybrid Molecular-Electronics Applications

Ashley Stephenson, Max Willsey, Jeff McBride, Sharon Newman, Bichlien Nguyen, Christopher N Takahashi, Karin Strauss, Luis Ceze

IEEE Micro | September 2020, Vol 40(5): pp. 76-86

Publication DOI

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)

Publication DOI PDF

Stabilizing Synthetic DNA for Long-term Data Storage with Earth Alkaline Salts

A. Xavier Kohll , Philipp L. Antkowiak, Weida D. Chen , Bichlien Nguyen, Wendelin J. Stark , Luis Ceze, Karin Strauss, Robert N. Grass

Chemical Communications | February 2020

Publication

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)

PDF Publication

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

PDF DOI

Combining Data Longevity with High Storage Capacity—Layer‐by‐Layer DNA Encapsulated in Magnetic Nanoparticles

Weida D. Chen, A. Xavier Kohll, Bichlien Nguyen, Julian Koch, Reinhard Heckel, Wendelin J. Stark, Luis Ceze, Karin Strauss, Robert N. Grass

Advanced Functional Materials | May 2019

Publication

Molecular Digital Data Storage using DNA

Luis Ceze, Jeff Nivala, Karin Strauss

Nature Reviews Genetics | May 2019

Publication Video

High Density DNA Data Storage Library via Dehydration with Digital Microfluidic Retrieval

Sharon Newman, Ashley Stephenson, Max Willsey, Bichlien Nguyen, Christopher N. Takahashi, Karin Strauss, Luis Ceze

Nature Communications | April 2019, Vol 9

(2019)10:1706

Publication

Demonstration of End-to-End Automation of DNA Data Storage

Christopher N. Takahashi, Bichlien Nguyen, Karin Strauss, Luis Ceze

Nature Scientific Reports | March 2019, Vol 9

Article number: 4998 (2019)

Publication Video

DNA Data Storage and Hybrid Molecular–Electronic Computing

Doug Carmean, Luis Ceze, Georg Seelig, Kendall Stewart, Karin Strauss, Max Willsey

Proceedings of the IEEE | December 2018, Vol 107(1)

Publication

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)

Publication

Scaling up DNA data storage and random access retrieval

Doug Carmean, Luis Ceze, Karin Strauss, Siena Dumas Ang, Robert Carlson, Yuan-Jyue Chen, Parikshit Gopalan, Gagan Gupta, Govinda Kamath, Randolph Lopez, Konstantin Makarychev, John Mulligan, Sharon Newman, Bichlien Nguyen, Lee Organick, Hsing-Yeh Parker, Miklos Z. Racz, Cyrus Rashtchian, Georg Seelig, Kendall Stewart, Christopher Takahashi, Sergey Yekhanin

Nature Biotechnology | March 2018, Vol 36: pp. 242-248

Publication Publication

Trellis BMA: coded trace reconstruction on IDS channels for DNA storage

Sundara Rajan Srinivasavaradhan, Sivakanth Gopi, Henry Pfister, Sergey Yekhanin

International Symposium on Information Theory (ISIT) | July 2021

Publication Github

Batch optimization for DNA synthesis

Konstantin Makarychev, Miklos Racz, Cyrus Rashtchian, Sergey Yekhanin

International Symposium on Information Theory (ISIT) | July 2021

Publication

Architecting Datacenters for Sustainability: Greener Data Storage using Synthetic DNA

Bichlien Nguyen, Julie Sinistore, Jake Smith, Praneet S. Arshi, Lauren M. Johnson, Tim Kidman, T.J. diCaprio, Doug Carmean, Karin Strauss

Electronics Goes Green 2020 | September 2020

Publication

Puddle: A Dynamic, Error-Correcting, Full-Stack Microfluidics Platform

Max Willsey, Ashley Stephenson, Chris Takahashi, Pranav Vaid, Bichlien Nguyen, Michal Piszczek, Christine Betts, Sharon Newman, Sarang Joshi, Karin Strauss, Luis Ceze

ASPLOS ’19 | April 2019

PDF

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

Video

Clustering Billions of Reads for DNA Data Storage

Cyrus Rashtchian, Konstantin Makarychev, Miklos Racz, Siena Ang, Djordje Jevdjic, Sergey Yekhanin, Luis Ceze, Karin Strauss

Advances in Neural Information Processing Systems 30 | December 2017

Publication

A DNA-based Archival Storage System

James Bornholt, Randolph Lopez, Doug Carmean, Luis Ceze, Georg Seelig, Karin Strauss

ASPLOS 2016 (International Conference on Architectural Support for Programming Languages and Operating Systems) – to appear | April 2016

Publication

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

Author's Version DOI PDF