Jonathan M Werner (Jesse A Gillis, Jesse Gillis)

Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2019-2024
Publications (10 Years): 32

Top Topics

High Throughput

Tyrosine Kinase

Top Venues

Science (New York, N.Y.)

This page only lists publications with an associated author ORCID identifier.

Publications

Michael John Passalacqua, Jonathan M Werner
Coexpression enhances cross-species integration of single-cell RNA sequencing across diverse plant species. Nature plants 10 (7) (2024)
Xiaoyin Chen, Stephan Fischer, Mara C P Rue, Aixin Zhang, Didhiti Mukherjee, Patrick O Kanold, Jonathan M Werner, Anthony M Zador
Whole-cortex in situ sequencing reveals input-dependent area identity. Nature (2024)
Xiaoyin Chen, Stephan Fischer, Mara C P Rue, Aixin Zhang, Didhiti Mukherjee, Patrick O Kanold, Jonathan M Werner, Anthony M Zador
Whole-cortex in situ sequencing reveals input-dependent area identity. Nature (2024)
James W Satterlee, David Alonso, Pietro Gramazio, Katharine M Jenike, Jia He, Andrea Arrones, Gloria Villanueva, Mariola Plazas, Srividya Ramakrishnan, Matthias Benoit, Iacopo Gentile, Anat Hendelman, Hagai Shohat, Blaine Fitzgerald, Gina M Robitaille, Yumi Green, Kerry Swartwood, Michael John Passalacqua, Edeline Gagnon, Rebecca Hilgenhof, Trevis D Huggins, Georgia C Eizenga, Amit Gur, Twan Rutten, Nils Stein, Shengrui Yao, Adrien Poncet, Clement Bellot, Amy Frary, Sandra Knapp, Mohammed Bendahmane, Tiina Särkinen, Jonathan M Werner, Joyce Van Eck, Michael C Schatz, Yuval Eshed, Jaime Prohens, Santiago Vilanova, Zachary B Lippman
Convergent evolution of plant prickles by repeated gene co-option over deep time. Science (New York, N.Y.) 385 (6708) (2024)
Michael John Passalacqua, Jonathan M Werner
Coexpression enhances cross-species integration of single-cell RNA sequencing across diverse plant species. Nature plants 10 (7) (2024)
James W Satterlee, David Alonso, Pietro Gramazio, Katharine M Jenike, Jia He, Andrea Arrones, Gloria Villanueva, Mariola Plazas, Srividya Ramakrishnan, Matthias Benoit, Iacopo Gentile, Anat Hendelman, Hagai Shohat, Blaine Fitzgerald, Gina M Robitaille, Yumi Green, Kerry Swartwood, Michael John Passalacqua, Edeline Gagnon, Rebecca Hilgenhof, Trevis D Huggins, Georgia C Eizenga, Amit Gur, Twan Rutten, Nils Stein, Shengrui Yao, Adrien Poncet, Clement Bellot, Amy Frary, Sandra Knapp, Mohammed Bendahmane, Tiina Särkinen, Jonathan M Werner, Joyce Van Eck, Michael C Schatz, Yuval Eshed, Jaime Prohens, Santiago Vilanova, Zachary B Lippman
Convergent evolution of plant prickles by repeated gene co-option over deep time. Science (New York, N.Y.) 385 (6708) (2024)
Michael John Passalacqua, Jonathan M Werner
Coexpression enhances cross-species integration of single-cell RNA sequencing across diverse plant species. Nature plants (2024)
Nelson J Johansen, Niklas Kempynck, Nathan R Zemke, Saroja Somasundaram, Seppe De Winter, Marcus J Hooper, Deepanjali Dwivedi, Ruchi Lohia, Fabien Wehbe, Bocheng Li, Darina Abaffyová, Ethan J Armand, Julie De Man, Eren Can Eksi, Nikolai Hecker, Gert Hulselmans, Vasileios Konstantakos, David Mauduit, John K Mich, Gabriele Partel, Tanya L Daigle, Boaz P Levi, Kai Zhang, Yoshiaki Tanaka, Jonathan M Werner, Jonathan T Ting, Yoav Ben-Simon, Jeremy A Miller, Joseph R Ecker, Bing Ren, Stein Aerts, Ed S Lein, Bosiljka Tasic, Trygve E Bakken
Evaluating Methods for the Prediction of Cell Type-Specific Enhancers in the Mammalian Cortex. bioRxiv : the preprint server for biology (2024)
Michael John Passalacqua, Jonathan M Werner
Coexpression enhances cross-species integration of single-cell RNA sequencing across diverse plant species. Nature plants 10 (7) (2024)
Michael John Passalacqua, Jonathan M Werner
Coexpression enhances cross-species integration of single-cell RNA sequencing across diverse plant species. Nature plants (2024)
Xiaoyin Chen, Stephan Fischer, Mara C P Rue, Aixin Zhang, Didhiti Mukherjee, Patrick O Kanold, Jonathan M Werner, Anthony M Zador
Whole-cortex in situ sequencing reveals input-dependent area identity. Nature (2024)
Xiaoyin Chen, Stephan Fischer, Mara C P Rue, Aixin Zhang, Didhiti Mukherjee, Patrick O Kanold, Jonathan M Werner, Anthony M Zador
Whole-cortex in situ sequencing reveals input-dependent area identity. Nature (2024)
James W Satterlee, David Alonso, Pietro Gramazio, Katharine M Jenike, Jia He, Andrea Arrones, Gloria Villanueva, Mariola Plazas, Srividya Ramakrishnan, Matthias Benoit, Iacopo Gentile, Anat Hendelman, Hagai Shohat, Blaine Fitzgerald, Gina M Robitaille, Yumi Green, Kerry Swartwood, Michael John Passalacqua, Edeline Gagnon, Rebecca Hilgenhof, Trevis D Huggins, Georgia C Eizenga, Amit Gur, Twan Rutten, Nils Stein, Shengrui Yao, Adrien Poncet, Clement Bellot, Amy Frary, Sandra Knapp, Mohammed Bendahmane, Tiina Särkinen, Jonathan M Werner, Joyce Van Eck, Michael C Schatz, Yuval Eshed, Jaime Prohens, Santiago Vilanova, Zachary B Lippman
Convergent evolution of plant prickles by repeated gene co-option over deep time. Science (New York, N.Y.) 385 (6708) (2024)
Michael John Passalacqua, Jonathan M Werner
Coexpression enhances cross-species integration of single-cell RNA sequencing across diverse plant species. Nature plants 10 (7) (2024)
Xiaoyin Chen, Stephan Fischer, Mara C P Rue, Aixin Zhang, Didhiti Mukherjee, Patrick O Kanold, Jonathan M Werner, Anthony M Zador
Whole-cortex in situ sequencing reveals input-dependent area identity. Nature (2024)
Nikolas L Jorstad, Janet H T Song, David Exposito-Alonso, Hamsini Suresh, Nathan Castro-Pacheco, Fenna M Krienen, Anna Marie Yanny, Jennie Close, Emily Gelfand, Brian R Long, Stephanie C Seeman, Kyle J Travaglini, Soumyadeep Basu, Marc Beaudin, Darren Bertagnolli, Megan Crow, Song-Lin Ding, Jeroen Eggermont, Alexandra Glandon, Jeff Goldy, Katelyn Kiick, Thomas Kroes, Delissa A McMillen, Trangthanh H Pham, Christine Rimorin, Kimberly Siletti, Saroja Somasundaram, Michael Tieu, Amy Torkelson, Guoping Feng, William D Hopkins, Thomas Höllt, C Dirk Keene, Sten Linnarsson, Steven A McCarroll, Boudewijn P F Lelieveldt, Chet C Sherwood, Kimberly A Smith, Christopher A Walsh, Alexander Dobin, Jonathan M Werner, Ed S Lein, Rebecca D Hodge, Trygve E Bakken
Comparative transcriptomics reveals human-specific cortical features. Science (New York, N.Y.) 382 (6667) (2023)
Jonathan M Werner, John Hover, Jesse Gillis
Population variability in X-chromosome inactivation across 9 mammalian species. bioRxiv : the preprint server for biology (2023)
Sara Ballouz, Risa Karakida Kawaguchi, Maria T Pena, Stephan Fischer, Megan Crow, Leon French, Frank M Knight, Linda B Adams, Jonathan M Werner
The transcriptional legacy of developmental stochasticity. Nature communications 14 (1) (2023)
Hamsini Suresh, Megan Crow, Nikolas Jorstad, Rebecca Hodge, Ed Lein, Alexander Dobin, Trygve E Bakken, Jonathan M Werner
Comparative single-cell transcriptomic analysis of primate brains highlights human-specific regulatory evolution. Nature ecology & evolution (2023)
Michael John Passalacqua, Jonathan M Werner
Coexpression enhances cross-species integration of scRNA-seq across diverse plant species. bioRxiv : the preprint server for biology (2023)
Yi-Jun Sheu, Risa Karakida Kawaguchi, Jonathan M Werner, Bruce Stillman
Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promoters. eLife 11 (2022)
Yi-Jun Sheu, Risa Karakida Kawaguchi, Jonathan M Werner, Bruce Stillman
Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promoters. eLife 11 (2022)
Yi-Jun Sheu, Risa Karakida Kawaguchi, Jonathan M Werner, Bruce Stillman
Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promoters. eLife 11 (2022)
Yi-Jun Sheu, Risa Karakida Kawaguchi, Jonathan M Werner, Bruce Stillman
Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promoters. eLife 11 (2022)
Megan Crow, Hamsini Suresh, John Lee, Jonathan M Werner
Coexpression reveals conserved gene programs that co-vary with cell type across kingdoms. Nucleic acids research 50 (8) (2022)
Ruchi Lohia, Nathan Fox, Jonathan M Werner
A global high-density chromatin interaction network reveals functional long-range and trans-chromosomal relationships. Genome biology 23 (1) (2022)
Yi-Jun Sheu, Risa Karakida Kawaguchi, Jonathan M Werner, Bruce Stillman
Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promoters. eLife 11 (2022)
Sara Ballouz, Melissa M Mangala, Matthew D Perry, Stewart Heitmann, Jonathan M Werner, Adam P Hill, Jamie I Vandenberg
Co-expression of calcium and hERG potassium channels reduces the incidence of proarrhythmic events. Cardiovascular research 117 (10) (2022)
Benjamin Kaminow, Sara Ballouz, Jonathan M Werner, Alexander Dobin
Pan-human consensus genome significantly improves the accuracy of RNA-seq analyses. Genome research 32 (4) (2022)
Shaina Lu, Daniel Fürth, Jonathan M Werner
Integrative analysis methods for spatial transcriptomics. Nature methods 18 (11) (2021)
Stephan Fischer, Megan Crow, Benjamin D Harris, Jonathan M Werner
Scaling up reproducible research for single-cell transcriptomics using MetaNeighbor. Nature protocols 16 (8) (2021)
Sara Ballouz, Alexander Dobin, Jonathan M Werner
Is it time to change the reference genome? Genome biology 20 (1) (2019)