David M Gilbert (David Gilbert)

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 57

Top Topics

Dna Methylation

Top Venues

bioRxiv : the preprint server for biology

Nature communications

Proceedings of the National Academy of Sciences of the United States of America

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

Publications

Lorenzo Corazzi, Vivien S Ionasz, Sergej Andrejev, Li-Chin Wang, Athanasios Vouzas, Marco Giaisi, Giulia Di Muzio, Boyu Ding, Anna J M Marx, Jonas Henkenjohann, Michael M Allers, David M Gilbert, Pei-Chi Wei
Linear interaction between replication and transcription shapes DNA break dynamics at recurrent DNA break Clusters. Nature communications 15 (1) (2024)
Omid Gholamalamdari, Tom van Schaik, Yuchuan Wang, Pradeep Kumar, Liguo Zhang, Yang Zhang, Gabriela A Hernandez Gonzalez, Athanasios E Vouzas, Peiyao A Zhao, David M Gilbert, Jian Ma, Bas van Steensel, Andrew S Belmont
Beyond A and B Compartments: how major nuclear locales define nuclear genome organization and function. bioRxiv : the preprint server for biology (2024)
Michael P Hogan, Matthew L Holding, Gunnar S Nystrom, Timothy J Colston, Daniel A Bartlett, Andrew J Mason, Schyler A Ellsworth, Rhett M Rautsaw, Kylie C Lawrence, Jason L Strickland, Bing He, Peter Fraser, Mark J Margres, David M Gilbert, H Lisle Gibbs, Christopher L Parkinson, Darin R Rokyta
The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proceedings of the National Academy of Sciences of the United States of America 121 (16) (2024)
Lorenzo Corazzi, Vivien S Ionasz, Sergej Andrejev, Li-Chin Wang, Athanasios Vouzas, Marco Giaisi, Giulia Di Muzio, Boyu Ding, Anna J M Marx, Jonas Henkenjohann, Michael M Allers, David M Gilbert, Pei-Chi Wei
Linear interaction between replication and transcription shapes DNA break dynamics at recurrent DNA break Clusters. Nature communications 15 (1) (2024)
Craig J Anderson, Lana Talmane, Juliet Luft, John Connelly, Michael D Nicholson, Jan C Verburg, Oriol Pich, Susan Campbell, Marco Giaisi, Pei-Chi Wei, Vasavi Sundaram, Frances Connor, Paul A Ginno, Takayo Sasaki, David M Gilbert, null null, Núria López-Bigas, Colin A Semple, Duncan T Odom, Sarah J Aitken, Martin S Taylor
Strand-resolved mutagenicity of DNA damage and repair. Nature 630 (8017) (2024)
Pradeep Kumar, Omid Gholamalamdari, Yang Zhang, Liguo Zhang, Anastassiia Vertii, Tom van Schaik, Daan Peric-Hupkes, Takayo Sasaki, David M Gilbert, Bas van Steensel, Jian Ma, Paul D Kaufman, Andrew S Belmont
Nucleolus and centromere Tyramide Signal Amplification-Seq reveals variable localization of heterochromatin in different cell types. Communications biology 7 (1) (2024)
Gabrielle A Hartley, Mariam Okhovat, Savannah J Hoyt, Emily Fuller, Nicole Pauloski, Nicolas Alexandre, Ivan A Alexandrov, Ryan Drennan, Danilo Dubocanin, David M Gilbert, Yizi Mao, Christine McCann, Shane Neph, Fedor D Ryabov, Takayo Sasaki, Jessica M Storer, Derek Svendsen, William Troy, Jackson Wells, Leighton J Core, Andrew Ben Stergachis, Lucia Carbone, Rachel J O'Neill
Centromeric transposable elements and epigenetic status drive karyotypic variation in the eastern hoolock gibbon. bioRxiv : the preprint server for biology (2024)
Michael P Hogan, Matthew L Holding, Gunnar S Nystrom, Timothy J Colston, Daniel A Bartlett, Andrew J Mason, Schyler A Ellsworth, Rhett M Rautsaw, Kylie C Lawrence, Jason L Strickland, Bing He, Peter Fraser, Mark J Margres, David M Gilbert, H Lisle Gibbs, Christopher L Parkinson, Darin R Rokyta
The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proceedings of the National Academy of Sciences of the United States of America 121 (16) (2024)
Lorenzo Corazzi, Vivien S Ionasz, Sergej Andrejev, Li-Chin Wang, Athanasios Vouzas, Marco Giaisi, Giulia Di Muzio, Boyu Ding, Anna J M Marx, Jonas Henkenjohann, Michael M Allers, David M Gilbert, Pei-Chi Wei
Linear interaction between replication and transcription shapes DNA break dynamics at recurrent DNA break Clusters. Nature communications 15 (1) (2024)
Michael P Hogan, Matthew L Holding, Gunnar S Nystrom, Timothy J Colston, Daniel A Bartlett, Andrew J Mason, Schyler A Ellsworth, Rhett M Rautsaw, Kylie C Lawrence, Jason L Strickland, Bing He, Peter Fraser, Mark J Margres, David M Gilbert, H Lisle Gibbs, Christopher L Parkinson, Darin R Rokyta
The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proceedings of the National Academy of Sciences of the United States of America 121 (16) (2024)
Craig J Anderson, Lana Talmane, Juliet Luft, John Connelly, Michael D Nicholson, Jan C Verburg, Oriol Pich, Susan Campbell, Marco Giaisi, Pei-Chi Wei, Vasavi Sundaram, Frances Connor, Paul A Ginno, Takayo Sasaki, David M Gilbert, null null, Núria López-Bigas, Colin A Semple, Duncan T Odom, Sarah J Aitken, Martin S Taylor
Strand-resolved mutagenicity of DNA damage and repair. Nature 630 (8017) (2024)
Michael P Hogan, Matthew L Holding, Gunnar S Nystrom, Timothy J Colston, Daniel A Bartlett, Andrew J Mason, Schyler A Ellsworth, Rhett M Rautsaw, Kylie C Lawrence, Jason L Strickland, Bing He, Peter Fraser, Mark J Margres, David M Gilbert, H Lisle Gibbs, Christopher L Parkinson, Darin R Rokyta
The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proceedings of the National Academy of Sciences of the United States of America 121 (16) (2024)
Craig J Anderson, Lana Talmane, Juliet Luft, John Connelly, Michael D Nicholson, Jan C Verburg, Oriol Pich, Susan Campbell, Marco Giaisi, Pei-Chi Wei, Vasavi Sundaram, Frances Connor, Paul A Ginno, Takayo Sasaki, David M Gilbert, null null, Núria López-Bigas, Colin A Semple, Duncan T Odom, Sarah J Aitken, Martin S Taylor
Strand-resolved mutagenicity of DNA damage and repair. Nature (2024)
Michael P Hogan, Matthew L Holding, Gunnar S Nystrom, Timothy J Colston, Daniel A Bartlett, Andrew J Mason, Schyler A Ellsworth, Rhett M Rautsaw, Kylie C Lawrence, Jason L Strickland, Bing He, Peter Fraser, Mark J Margres, David M Gilbert, H Lisle Gibbs, Christopher L Parkinson, Darin R Rokyta
The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proceedings of the National Academy of Sciences of the United States of America 121 (16) (2024)
Craig J Anderson, Lana Talmane, Juliet Luft, John Connelly, Michael D Nicholson, Jan C Verburg, Oriol Pich, Susan Campbell, Marco Giaisi, Pei-Chi Wei, Vasavi Sundaram, Frances Connor, Paul A Ginno, Takayo Sasaki, David M Gilbert, null null, Núria López-Bigas, Colin A Semple, Duncan T Odom, Sarah J Aitken, Martin S Taylor
Strand-resolved mutagenicity of DNA damage and repair. Nature 630 (8017) (2024)
DongAhn Yoo, Arang Rhie, Prajna Hebbar, Francesca Antonacci, Glennis A Logsdon, Steven Jared Solar, Dmitry Antipov, Brandon D Pickett, Yana Safonova, Francesco Montinaro, Yanting Luo, Joanna Malukiewicz, Jessica M Storer, Jiadong Lin, Abigail N Sequeira, Riley J Mangan, Glenn Hickey, Graciela Monfort Anez, Parithi Balachandran, Anton Bankevich, Christine R Beck, Arjun Biddanda, Matthew Borchers, Gerard G Bouffard, Emry Brannan, Shelise Y Brooks, Lucia Carbone, Laura Carrel, Yongwook Choi, Juyun Crawford, Mark Diekhans, Eric Engelbrecht, Cedric Feschotte, Giulio Formenti, Gage H Garcia, Luciana de Gennaro, David M Gilbert, Richard E Green, Andrea Guarracino, Ishaan Gupta, Diana Haddad, Junmin Han, Robert S Harris, Gabrielle A Hartley, William T Harvey, Michael Hiller, Kendra Hoekzema, Marlys L Houck, Hyeonsoo Jeong, Kaivan Kamali, Manolis Kellis, Bryce Kille, Chul Lee, Youngho Lee, William D Lees, Alexandra P Lewis, Qiuhui Li, Mark Loftus, Yong Hwee Eddie Loh, Hailey Loucks, Jian Ma, Yafei Mao, Juan F I Martinez, Patrick Masterson, Rajiv C McCoy, Barbara McGrath, Sean McKinney, Britta S Meyer, Karen H Miga, Saswat Kumar Mohanty, Katherine M Munson, Karol Pal, Matthew W Pennell, Pavel A Pevzner, David Porubsky, Tamara Potapova, Francisca R Ringeling, Joana L Rocha, Oliver A Ryder, Samuel Sacco, Swati Saha, Takayo Sasaki, Michael C Schatz, Nicholas J Schork, Cole Shanks, Linnéa Smeds, Dongmin R Son, Cynthia Steiner, Alexander P Sweeten, Michael G Tassia, Françoise Thibaud-Nissen, Edmundo Torres-González, Mihir Trivedi, Wenjie Wei, Julie Wertz, Muyu Yang, Panpan Zhang, Shilong Zhang, Yang Zhang, Zhenmiao Zhang, Sarah A Zhao, Yixin Zhu, Erich D Jarvis, Jennifer L Gerton, Iker Rivas-González, Benedict Paten, Zachary Alfano Szpiech, Christian D Huber, Tobias L Lenz, Miriam K Konkel, Soojin V Yi, Stefan Canzar, Corey T Watson, Peter H Sudmant, Erin K Molloy, Erik Garrison, Craig B Lowe, Mario Ventura, Rachel J O'Neill, Sergey Koren, Kateryna D Makova, Adam M Phillippy, Evan E Eichler
Complete sequencing of ape genomes. bioRxiv : the preprint server for biology (2024)
Craig J Anderson, Lana Talmane, Juliet Luft, John Connelly, Michael D Nicholson, Jan C Verburg, Oriol Pich, Susan Campbell, Marco Giaisi, Pei-Chi Wei, Vasavi Sundaram, Frances Connor, Paul A Ginno, Takayo Sasaki, David M Gilbert, null null, Núria López-Bigas, Colin A Semple, Duncan T Odom, Sarah J Aitken, Martin S Taylor
Strand-resolved mutagenicity of DNA damage and repair. Nature 630 (8017) (2024)
Craig J Anderson, Lana Talmane, Juliet Luft, John Connelly, Michael D Nicholson, Jan C Verburg, Oriol Pich, Susan Campbell, Marco Giaisi, Pei-Chi Wei, Vasavi Sundaram, Frances Connor, Paul A Ginno, Takayo Sasaki, David M Gilbert, null null, Núria López-Bigas, Colin A Semple, Duncan T Odom, Sarah J Aitken, Martin S Taylor
Strand-resolved mutagenicity of DNA damage and repair. Nature 630 (8017) (2024)
Craig J Anderson, Lana Talmane, Juliet Luft, John Connelly, Michael D Nicholson, Jan C Verburg, Oriol Pich, Susan Campbell, Marco Giaisi, Pei-Chi Wei, Vasavi Sundaram, Frances Connor, Paul A Ginno, Takayo Sasaki, David M Gilbert, null null, Núria López-Bigas, Colin A Semple, Duncan T Odom, Sarah J Aitken, Martin S Taylor
Strand-resolved mutagenicity of DNA damage and repair. Nature 630 (8017) (2024)
Michael P Hogan, Matthew L Holding, Gunnar S Nystrom, Timothy J Colston, Daniel A Bartlett, Andrew J Mason, Schyler A Ellsworth, Rhett M Rautsaw, Kylie C Lawrence, Jason L Strickland, Bing He, Peter Fraser, Mark J Margres, David M Gilbert, H Lisle Gibbs, Christopher L Parkinson, Darin R Rokyta
The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proceedings of the National Academy of Sciences of the United States of America 121 (16) (2024)
DongAhn Yoo, Arang Rhie, Prajna Hebbar, Francesca Antonacci, Glennis A Logsdon, Steven Jared Solar, Dmitry Antipov, Brandon D Pickett, Yana Safonova, Francesco Montinaro, Yanting Luo, Joanna Malukiewicz, Jessica M Storer, Jiadong Lin, Abigail N Sequeira, Riley J Mangan, Glenn Hickey, Graciela Monfort Anez, Parithi Balachandran, Anton Bankevich, Christine R Beck, Arjun Biddanda, Matthew Borchers, Gerard G Bouffard, Emry Brannan, Shelise Y Brooks, Lucia Carbone, Laura Carrel, Yongwook Choi, Juyun Crawford, Mark Diekhans, Eric Engelbrecht, Cedric Feschotte, Giulio Formenti, Gage H Garcia, Luciana de Gennaro, David M Gilbert, Richard E Green, Andrea Guarracino, Ishaan Gupta, Diana Haddad, Junmin Han, Robert S Harris, Gabrielle A Hartley, William T Harvey, Michael Hiller, Kendra Hoekzema, Marlys L Houck, Hyeonsoo Jeong, Kaivan Kamali, Manolis Kellis, Bryce Kille, Chul Lee, Youngho Lee, William D Lees, Alexandra P Lewis, Qiuhui Li, Mark Loftus, Yong Hwee Eddie Loh, Hailey Loucks, Jian Ma, Yafei Mao, Juan F I Martinez, Patrick Masterson, Rajiv C McCoy, Barbara McGrath, Sean McKinney, Britta S Meyer, Karen H Miga, Saswat Kumar Mohanty, Katherine M Munson, Karol Pal, Matthew W Pennell, Pavel A Pevzner, David Porubsky, Tamara Potapova, Francisca R Ringeling, Joana L Rocha, Oliver A Ryder, Samuel Sacco, Swati Saha, Takayo Sasaki, Michael C Schatz, Nicholas J Schork, Cole Shanks, Linnéa Smeds, Dongmin R Son, Cynthia Steiner, Alexander P Sweeten, Michael G Tassia, Françoise Thibaud-Nissen, Edmundo Torres-González, Mihir Trivedi, Wenjie Wei, Julie Wertz, Muyu Yang, Panpan Zhang, Shilong Zhang, Yang Zhang, Zhenmiao Zhang, Sarah A Zhao, Yixin Zhu, Erich D Jarvis, Jennifer L Gerton, Iker Rivas-González, Benedict Paten, Zachary Alfano Szpiech, Christian D Huber, Tobias L Lenz, Miriam K Konkel, Soojin V Yi, Stefan Canzar, Corey T Watson, Peter H Sudmant, Erin K Molloy, Erik Garrison, Craig B Lowe, Mario Ventura, Rachel J O'Neill, Sergey Koren, Kateryna D Makova, Adam M Phillippy, Evan E Eichler
Complete sequencing of ape genomes. bioRxiv : the preprint server for biology (2024)
Omid Gholamalamdari, Tom van Schaik, Yuchuan Wang, Pradeep Kumar, Liguo Zhang, Yang Zhang, Gabriela A Hernandez Gonzalez, Athanasios E Vouzas, Peiyao A Zhao, David M Gilbert, Jian Ma, Bas van Steensel, Andrew S Belmont
Beyond A and B Compartments: how major nuclear locales define nuclear genome organization and function. bioRxiv : the preprint server for biology (2024)
Michael P Hogan, Matthew L Holding, Gunnar S Nystrom, Timothy J Colston, Daniel A Bartlett, Andrew J Mason, Schyler A Ellsworth, Rhett M Rautsaw, Kylie C Lawrence, Jason L Strickland, Bing He, Peter Fraser, Mark J Margres, David M Gilbert, H Lisle Gibbs, Christopher L Parkinson, Darin R Rokyta
The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proceedings of the National Academy of Sciences of the United States of America 121 (16) (2024)
Craig J Anderson, Lana Talmane, Juliet Luft, John Connelly, Michael D Nicholson, Jan C Verburg, Oriol Pich, Susan Campbell, Marco Giaisi, Pei-Chi Wei, Vasavi Sundaram, Frances Connor, Paul A Ginno, Takayo Sasaki, David M Gilbert, null null, Núria López-Bigas, Colin A Semple, Duncan T Odom, Sarah J Aitken, Martin S Taylor
Strand-resolved mutagenicity of DNA damage and repair. Nature 630 (8017) (2024)
Michael P Hogan, Matthew L Holding, Gunnar S Nystrom, Timothy J Colston, Daniel A Bartlett, Andrew J Mason, Schyler A Ellsworth, Rhett M Rautsaw, Kylie C Lawrence, Jason L Strickland, Bing He, Peter Fraser, Mark J Margres, David M Gilbert, H Lisle Gibbs, Christopher L Parkinson, Darin R Rokyta
The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proceedings of the National Academy of Sciences of the United States of America 121 (16) (2024)
Tsunetoshi Nakatani, Tamas Schauer, Luis Altamirano-Pacheco, Kyle N Klein, Andreas Ettinger, Mrinmoy Pal, David M Gilbert, Maria-Elena Torres-Padilla
Emergence of replication timing during early mammalian development. Nature 625 (7994) (2023)
Tsunetoshi Nakatani, Tamas Schauer, Luis Altamirano-Pacheco, Kyle N Klein, Andreas Ettinger, Mrinmoy Pal, David M Gilbert, Maria-Elena Torres-Padilla
Emergence of replication timing during early mammalian development. Nature 625 (7994) (2023)
José A da Costa-Nunes, Marek Gierlinski, Takayo Sasaki, Emma J Haagensen, David M Gilbert, J Julian Blow
The location and development of Replicon Cluster Domains in early replicating DNA. Wellcome open research 8 (2023)
David M Gilbert
Replication licensing during S phase: breaking the law to prevent breaking DNA. Nature structural & molecular biology (2023)
Tsunetoshi Nakatani, Tamas Schauer, Luis Altamirano-Pacheco, Kyle N Klein, Andreas Ettinger, Mrinmoy Pal, David M Gilbert, Maria-Elena Torres-Padilla
Emergence of replication timing during early mammalian development. Nature 625 (7994) (2023)
Pradeep Kumar, Omid Gholamalamdari, Yang Zhang, Liguo Zhang, Anastassiia Vertii, Tom van Schaik, Daan Peric-Hupkes, Takayo Sasaki, David M Gilbert, Bas van Steensel, Jian Ma, Paul D Kaufman, Andrew S Belmont
Nucleolus and centromere TSA-Seq reveals variable localization of heterochromatin in different cell types. bioRxiv : the preprint server for biology (2023)
Laura Hinojosa-Gonzalez, Jesse L Turner, Takayo Sasaki, Ferhat Ay, David M Gilbert
Brd2 is dispensable for genome compartmentalization and replication timing. bioRxiv : the preprint server for biology (2023)
Laura Hinojosa-Gonzalez, Jesse L Turner, Takayo Sasaki, Ferhat Ay, David M Gilbert
Brd2 is dispensable for genome compartmentalization and replication timing. bioRxiv : the preprint server for biology (2023)
Meng Zhang, Mary Elisabeth Ehmann, Srija Matukumalli, Aashutosh Girish Boob, David M Gilbert, Huimin Zhao
SHIELD: a platform for high-throughput screening of barrier-type DNA elements in human cells. Nature communications 14 (1) (2023)
Tsunetoshi Nakatani, Tamas Schauer, Luis Altamirano-Pacheco, Kyle N Klein, Andreas Ettinger, Mrinmoy Pal, David M Gilbert, Maria-Elena Torres-Padilla
Emergence of replication timing during early mammalian development. Nature (2023)
Ruoyu Wang, Joo-Hyung Lee, Jieun Kim, Feng Xiong, Lana Al Hasani, Yuqiang Shi, Erin N Simpson, Xiaoyu Zhu, Yi-Ting Chen, Pooja Shivshankar, Joanna Krakowiak, Yanyu Wang, David M Gilbert, Xiaoyi Yuan, Holger K Eltzschig, Wenbo Li
SARS-CoV-2 restructures host chromatin architecture. Nature microbiology (2023)
Daniel Malzl, Mihaela Peycheva, Ali Rahjouei, Stefano Gnan, Kyle N Klein, Mariia S Nazarova, Ursula E Schoeberl, David M Gilbert, Sara B C Buonomo, Michela Di Virgilio, Tobias Neumann, Rushad Pavri
RIF1 regulates early replication timing in murine B cells. Nature communications 14 (1) (2023)
Laura Hinojosa-Gonzalez, Jesse L Turner, Takayo Sasaki, Ferhat Ay, David M Gilbert
Brd2 is dispensable for genome compartmentalization and replication timing. bioRxiv : the preprint server for biology (2023)
Laura Hinojosa-Gonzalez, Jesse L Turner, Takayo Sasaki, Ferhat Ay, David M Gilbert
Brd2 is dispensable for genome compartmentalization and replication timing. bioRxiv : the preprint server for biology (2023)
Tsunetoshi Nakatani, Tamas Schauer, Luis Altamirano-Pacheco, Kyle N Klein, Andreas Ettinger, Mrinmoy Pal, David M Gilbert, Maria-Elena Torres-Padilla
Emergence of replication timing during early mammalian development. Nature 625 (7994) (2023)
Tsunetoshi Nakatani, Tamas Schauer, Luis Altamirano-Pacheco, Kyle N Klein, Andreas Ettinger, Mrinmoy Pal, David M Gilbert, Maria-Elena Torres-Padilla
Emergence of replication timing during early mammalian development. Nature 625 (7994) (2023)
Vivien S Ionasz, Lorenzo Corazzi, Sergej Andrejev, Athanasios Vouzas, Li-Chin Wang, Marco Giaisi, Giulia Di Muzio, Boyu Ding, Jinrong Fu, Amina Abdelbaki, David M Gilbert, Pei-Chi Wei
Transcription-Replication Conflict Shapes DNA Break Dynamics. bioRxiv : the preprint server for biology (2023)
Tsunetoshi Nakatani, Tamas Schauer, Luis Altamirano-Pacheco, Kyle N Klein, Andreas Ettinger, Mrinmoy Pal, David M Gilbert, Maria-Elena Torres-Padilla
Emergence of replication timing during early mammalian development. Nature 625 (7994) (2023)
Daniel J Emerson, Peiyao A Zhao, Ashley L Cook, R Jordan Barnett, Kyle N Klein, Dalila Saulebekova, Chunmin Ge, Linda Zhou, Zoltan Simandi, Miriam K Minsk, Katelyn R Titus, Weitao Wang, Wanfeng Gong, Di Zhang, Liyan Yang, Sergey V Venev, Johan H Gibcus, Hongbo Yang, Takayo Sasaki, Masato T Kanemaki, Feng Yue, Job Dekker, Chun-Long Chen, David M Gilbert, Jennifer E Phillips-Cremins
Cohesin-mediated loop anchors confine the locations of human replication origins. Nature 606 (7915) (2022)
Michael B Heskett, Athanasios E Vouzas, Leslie G Smith, Phillip A Yates, Christopher Boniface, Eric E Bouhassira, Paul T Spellman, David M Gilbert, Mathew J Thayer
Epigenetic control of chromosome-associated lncRNA genes essential for replication and stability. Nature communications 13 (1) (2022)
Tom van Schaik, Stefano G Manzo, Athanasios E Vouzas, Ning Qing Liu, Hans Teunissen, Elzo de Wit, David M Gilbert, Bas van Steensel
Dynamic chromosomal interactions and control of heterochromatin positioning by Ki-67. EMBO reports 23 (12) (2022)
Kyle N Klein, Peiyao A Zhao, Xiaowen Lyu, Takayo Sasaki, Daniel A Bartlett, Amar M Singh, Ipek Tasan, Meng Zhang, Lotte P Watts, Shin-Ichiro Hiraga, Toyoaki Natsume, Xuemeng Zhou, Timour Baslan, Danny Chi Yeu Leung, Masato T Kanemaki, Anne D Donaldson, Huimin Zhao, Stephen Dalton, Victor G Corces, David M Gilbert
Replication timing maintains the global epigenetic state in human cells. Science (New York, N.Y.) 372 (6540) (2021)
Mark J Margres, Rhett M Rautsaw, Jason L Strickland, Andrew J Mason, Tristan D Schramer, Erich P Hofmann, Erin Stiers, Schyler A Ellsworth, Gunnar S Nystrom, Michael P Hogan, Daniel A Bartlett, Timothy J Colston, David M Gilbert, Darin R Rokyta, Christopher L Parkinson
The Tiger Rattlesnake genome reveals a complex genotype underlying a simple venom phenotype. Proceedings of the National Academy of Sciences of the United States of America 118 (4) (2021)
Stefano Gnan, Ilya M Flyamer, Kyle N Klein, Eleonora Castelli, Alexander Rapp, Andreas Maiser, Naiming Chen, Patrick Weber, Elin Enervald, Maria Cristina Cardoso, Wendy A Bickmore, David M Gilbert, Sara B C Buonomo
Nuclear organisation and replication timing are coupled through RIF1-PP1 interaction. Nature communications 12 (1) (2021)
Daniel A Bartlett, Vishnu Dileep, Tetsuya Handa, Yasuyuki Ohkawa, Hitoshi Kurumizaka, Steven Henikoff, David M Gilbert
High-throughput single-cell epigenomic profiling by targeted insertion of promoters (TIP-seq). The Journal of cell biology 220 (12) (2021)
Dan Sarni, Takayo Sasaki, Michal Irony Tur-Sinai, Karin Miron, Juan Carlos Rivera-Mulia, Brian Magnuson, Mats Ljungman, David M Gilbert, Batsheva Kerem
3D genome organization contributes to genome instability at fragile sites. Nature communications 11 (1) (2020)
Jing Zhang, Donghoon Lee, Vineet Dhiman, Peng Jiang, Jie Xu, Patrick McGillivray, Hongbo Yang, Jason Liu, William Meyerson, Declan Clarke, Mengting Gu, Shantao Li, Shaoke Lou, Jinrui Xu, Lucas Lochovsky, Matthew Ung, Lijia Ma, Shan Yu, Qin Cao, Arif O Harmanci, Koon-Kiu Yan, Anurag Sethi, Gamze Gürsoy, Michael Rutenberg Schoenberg, Joel Rozowsky, Jonathan Warrell, Prashant Emani, Yucheng T Yang, Timur Galeev, Xiangmeng Kong, Shuang Liu, Xiaotong Li, Jayanth Krishnan, Yanlin Feng, Juan Carlos Rivera-Mulia, Jessica Adrian, James R Broach, Michael Bolt, Jennifer Moran, Dominic Fitzgerald, Vishnu Dileep, Tingting Liu, Shenglin Mei, Takayo Sasaki, Claudia Trevilla-Garcia, Su Wang, Yanli Wang, Chongzhi Zang, Daifeng Wang, Robert J Klein, Michael Paul Snyder, David M Gilbert, Kevin Y Yip, Chao Cheng, Feng Yue, X Shirley Liu, Kevin P White, Mark B Gerstein
An integrative ENCODE resource for cancer genomics. Nature communications 11 (1) (2020)
Laura Brueckner, Peiyao A Zhao, Tom van Schaik, Christ Leemans, Jiao Sima, Daniel Peric-Hupkes, David M Gilbert, Bas van Steensel
Local rewiring of genome-nuclear lamina interactions by transcription. The EMBO journal 39 (6) (2020)
null null, Jill E Moore, Michael J Purcaro, Henry E Pratt, Charles B Epstein, Noam Shoresh, Jessika Adrian, Trupti Kawli, Carrie A Davis, Alexander Dobin, Rajinder Kaul, Jessica Halow, Eric L Van Nostrand, Peter Freese, David U Gorkin, Yin Shen, Yupeng He, Mark Mackiewicz, Florencia Pauli-Behn, Brian A Williams, Ali Mortazavi, Cheryl A Keller, Xiao-Ou Zhang, Shaimae I Elhajjajy, Jack Huey, Diane E Dickel, Valentina Snetkova, Xintao Wei, Xiaofeng Wang, Juan Carlos Rivera-Mulia, Joel Rozowsky, Jing Zhang, Surya B Chhetri, Jialing Zhang, Alec Victorsen, Kevin P White, Axel Visel, Gene W Yeo, Christopher B Burge, Eric Lécuyer, David M Gilbert, Job Dekker, John L Rinn, Eric M Mendenhall, Joseph R Ecker, Manolis Kellis, Robert J Klein, William S Noble, Anshul Kundaje, Roderic Guigó, Peggy J Farnham, J Michael Cherry, Richard M Myers, Bing Ren, Brenton R Graveley, Mark B Gerstein, Len A Pennacchio, Michael Paul Snyder, Bradley E Bernstein, Barbara Wold, Ross Cameron Hardison, Thomas R Gingeras, John A Stamatoyannopoulos, Nishigandha Phalke
Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature 583 (7818) (2020)
Marion Cremer, Katharina Brandstetter, Andreas Maiser, Suhas S P Rao, Volker J Schmid, Miguel Guirao-Ortiz, Namita Mitra, Stefania Mamberti, Kyle N Klein, David M Gilbert, Heinrich Leonhardt, Maria Cristina Cardoso, Erez Lieberman Aiden, Hartmann Harz, Thomas Cremer
Cohesin depleted cells rebuild functional nuclear compartments after endomitosis. Nature communications 11 (1) (2020)
Claire Marchal, Jiao Sima, David M Gilbert
Control of DNA replication timing in the 3D genome. Nature reviews. Molecular cell biology 20 (12) (2019)
Jesse R Dixon, Jie Xu, Vishnu Dileep, Ye Zhan, Fan Song, Victoria T Le, Galip Gürkan Yardımcı, Abhijit Chakraborty, Darrin V Bann, Yanli Wang, Royden Clark, Lijun Zhang, Hongbo Yang, Tingting Liu, Sriranga Iyyanki, Lin An, Christopher Pool, Takayo Sasaki, Juan Carlos Rivera-Mulia, Hakan Ozadam, Bryan R Lajoie, Rajinder Kaul, Michael Buckley, Kristen Lee, Morgan Diegel, Dubravka Pezic, Christina Ernst, Suzana Hadjur, Duncan T Odom, John A Stamatoyannopoulos, James R Broach, Ross C Hardison, Ferhat Ay, William Stafford Noble, Job Dekker, David M Gilbert, Feng Yue
Integrative detection and analysis of structural variation in cancer genomes. Nature genetics 50 (10) (2018)