Searching journal content for Mark B. Gerstein in author.

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  1. Resource: A map of enhancer regions in primary human neural progenitor cells using capture STARR-seq
    • Sophia C. Gaynor-Gillett,
    • Lijun Cheng,
    • Manman Shi,
    • Jason Liu,
    • Gaoyuan Wang,
    • Megan Spector,
    • Qiuyu Guo,
    • Le Qi,
    • Mary Flaherty,
    • Martha Wall,
    • Ahyeon Hwang,
    • Mengting Gu,
    • Zhanlin Chen,
    • Yuhang Chen,
    • PsychENCODE Consortium,
    • Jennifer R. Moran,
    • Jing Zhang,
    • Donghoon Lee,
    • Mark Gerstein,
    • Daniel Geschwind,
    • and Kevin P. White
    Genome Res. August 2025 35: 1887-1901; Published in Advance July 11, 2025, doi:10.1101/gr.279584.124
  2. Resource: An integrative TAD catalog in lymphoblastoid cell lines discloses the functional impact of deletions and insertions in human genomes
    • Chong Li,
    • Marc Jan Bonder,
    • Sabriya Syed,
    • Matthew Jensen,
    • Human Genome Structural Variation Consortium (HGSVC),
    • HGSVC Functional Analysis Working Group,
    • Mark B. Gerstein,
    • Michael C. Zody,
    • Mark J.P. Chaisson,
    • Michael E. Talkowski,
    • Tobias Marschall,
    • Jan O. Korbel,
    • Evan E. Eichler,
    • Charles Lee,
    • and Xinghua Shi
    Genome Res. December 2024 34: 2304-2318; Published in Advance December 5, 2024, doi:10.1101/gr.279419.124
  3. Resource: Binding profiles for 961 Drosophila and C. elegans transcription factors reveal tissue-specific regulatory relationships
    • Michelle Kudron,
    • Louis Gevirtzman,
    • Alec Victorsen,
    • Bridget C. Lear,
    • Jiahao Gao,
    • Jinrui Xu,
    • Swapna Samanta,
    • Emily Frink,
    • Adri Tran-Pearson,
    • Chau Huynh,
    • Dionne Vafeados,
    • Ann Hammonds,
    • William Fisher,
    • Martha Wall,
    • Greg Wesseling,
    • Vanessa Hernandez,
    • Zhichun Lin,
    • Mary Kasparian,
    • Kevin White,
    • Ravi Allada,
    • Mark Gerstein,
    • LaDeana Hillier,
    • Susan E. Celniker,
    • Valerie Reinke,
    • and Robert H. Waterston
    Genome Res. December 2024 34: 2319-2334; Published in Advance October 22, 2024, doi:10.1101/gr.279037.124
  4. Method: Assessing and mitigating privacy risks of sparse, noisy genotypes by local alignment to haplotype databases
    • Prashant S. Emani,
    • Maya N. Geradi,
    • Gamze Gürsoy,
    • Monica R. Grasty,
    • Andrew Miranker,
    • and Mark B. Gerstein
    Genome Res. December 2023 33: 2156-2173; Published in Advance December 14, 2023, doi:10.1101/gr.278322.123
    OPEN ACCESS ARTICLE
  5. Research: Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes
    • David Thybert,
    • Maša Roller,
    • Fábio C.P. Navarro,
    • Ian Fiddes,
    • Ian Streeter,
    • Christine Feig,
    • David Martin-Galvez,
    • Mikhail Kolmogorov,
    • Václav Janoušek,
    • Wasiu Akanni,
    • Bronwen Aken,
    • Sarah Aldridge,
    • Varshith Chakrapani,
    • William Chow,
    • Laura Clarke,
    • Carla Cummins,
    • Anthony Doran,
    • Matthew Dunn,
    • Leo Goodstadt,
    • Kerstin Howe,
    • Matthew Howell,
    • Ambre-Aurore Josselin,
    • Robert C. Karn,
    • Christina M. Laukaitis,
    • Lilue Jingtao,
    • Fergal Martin,
    • Matthieu Muffato,
    • Stefanie Nachtweide,
    • Michael A. Quail,
    • Cristina Sisu,
    • Mario Stanke,
    • Klara Stefflova,
    • Cock Van Oosterhout,
    • Frederic Veyrunes,
    • Ben Ward,
    • Fengtang Yang,
    • Golbahar Yazdanifar,
    • Amonida Zadissa,
    • David J. Adams,
    • Alvis Brazma,
    • Mark Gerstein,
    • Benedict Paten,
    • Son Pham,
    • Thomas M. Keane,
    • Duncan T. Odom,
    • and Paul Flicek
    Genome Res. April 2018 28: 448-459; Published in Advance March 21, 2018, doi:10.1101/gr.234096.117
    OPEN ACCESS ARTICLE
  6. Research: Dynamic RNA–protein interactions underlie the zebrafish maternal-to-zygotic transition
    • Vladimir Despic,
    • Mario Dejung,
    • Mengting Gu,
    • Jayanth Krishnan,
    • Jing Zhang,
    • Lydia Herzel,
    • Korinna Straube,
    • Mark B. Gerstein,
    • Falk Butter,
    • and Karla M. Neugebauer
    Genome Res. July 2017 27: 1184-1194; Published in Advance April 5, 2017, doi:10.1101/gr.215954.116
  7. Research: One thousand somatic SNVs per skin fibroblast cell set baseline of mosaic mutational load with patterns that suggest proliferative origin
    • Alexej Abyzov,
    • Livia Tomasini,
    • Bo Zhou,
    • Nikolaos Vasmatzis,
    • Gianfilippo Coppola,
    • Mariangela Amenduni,
    • Reenal Pattni,
    • Michael Wilson,
    • Mark Gerstein,
    • Sherman Weissman,
    • Alexander E. Urban,
    • and Flora M. Vaccarino
    Genome Res. April 2017 27: 512-523; Published in Advance February 24, 2017, doi:10.1101/gr.215517.116
  8. Research: Pangolin genomes and the evolution of mammalian scales and immunity
    • Siew Woh Choo,
    • Mike Rayko,
    • Tze King Tan,
    • Ranjeev Hari,
    • Aleksey Komissarov,
    • Wei Yee Wee,
    • Andrey A. Yurchenko,
    • Sergey Kliver,
    • Gaik Tamazian,
    • Agostinho Antunes,
    • Richard K. Wilson,
    • Wesley C. Warren,
    • Klaus-Peter Koepfli,
    • Patrick Minx,
    • Ksenia Krasheninnikova,
    • Antoinette Kotze,
    • Desire L. Dalton,
    • Elaine Vermaak,
    • Ian C. Paterson,
    • Pavel Dobrynin,
    • Frankie Thomas Sitam,
    • Jeffrine J. Rovie-Ryan,
    • Warren E. Johnson,
    • Aini Mohamed Yusoff,
    • Shu-Jin Luo,
    • Kayal Vizi Karuppannan,
    • Gang Fang,
    • Deyou Zheng,
    • Mark B. Gerstein,
    • Leonard Lipovich,
    • Stephen J. O'Brien,
    • and Guat Jah Wong
    Genome Res. October 2016 26: 1312-1322; Published in Advance August 10, 2016, doi:10.1101/gr.203521.115
  9. Research: Analysis of variable retroduplications in human populations suggests coupling of retrotransposition to cell division
    • Alexej Abyzov,
    • Rebecca Iskow,
    • Omer Gokcumen,
    • David W. Radke,
    • Suganthi Balasubramanian,
    • Baikang Pei,
    • Lukas Habegger,
    • The 1000 Genomes Project Consortium,
    • Charles Lee,
    • and Mark Gerstein
    Genome Res. December 2013 23: 2042-2052; Published in Advance September 11, 2013, doi:10.1101/gr.154625.113
    OPEN ACCESS ARTICLE
  10. Research: The origin, evolution, and functional impact of short insertion–deletion variants identified in 179 human genomes
    • Stephen B. Montgomery,
    • David L. Goode,
    • Erika Kvikstad,
    • Cornelis A. Albers,
    • Zhengdong D. Zhang,
    • Xinmeng Jasmine Mu,
    • Guruprasad Ananda,
    • Bryan Howie,
    • Konrad J. Karczewski,
    • Kevin S. Smith,
    • Vanessa Anaya,
    • Rhea Richardson,
    • Joe Davis,
    • The 1000 Genomes Project Consortium,
    • Daniel G. MacArthur,
    • Arend Sidow,
    • Laurent Duret,
    • Mark Gerstein,
    • Kateryna D. Makova,
    • Jonathan Marchini,
    • Gil McVean,
    • and Gerton Lunter
    Genome Res. May 2013 23: 749-761; Published in Advance March 11, 2013, doi:10.1101/gr.148718.112
    OPEN ACCESS ARTICLE
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