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Research

Epigenetic characterization of pseudogenes across human tissues

  • Yunzhe Jiang
  • Beatrice Borsari
  • Mark Gerstein
  • First Published April 15, 2026
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 Jennifer R. Moran Jing Zhang
  • ... [+11 authors] ...,
  • Donghoon Lee
  • Mark Gerstein
  • Daniel Geschwind
  • Kevin P. White
  • First Published July 11, 2025
Research

Analysis of a cell-free DNA–based cancer screening cohort links fragmentomic profiles, nuclease levels, and plasma DNA concentrations

  • Yasine Malki
  • Guannan Kang
  • W.K. Jacky Lam
  • Qing Zhou
  • Suk Hang Cheng
  • Peter P.H. Cheung Jinyue Bai Ming Lok Chan Chui Ting Lee Wenlei Peng Yiqiong Zhang Wanxia Gai Winsome W.S. Wong Mary-Jane L. Ma Wenshuo Li Xinzhou Xu Zhuoran Gao Irene O.L. Tse Huimin Shang
  • ... [+14 authors] ...,
  • L.Y. Lois Choy
  • Peiyong Jiang
  • K.C. Allen Chan
  • Y.M. Dennis Lo
  • First Published November 27, 2024
Resource

Drosophila and C. elegans transcription factors reveal tissue-specific regulatory relationships" > 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
  • ... [+16 authors] ...,
  • LaDeana Hillier
  • Susan E. Celniker
  • Valerie Reinke
  • Robert H. Waterston
  • First Published October 22, 2024
Research

Genomic origin, fragmentomics, and transcriptional properties of long cell-free DNA molecules in human plasma

  • Huiwen Che
  • Peiyong Jiang
  • L.Y. Lois Choy
  • Suk Hang Cheng
  • Wenlei Peng
  • Rebecca W.Y. Chan Jing Liu Qing Zhou W.K. Jacky Lam Stephanie C.Y. Yu So Ling Lau Tak Y. Leung John Wong Vincent Wai-Sun Wong
  • ... [+9 authors] ...,
  • Grace L.H. Wong
  • Stephen L. Chan
  • K.C. Allen Chan
  • Y.M. Dennis Lo
  • First Published February 26, 2024
Method

Detection and characterization of jagged ends of double-stranded DNA in plasma

  • Peiyong Jiang
  • Tingting Xie
  • Spencer C. Ding
  • Ze Zhou
  • Suk Hang Cheng
  • Rebecca W.Y. Chan Wing-Shan Lee Wenlei Peng John Wong Vincent W.S. Wong Henry L.Y. Chan Stephen L. Chan Liona C.Y. Poon
  • ... [+8 authors] ...,
  • Tak Y. Leung
  • K.C. Allen Chan
  • Rossa W.K. Chiu
  • Y.M. Dennis Lo
  • First Published August 14, 2020
Method

Orientation-aware plasma cell-free DNA fragmentation analysis in open chromatin regions informs tissue of origin

  • Kun Sun
  • Peiyong Jiang
  • Suk Hang Cheng
  • Timothy H.T. Cheng
  • John Wong
  • Vincent W.S. Wong Simon S.M. Ng Brigette B.Y. Ma Tak Y. Leung Stephen L. Chan Tony S.K. Mok Paul B.S. Lai Henry L.Y. Chan
  • ... [+8 authors] ...,
  • Hao Sun
  • K.C. Allen Chan
  • Rossa W.K. Chiu
  • Y.M. Dennis Lo
  • First Published February 26, 2019
Research

Mus caroli and Mus pahari genomes" > 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
  • ... [+37 authors] ...,
  • Son Pham
  • Thomas M. Keane
  • Duncan T. Odom
  • Paul Flicek
  • First Published March 21, 2018
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
  • ... [+3 authors] ...,
  • Mark Gerstein
  • Sherman Weissman
  • Alexander E. Urban
  • Flora M. Vaccarino
  • First Published February 24, 2017
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
  • Charles Lee
  • Mark Gerstein
  • First Published September 11, 2013
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