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In memoriam

C. Thomas Caskey (1938–2022)

  • Richard A. Gibbs
  • Aravinda Chakravarti
  • Evan E. Eichler
  • Eric D. Green
  • Richard M. Myers
  • Anne C. Ferguson-Smith
  • Kateryna D. Makova
  • Hillary E. Sussman
  • First Published February 17, 2022
In memoriam

Deborah A. Nickerson (1954 –2021)

  • Aravinda Chakravarti
  • Evan E. Eichler
  • Richard A. Gibbs
  • Eric D. Green
  • Richard M. Myers
  • Hillary E. Sussman
  • First Published January 24, 2022
Research

RET regulatory code is disrupted in Hirschsprung disease" > A multi-enhancer RET regulatory code is disrupted in Hirschsprung disease

  • Sumantra Chatterjee
  • Kameko M. Karasaki
  • Lauren E. Fries
  • Ashish Kapoor
  • Aravinda Chakravarti
  • First Published November 15, 2021
Method

Sequence-based correction of barcode bias in massively parallel reporter assays

  • Dongwon Lee
  • Ashish Kapoor
  • Changhee Lee
  • Michael Mudgett
  • Michael A. Beer
  • Aravinda Chakravarti
  • First Published July 20, 2021
Research

Replication timing networks reveal a link between transcription regulatory circuits and replication timing control

  • Juan Carlos Rivera-Mulia
  • Sebo Kim
  • Haitham Gabr
  • Abhijit Chakraborty
  • Ferhat Ay
  • Tamer Kahveci
  • David M. Gilbert
  • First Published August 21, 2019
Method

cis-regulatory elements, their cognate transcription factors, and regulatory DNA sequence variants" > Human cardiac cis-regulatory elements, their cognate transcription factors, and regulatory DNA sequence variants

  • Dongwon Lee
  • Ashish Kapoor
  • Alexias Safi
  • Lingyun Song
  • Marc K. Halushka
  • Gregory E. Crawford
  • Aravinda Chakravarti
  • First Published August 23, 2018
Research

Allele-specific control of replication timing and genome organization during development

  • Juan Carlos Rivera-Mulia
  • Andrew Dimond
  • Daniel Vera
  • Claudia Trevilla-Garcia
  • Takayo Sasaki
  • Jared Zimmerman
  • ... [+1 authors] ...,
  • Catherine Dupont
  • Joost Gribnau
  • Peter Fraser
  • David M. Gilbert
  • First Published May 7, 2018
Research

Dynamic changes in replication timing and gene expression during lineage specification of human pluripotent stem cells

  • Juan Carlos Rivera-Mulia
  • Quinton Buckley
  • Takayo Sasaki
  • Jared Zimmerman
  • Ruth A. Didier
  • Kristopher Nazor Jeanne F. Loring Zheng Lian Sherman Weissman Allan J. Robins Thomas C. Schulz Laura Menendez Michael J. Kulik
  • ... [+8 authors] ...,
  • Stephen Dalton
  • Haitham Gabr
  • Tamer Kahveci
  • David M. Gilbert
  • First Published June 8, 2015
Research

Topologically associating domains and their long-range contacts are established during early G1 coincident with the establishment of the replication-timing program

  • Vishnu Dileep
  • Ferhat Ay
  • Jiao Sima
  • Daniel L. Vera
  • William S. Noble
  • David M. Gilbert
  • First Published May 20, 2015
Method

Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell-type-specific expression

  • Maxwell W. Libbrecht
  • Ferhat Ay
  • Michael M. Hoffman
  • David M. Gilbert
  • Jeffrey A. Bilmes
  • William Stafford Noble
  • First Published February 12, 2015
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