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Alexander J. Hartemink
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Displaying results 1-10 of
14
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Research
:
Genome-wide nucleosome and transcription factor responses to genetic perturbations reveal chromatin-mediated mechanisms of transcriptional regulation
Kevin Moyung
,
Yulong Li
,
Heather K. MacAlpine
,
Alexander J. Hartemink
,
and
David M. MacAlpine
Genome Res.
January 2026
36
:
115
-
128
;
Published in Advance
December 9, 2025
,
doi:
10.1101/gr.279637.124
Abstract
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Research
:
Spatiotemporal kinetics of CAF-1-dependent chromatin maturation ensures transcription fidelity during S-phase
Boning Chen
,
Heather K. MacAlpine
,
Alexander J. Hartemink
,
and
David M. MacAlpine
Genome Res.
December 2023
33
:
2108
-
2118
;
Published in Advance
December 11, 2023
,
doi:
10.1101/gr.278273.123
Abstract
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Method
:
Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data
Kaixuan Luo
,
Jianling Zhong
,
Alexias Safi
,
Linda K. Hong
,
Alok K. Tewari
,
Lingyun Song
,
Timothy E. Reddy
,
Li Ma
,
Gregory E. Crawford
,
and
Alexander J. Hartemink
Genome Res.
June 2022
32
:
1183
-
1198
;
Published in Advance
May 24, 2022
,
doi:
10.1101/gr.272203.120
Abstract
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Research
:
Linking the dynamics of chromatin occupancy and transcription with predictive models
Trung Q. Tran
,
Heather K. MacAlpine
,
Vinay Tripuraneni
,
Sneha Mitra
,
David M. MacAlpine
,
and
Alexander J. Hartemink
Genome Res.
June 2021
31
:
1035
-
1046
;
Published in Advance
April 23, 2021
,
doi:
10.1101/gr.267237.120
Abstract
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Research
:
Local nucleosome dynamics and eviction following a double-strand break are reversible by NHEJ-mediated repair in the absence of DNA replication
Vinay Tripuraneni
,
Gonen Memisoglu
,
Heather K. MacAlpine
,
Trung Q. Tran
,
Wei Zhu
,
Alexander J. Hartemink
,
James E. Haber
,
and
David M. MacAlpine
Genome Res.
May 2021
31
:
775
-
788
;
Published in Advance
April 2, 2021
,
doi:
10.1101/gr.271155.120
Abstract
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Research
:
Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding
Ian C. McDowell
,
Alejandro Barrera
,
Anthony M. D'Ippolito
,
Christopher M. Vockley
,
Linda K. Hong
,
Sarah M. Leichter
,
Luke C. Bartelt
,
William H. Majoros
,
Lingyun Song
,
Alexias Safi
,
D. Dewran Koçak
,
Charles A. Gersbach
,
Alexander J. Hartemink
,
Gregory E. Crawford
,
Barbara E. Engelhardt
,
and
Timothy E. Reddy
Genome Res.
September 2018
28
:
1272
-
1284
;
Published in Advance
August 10, 2018
,
doi:
10.1101/gr.233346.117
Abstract
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Method
:
Mapping nucleosome positions using DNase-seq
Jianling Zhong
,
Kaixuan Luo
,
Peter S. Winter
,
Gregory E. Crawford
,
Edwin S. Iversen
,
and
Alexander J. Hartemink
Genome Res.
March 2016
26
:
351
-
364
;
Published in Advance
January 15, 2016
,
doi:
10.1101/gr.195602.115
Abstract
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Resource
:
Inferring gene expression from ribosomal promoter sequences, a crowdsourcing approach
Pablo Meyer
,
Geoffrey Siwo
,
Danny Zeevi
,
Eilon Sharon
,
Raquel Norel
,
DREAM6 Promoter Prediction Consortium
,
Eran Segal
,
and
Gustavo Stolovitzky
Genome Res.
November 2013
23
:
1928
-
1937
;
Published in Advance
August 15, 2013
,
doi:
10.1101/gr.157420.113
Abstract
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Resource
:
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
Stephen G. Landt
,
Georgi K. Marinov
,
Anshul Kundaje
,
Pouya Kheradpour
,
Florencia Pauli
,
Serafim Batzoglou
,
Bradley E. Bernstein
,
Peter Bickel
,
James B. Brown
,
Philip Cayting
,
Yiwen Chen
,
Gilberto DeSalvo
,
Charles Epstein
,
Katherine I. Fisher-Aylor
,
Ghia Euskirchen
,
Mark Gerstein
,
Jason Gertz
,
Alexander J. Hartemink
,
Michael M. Hoffman
,
Vishwanath R. Iyer
,
Youngsook L. Jung
,
Subhradip Karmakar
,
Manolis Kellis
,
Peter V. Kharchenko
,
Qunhua Li
,
Tao Liu
,
X. Shirley Liu
,
Lijia Ma
,
Aleksandar Milosavljevic
,
Richard M. Myers
,
Peter J. Park
,
Michael J. Pazin
,
Marc D. Perry
,
Debasish Raha
,
Timothy E. Reddy
,
Joel Rozowsky
,
Noam Shoresh
,
Arend Sidow
,
Matthew Slattery
,
John A. Stamatoyannopoulos
,
Michael Y. Tolstorukov
,
Kevin P. White
,
Simon Xi
,
Peggy J. Farnham
,
Jason D. Lieb
,
Barbara J. Wold
,
and
Michael Snyder
Genome Res.
September 2012
22
:
1813
-
1831
;
doi:
10.1101/gr.136184.111
Abstract
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Letter
:
Drosophila
ORC localizes to open chromatin and marks sites of cohesin complex loading
Heather K. MacAlpine
,
Raluca Gordân
,
Sara K. Powell
,
Alexander J. Hartemink
,
and
David M. MacAlpine
Genome Res.
February 2010
20
:
201
-
211
;
Published in Advance
December 7, 2009
,
doi:
10.1101/gr.097873.109
Abstract
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