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J. David Taylor
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26
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:
Interspecies regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes
Guanjue Xiang
,
Xi He
,
Belinda M. Giardine
,
Kathryn J. Isaac
,
Dylan J. Taylor
,
Rajiv C. McCoy
,
Camden Jansen
,
Cheryl A. Keller
,
Alexander Q. Wixom
,
April Cockburn
,
Amber Miller
,
Qian Qi
,
Yanghua He
,
Yichao Li
,
Jens Lichtenberg
,
Elisabeth F. Heuston
,
Stacie M. Anderson
,
Jing Luan
,
Marit W. Vermunt
,
Feng Yue
,
Michael E.G. Sauria
,
Michael C. Schatz
,
James Taylor
,
Berthold Göttgens
,
Jim R. Hughes
,
Douglas R. Higgs
,
Mitchell J. Weiss
,
Yong Cheng
,
Gerd A. Blobel
,
David M. Bodine
,
Yu Zhang
,
Qunhua Li
,
Shaun Mahony
,
and
Ross C. Hardison
Genome Res.
July 2024
34
:
1089
-
1105
;
Published in Advance
July 1, 2024
,
doi:
10.1101/gr.277950.123
Abstract
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:
An organism-wide ATAC-seq peak catalog for the bovine and its use to identify regulatory variants
Can Yuan
,
Lijing Tang
,
Thomas Lopdell
,
Vyacheslav A. Petrov
,
Claire Oget-Ebrad
,
Gabriel Costa Monteiro Moreira
,
José Luis Gualdrón Duarte
,
Arnaud Sartelet
,
Zhangrui Cheng
,
Mazdak Salavati
,
D. Claire Wathes
,
Mark A. Crowe
,
GplusE Consortium
,
Wouter Coppieters
,
Mathew Littlejohn
,
Carole Charlier
,
Tom Druet
,
Michel Georges
,
and
Haruko Takeda
Genome Res.
October 2023
33
:
1848
-
1864
;
Published in Advance
September 26, 2023
,
doi:
10.1101/gr.277947.123
Abstract
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:
An integrative view of the regulatory and transcriptional landscapes in mouse hematopoiesis
Guanjue Xiang
,
Cheryl A. Keller
,
Elisabeth Heuston
,
Belinda M. Giardine
,
Lin An
,
Alexander Q. Wixom
,
Amber Miller
,
April Cockburn
,
Michael E.G. Sauria
,
Kathryn Weaver
,
Jens Lichtenberg
,
Berthold Göttgens
,
Qunhua Li
,
David Bodine
,
Shaun Mahony
,
James Taylor
,
Gerd A. Blobel
,
Mitchell J. Weiss
,
Yong Cheng
,
Feng Yue
,
Jim Hughes
,
Douglas R. Higgs
,
Yu Zhang
,
and
Ross C. Hardison
Genome Res.
March 2020
30
:
472
-
484
;
Published in Advance
March 4, 2020
,
doi:
10.1101/gr.255760.119
Abstract
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:
The full-length transcriptome of
C. elegans
using direct RNA sequencing
Nathan P. Roach
,
Norah Sadowski
,
Amelia F. Alessi
,
Winston Timp
,
James Taylor
,
and
John K. Kim
Genome Res.
February 2020
30
:
299
-
312
;
Published in Advance
February 5, 2020
,
doi:
10.1101/gr.251314.119
Abstract
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:
Pediatric Cancer Variant Pathogenicity Information Exchange (PeCanPIE): a cloud-based platform for curating and classifying germline variants
Michael N. Edmonson
,
Aman N. Patel
,
Dale J. Hedges
,
Zhaoming Wang
,
Evadnie Rampersaud
,
Chimene A. Kesserwan
,
Xin Zhou
,
Yanling Liu
,
Scott Newman
,
Michael C. Rusch
,
Clay L. McLeod
,
Mark R. Wilkinson
,
Stephen V. Rice
,
Thierry Soussi
,
J. Paul Taylor
,
Michael Benatar
,
Jared B. Becksfort
,
Kim E. Nichols
,
Leslie L. Robison
,
James R. Downing
,
and
Jinghui Zhang
Genome Res.
September 2019
29
:
1555
-
1565
;
Published in Advance
August 22, 2019
,
doi:
10.1101/gr.250357.119
Abstract
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:
Cell-type–specific eQTL of primary melanocytes facilitates identification of melanoma susceptibility genes
Tongwu Zhang
,
Jiyeon Choi
,
Michael A. Kovacs
,
Jianxin Shi
,
Mai Xu
,
NISC Comparative Sequencing Program
,
Melanoma Meta-Analysis Consortium
,
Alisa M. Goldstein
,
Adam J. Trower
,
D. Timothy Bishop
,
Mark M. Iles
,
David L. Duffy
,
Stuart MacGregor
,
Laufey T. Amundadottir
,
Matthew H. Law
,
Stacie K. Loftus
,
William J. Pavan
,
and
Kevin M. Brown
Genome Res.
November 2018
28
:
1621
-
1635
;
Published in Advance
October 17, 2018
,
doi:
10.1101/gr.233304.117
Abstract
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:
The million mutation project: A new approach to genetics in
Caenorhabditis elegans
Owen Thompson
,
Mark Edgley
,
Pnina Strasbourger
,
Stephane Flibotte
,
Brent Ewing
,
Ryan Adair
,
Vinci Au
,
Iasha Chaudhry
,
Lisa Fernando
,
Harald Hutter
,
Armelle Kieffer
,
Joanne Lau
,
Norris Lee
,
Angela Miller
,
Greta Raymant
,
Bin Shen
,
Jay Shendure
,
Jon Taylor
,
Emily H. Turner
,
LaDeana W. Hillier
,
Donald G. Moerman
,
and
Robert H. Waterston
Genome Res.
October 2013
23
:
1749
-
1762
;
Published in Advance
June 25, 2013
,
doi:
10.1101/gr.157651.113
Abstract
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:
Copy number variation of individual cattle genomes using next-generation sequencing
Derek M. Bickhart
,
Yali Hou
,
Steven G. Schroeder
,
Can Alkan
,
Maria Francesca Cardone
,
Lakshmi K. Matukumalli
,
Jiuzhou Song
,
Robert D. Schnabel
,
Mario Ventura
,
Jeremy F. Taylor
,
Jose Fernando Garcia
,
Curtis P. Van Tassell
,
Tad S. Sonstegard
,
Evan E. Eichler
,
and
George E. Liu
Genome Res.
April 2012
22
:
778
-
790
;
Published in Advance
February 2, 2012
,
doi:
10.1101/gr.133967.111
Abstract
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:
Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration
Weisheng Wu
,
Yong Cheng
,
Cheryl A. Keller
,
Jason Ernst
,
Swathi Ashok Kumar
,
Tejaswini Mishra
,
Christapher Morrissey
,
Christine M. Dorman
,
Kuan-Bei Chen
,
Daniela Drautz
,
Belinda Giardine
,
Yoichiro Shibata
,
Lingyun Song
,
Max Pimkin
,
Gregory E. Crawford
,
Terrence S. Furey
,
Manolis Kellis
,
Webb Miller
,
James Taylor
,
Stephan C. Schuster
,
Yu Zhang
,
Francesca Chiaromonte
,
Gerd A. Blobel
,
Mitchell J. Weiss
,
and
Ross C. Hardison
Genome Res.
October 2011
21
:
1659
-
1671
;
Published in Advance
July 27, 2011
,
doi:
10.1101/gr.125088.111
Abstract
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:
Pervasive haplotypic variation in the spliceo-transcriptome of the human major histocompatibility complex
Claire Vandiedonck
,
Martin S. Taylor
,
Helen E. Lockstone
,
Katharine Plant
,
Jennifer M. Taylor
,
Caroline Durrant
,
John Broxholme
,
Benjamin P. Fairfax
,
and
Julian C. Knight
Genome Res.
July 2011
21
:
1042
-
1054
;
Published in Advance
May 31, 2011
,
doi:
10.1101/gr.116681.110
Abstract
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