Rajinder Kaul

Rajinder Kaul

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Rajinder Kaul

Rajinder Kaul

Publications by authors named "Rajinder Kaul"

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Large-scale identification of sequence variants influencing human transcription factor occupancy in vivo.

Nat Genet 2015 Dec 26;47(12):1393-401. Epub 2015 Oct 26.

Department of Genome Sciences, University of Washington, Seattle, Washington, USA.

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http://dx.doi.org/10.1038/ng.3432DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4666772PMC
December 2015

Integrative analysis of 111 reference human epigenomes.

Nature 2015 Feb;518(7539):317-30

1] Computer Science and Artificial Intelligence Lab, Massachusetts Institute of Technology, 32 Vassar St, Cambridge, Massachusetts 02139, USA. [2] The Broad Institute of Harvard and MIT, 415 Main Street, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature14248DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4530010PMC
February 2015

A comparative encyclopedia of DNA elements in the mouse genome.

Authors:
Feng Yue Yong Cheng Alessandra Breschi Jeff Vierstra Weisheng Wu Tyrone Ryba Richard Sandstrom Zhihai Ma Carrie Davis Benjamin D Pope Yin Shen Dmitri D Pervouchine Sarah Djebali Robert E Thurman Rajinder Kaul Eric Rynes Anthony Kirilusha Georgi K Marinov Brian A Williams Diane Trout Henry Amrhein Katherine Fisher-Aylor Igor Antoshechkin Gilberto DeSalvo Lei-Hoon See Meagan Fastuca Jorg Drenkow Chris Zaleski Alex Dobin Pablo Prieto Julien Lagarde Giovanni Bussotti Andrea Tanzer Olgert Denas Kanwei Li M A Bender Miaohua Zhang Rachel Byron Mark T Groudine David McCleary Long Pham Zhen Ye Samantha Kuan Lee Edsall Yi-Chieh Wu Matthew D Rasmussen Mukul S Bansal Manolis Kellis Cheryl A Keller Christapher S Morrissey Tejaswini Mishra Deepti Jain Nergiz Dogan Robert S Harris Philip Cayting Trupti Kawli Alan P Boyle Ghia Euskirchen Anshul Kundaje Shin Lin Yiing Lin Camden Jansen Venkat S Malladi Melissa S Cline Drew T Erickson Vanessa M Kirkup Katrina Learned Cricket A Sloan Kate R Rosenbloom Beatriz Lacerda de Sousa Kathryn Beal Miguel Pignatelli Paul Flicek Jin Lian Tamer Kahveci Dongwon Lee W James Kent Miguel Ramalho Santos Javier Herrero Cedric Notredame Audra Johnson Shinny Vong Kristen Lee Daniel Bates Fidencio Neri Morgan Diegel Theresa Canfield Peter J Sabo Matthew S Wilken Thomas A Reh Erika Giste Anthony Shafer Tanya Kutyavin Eric Haugen Douglas Dunn Alex P Reynolds Shane Neph Richard Humbert R Scott Hansen Marella De Bruijn Licia Selleri Alexander Rudensky Steven Josefowicz Robert Samstein Evan E Eichler Stuart H Orkin Dana Levasseur Thalia Papayannopoulou Kai-Hsin Chang Arthur Skoultchi Srikanta Gosh Christine Disteche Piper Treuting Yanli Wang Mitchell J Weiss Gerd A Blobel Xiaoyi Cao Sheng Zhong Ting Wang Peter J Good Rebecca F Lowdon Leslie B Adams Xiao-Qiao Zhou Michael J Pazin Elise A Feingold Barbara Wold James Taylor Ali Mortazavi Sherman M Weissman John A Stamatoyannopoulos Michael P Snyder Roderic Guigo Thomas R Gingeras David M Gilbert Ross C Hardison Michael A Beer Bing Ren

Nature 2014 Nov;515(7527):355-64

Ludwig Institute for Cancer Research and University of California, San Diego School of Medicine, 9500 Gilman Drive, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1038/nature13992DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4266106PMC
November 2014

An encyclopedia of mouse DNA elements (Mouse ENCODE).

August 2012

Complete genome sequence of Methanosaeta concilii, a specialist in aceticlastic methanogenesis.

J Bacteriol 2011 Jul 13;193(14):3668-9. Epub 2011 May 13.

Department of Biological Sciences, University of Wisconsin—Parkside, Kenosha, Wisconsin, USA.

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http://dx.doi.org/10.1128/JB.05031-11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3133334PMC
July 2011

Phenotypic diversity of Escherichia coli O157:H7 strains associated with the plasmid O157.

J Microbiol 2010 Jun 23;48(3):347-57. Epub 2010 Jun 23.

Department of Microbiology, Molecular Biology, and Biochemistry, University of Idaho, Moscow, Idaho 83844, USA.

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http://dx.doi.org/10.1007/s12275-010-9228-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2951829PMC
June 2010

Cone visual pigments of monotremes: filling the phylogenetic gap.

Vis Neurosci 2008 May-Jun;25(3):257-64

ARC, Centre for Kangaroo Genomics, Bioinformatics, The Walter and Eliza Hall Institute, Parkville, Australia.

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http://dx.doi.org/10.1017/S0952523808080255DOI Listing
November 2008

Multiarm high-throughput integration site detection: limitations of LAM-PCR technology and optimization for clonal analysis.

Stem Cells Dev 2007 Jun;16(3):381-92

Department of Transplantation Biology, Fred Hutchinson Cancer Research Center, Seattle, WA 98109-1024, USA.

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http://dx.doi.org/10.1089/scd.2007.0015DOI Listing
June 2007

Population stratification of a common APOBEC gene deletion polymorphism.

PLoS Genet 2007 Apr;3(4):e63

Department of Genome Sciences, University of Washington, Seattle, Washington, United States of America.

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http://dx.plos.org/10.1371/journal.pgen.0030063
Publisher Site
http://dx.doi.org/10.1371/journal.pgen.0030063DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1853121PMC
April 2007

A comprehensive transposon mutant library of Francisella novicida, a bioweapon surrogate.

Proc Natl Acad Sci U S A 2007 Jan 10;104(3):1009-14. Epub 2007 Jan 10.

Department of Genome Sciences, University of Washington, Campus Box 355065, 1705 NE Pacific Street, Seattle, WA 98195, USA.

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http://dx.doi.org/10.1073/pnas.0606713104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1783355PMC
January 2007

Type IV pili-mediated secretion modulates Francisella virulence.

Mol Microbiol 2006 Oct;62(1):227-37

Department of Pediatrics, Division of Infectious Diseases, University of Washington, Seattle, WA, USA.

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http://dx.doi.org/10.1111/j.1365-2958.2006.05365.xDOI Listing
October 2006

High-throughput genotyping of intermediate-size structural variation.

Hum Mol Genet 2006 Apr 23;15(7):1159-67. Epub 2006 Feb 23.

Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.

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http://dx.doi.org/10.1093/hmg/ddl031DOI Listing
April 2006

The DNA sequence, annotation and analysis of human chromosome 3.

Authors:
Donna M Muzny Steven E Scherer Rajinder Kaul Jing Wang Jun Yu Ralf Sudbrak Christian J Buhay Rui Chen Andrew Cree Yan Ding Shannon Dugan-Rocha Rachel Gill Preethi Gunaratne R Alan Harris Alicia C Hawes Judith Hernandez Anne V Hodgson Jennifer Hume Andrew Jackson Ziad Mohid Khan Christie Kovar-Smith Lora R Lewis Ryan J Lozado Michael L Metzker Aleksandar Milosavljevic George R Miner Margaret B Morgan Lynne V Nazareth Graham Scott Erica Sodergren Xing-Zhi Song David Steffen Sharon Wei David A Wheeler Mathew W Wright Kim C Worley Ye Yuan Zhengdong Zhang Charles Q Adams M Ali Ansari-Lari Mulu Ayele Mary J Brown Guan Chen Zhijian Chen James Clendenning Kerstin P Clerc-Blankenburg Runsheng Chen Zhu Chen Clay Davis Oliver Delgado Huyen H Dinh Wei Dong Heather Draper Stephen Ernst Gang Fu Manuel L Gonzalez-Garay Dawn K Garcia Will Gillett Jun Gu Bailin Hao Eric Haugen Paul Havlak Xin He Steffen Hennig Songnian Hu Wei Huang Laronda R Jackson Leni S Jacob Susan H Kelly Michael Kube Ruth Levy Zhangwan Li Bin Liu Jing Liu Wen Liu Jing Lu Manjula Maheshwari Bao-Viet Nguyen Geoffrey O Okwuonu Anthony Palmeiri Shiran Pasternak Lesette M Perez Karen A Phelps Farah J H Plopper Boqin Qiang Christopher Raymond Ruben Rodriguez Channakhone Saenphimmachak Jireh Santibanez Hua Shen Yan Shen Sandhya Subramanian Paul E Tabor Daniel Verduzco Lenee Waldron Jian Wang Jun Wang Qiaoyan Wang Gabrielle A Williams Gane K-S Wong Zhijian Yao JingKun Zhang Xiuqing Zhang Guoping Zhao Jianling Zhou Yang Zhou David Nelson Hans Lehrach Richard Reinhardt Susan L Naylor Huanming Yang Maynard Olson George Weinstock Richard A Gibbs

Nature 2006 Apr;440(7088):1194-8

Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1038/nature04728DOI Listing
April 2006

Foamy virus vector integration sites in normal human cells.

Proc Natl Acad Sci U S A 2006 Jan 20;103(5):1498-503. Epub 2006 Jan 20.

Department of Medicine, Division of Hematology, University of Washington, Seattle, WA 98195, USA.

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http://dx.doi.org/10.1073/pnas.0510046103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1360565PMC
January 2006

Targeted, haplotype-resolved resequencing of long segments of the human genome.

Genomics 2005 Dec 24;86(6):759-66. Epub 2005 Oct 24.

University of Washington Genome Center, Department of Medicine, University of Washington, Seattle, WA 98195, USA.

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http://dx.doi.org/10.1016/j.ygeno.2005.08.013DOI Listing
December 2005

Large-scale analysis of adeno-associated virus vector integration sites in normal human cells.

J Virol 2005 Sep;79(17):11434-42

Department of Pediatrics, Division of Genetics and Developmental Medicine, University of Washington, Seattle, 98195-7720, USA.

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http://dx.doi.org/10.1128/JVI.79.17.11434-11442.2005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1193581PMC
September 2005

Ancient haplotypes of the HLA Class II region.

Genome Res 2005 Sep;15(9):1250-7

University of Washington Genome Center, Department of Medicine, University of Washington, Seattle, Washington 98195, USA.

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http://dx.doi.org/10.1101/gr.3554305DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1199539PMC
September 2005

Fine-scale structural variation of the human genome.

Nat Genet 2005 Jul 15;37(7):727-32. Epub 2005 May 15.

Department of Genome Sciences, University of Washington School of Medicine, 1705 NE Pacific Street, Seattle, Washington 98195, USA.

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http://bioinfo.mc.vanderbilt.edu/journal_club2006/2005/05-11
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http://www.nature.com/doifinder/10.1038/ng1562
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http://dx.doi.org/10.1038/ng1562DOI Listing
July 2005

Evidence for diversifying selection at the pyoverdine locus of Pseudomonas aeruginosa.

J Bacteriol 2005 Mar;187(6):2138-47

Program of Molecular and Cellular Biology, University of Washington, Seattle, WA 98195, USA.

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http://dx.doi.org/10.1128/JB.187.6.2138-2147.2005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1064051PMC
March 2005

Comprehensive transposon mutant library of Pseudomonas aeruginosa.

Proc Natl Acad Sci U S A 2003 Nov 14;100(24):14339-44. Epub 2003 Nov 14.

Department of Medicine, University of Washington Genome Center, Box 352145, Seattle, WA 98195-2145, USA.

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http://dx.doi.org/10.1073/pnas.2036282100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC283593PMC
November 2003

The DNA sequence of human chromosome 7.

Authors:
Ladeana W Hillier Robert S Fulton Lucinda A Fulton Tina A Graves Kymberlie H Pepin Caryn Wagner-McPherson Dan Layman Jason Maas Sara Jaeger Rebecca Walker Kristine Wylie Mandeep Sekhon Michael C Becker Michelle D O'Laughlin Mark E Schaller Ginger A Fewell Kimberly D Delehaunty Tracie L Miner William E Nash Matt Cordes Hui Du Hui Sun Jennifer Edwards Holland Bradshaw-Cordum Johar Ali Stephanie Andrews Amber Isak Andrew Vanbrunt Christine Nguyen Feiyu Du Betty Lamar Laura Courtney Joelle Kalicki Philip Ozersky Lauren Bielicki Kelsi Scott Andrea Holmes Richard Harkins Anthony Harris Cynthia Madsen Strong Shunfang Hou Chad Tomlinson Sara Dauphin-Kohlberg Amy Kozlowicz-Reilly Shawn Leonard Theresa Rohlfing Susan M Rock Aye-Mon Tin-Wollam Amanda Abbott Patrick Minx Rachel Maupin Catrina Strowmatt Phil Latreille Nancy Miller Doug Johnson Jennifer Murray Jeffrey P Woessner Michael C Wendl Shiaw-Pyng Yang Brian R Schultz John W Wallis John Spieth Tamberlyn A Bieri Joanne O Nelson Nicolas Berkowicz Patricia E Wohldmann Lisa L Cook Matthew T Hickenbotham James Eldred Donald Williams Joseph A Bedell Elaine R Mardis Sandra W Clifton Stephanie L Chissoe Marco A Marra Christopher Raymond Eric Haugen Will Gillett Yang Zhou Rose James Karen Phelps Shawn Iadanoto Kerry Bubb Elizabeth Simms Ruth Levy James Clendenning Rajinder Kaul W James Kent Terrence S Furey Robert A Baertsch Michael R Brent Evan Keibler Paul Flicek Peer Bork Mikita Suyama Jeffrey A Bailey Matthew E Portnoy David Torrents Asif T Chinwalla Warren R Gish Sean R Eddy John D McPherson Maynard V Olson Evan E Eichler Eric D Green Robert H Waterston Richard K Wilson

Nature 2003 Jul;424(6945):157-64

Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St Louis, Missouri 63108, USA.

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http://dx.doi.org/10.1038/nature01782DOI Listing
July 2003

Whole-genome sequence variation among multiple isolates of Pseudomonas aeruginosa.

J Bacteriol 2003 Feb;185(4):1316-25

The University of Washington Genome Center, Department of Medicine, University of Washington. Children's Hospital and Regional Medical Center, Seattle, Washington 98195, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC142842PMC
http://dx.doi.org/10.1128/jb.185.4.1316-1325.2003DOI Listing
February 2003

Genetic variation at the O-antigen biosynthetic locus in Pseudomonas aeruginosa.

J Bacteriol 2002 Jul;184(13):3614-22

University of Washington Genome Center, Department of Medicine, University of Washington, Seattle, Washington 98195, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC135118PMC
http://dx.doi.org/10.1128/jb.184.13.3614-3622.2002DOI Listing
July 2002