Publications by authors named "Pamela J Thomas"

23Publications

Investigation of a Cluster of Sphingomonas koreensis Infections.

N Engl J Med 2018 12;379(26):2529-2539

From the National Human Genome Research Institute (R.C.J., C.D., S.C., S.L.-L., J.A.S.), National Institutes of Health (NIH) Clinical Center (C.J.Z., A.V.M., R.A.W., J.P.D., K.M.F., D.K.H., A.F.L., T.N.P.), and the Division of Facilities, Operations, and Maintenance (J.L.), NIH, Bethesda, and the NIH Intramural Sequencing Center, NIH, Rockville (P.J.T., M.P.) - all in Maryland; Wadsworth Center, New York State Department of Health, Albany (K.A.M.); and the Special Bacteriology Reference Laboratory, Division of High-Consequence Pathogens and Pathology, Centers for Disease Control and Prevention, Atlanta (J.R.M.). Dr. Park serves as an author on behalf of the NIH Intramural Sequencing Center Comparative Sequencing Program.

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http://www.nejm.org/doi/10.1056/NEJMoa1803238
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http://dx.doi.org/10.1056/NEJMoa1803238DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6322212PMC
December 2018

Approaches to target tractability assessment - a practical perspective.

Medchemcomm 2018 Apr 14;9(4):606-613. Epub 2018 Feb 14.

Computational and Modelling Sciences , Platform Technology and Sciences , GlaxoSmithKline Medicines Research Centre , Gunnels Wood Road, Stevenage , Hertfordshire , SG1 2NY , UK.

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http://dx.doi.org/10.1039/c7md00633kDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6072525PMC
April 2018

BAC-based sequencing of behaviorally-relevant genes in the prairie vole.

PLoS One 2012 6;7(1):e29345. Epub 2012 Jan 6.

Center for Translational Social Neuroscience and Yerkes National Primate Research Center, Emory University, Atlanta, Georgia, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0029345PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3253076PMC
May 2012

Haplotype-based genomic sequencing of a chromosomal polymorphism in the white-throated sparrow (Zonotrichia albicollis).

J Hered 2011 Jul-Aug;102(4):380-90. Epub 2011 May 25.

Department of Human Genetics, Emory University School of Medicine, 615 Michael St, Suite 301, Atlanta, GA 30322, USA.

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https://academic.oup.com/jhered/article-lookup/doi/10.1093/j
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http://dx.doi.org/10.1093/jhered/esr043DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3113616PMC
October 2011

Evolution of a bitter taste receptor gene cluster in a New World sparrow.

Genome Biol Evol 2010 Jul 12;2:358-70. Epub 2010 Jul 12.

Department of Human Genetics, Emory University School of Medicine, Atlanta, Georgia, USA.

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http://dx.doi.org/10.1093/gbe/evq027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2942037PMC
July 2010

A W-linked palindrome and gene conversion in New World sparrows and blackbirds.

Chromosome Res 2010 Jul 10;18(5):543-53. Epub 2010 Jun 10.

Department of Human Genetics, Emory University School of Medicine, Atlanta, GA, 30322, USA.

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http://link.springer.com/10.1007/s10577-010-9134-y
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http://dx.doi.org/10.1007/s10577-010-9134-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2922746PMC
July 2010

Adaptive evolution of foundation kinetochore proteins in primates.

Mol Biol Evol 2010 Jul 8;27(7):1585-97. Epub 2010 Feb 8.

Genome Technology Branch, National Institutes of Health, Bethesda, MD, USA.

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https://academic.oup.com/mbe/article/27/7/1585/960690
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http://dx.doi.org/10.1093/molbev/msq043DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2912471PMC
July 2010

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.

Authors:
Ewan Birney John A Stamatoyannopoulos Anindya Dutta Roderic Guigó Thomas R Gingeras Elliott H Margulies Zhiping Weng Michael Snyder Emmanouil T Dermitzakis Robert E Thurman Michael S Kuehn Christopher M Taylor Shane Neph Christoph M Koch Saurabh Asthana Ankit Malhotra Ivan Adzhubei Jason A Greenbaum Robert M Andrews Paul Flicek Patrick J Boyle Hua Cao Nigel P Carter Gayle K Clelland Sean Davis Nathan Day Pawandeep Dhami Shane C Dillon Michael O Dorschner Heike Fiegler Paul G Giresi Jeff Goldy Michael Hawrylycz Andrew Haydock Richard Humbert Keith D James Brett E Johnson Ericka M Johnson Tristan T Frum Elizabeth R Rosenzweig Neerja Karnani Kirsten Lee Gregory C Lefebvre Patrick A Navas Fidencio Neri Stephen C J Parker Peter J Sabo Richard Sandstrom Anthony Shafer David Vetrie Molly Weaver Sarah Wilcox Man Yu Francis S Collins Job Dekker Jason D Lieb Thomas D Tullius Gregory E Crawford Shamil Sunyaev William S Noble Ian Dunham France Denoeud Alexandre Reymond Philipp Kapranov Joel Rozowsky Deyou Zheng Robert Castelo Adam Frankish Jennifer Harrow Srinka Ghosh Albin Sandelin Ivo L Hofacker Robert Baertsch Damian Keefe Sujit Dike Jill Cheng Heather A Hirsch Edward A Sekinger Julien Lagarde Josep F Abril Atif Shahab Christoph Flamm Claudia Fried Jörg Hackermüller Jana Hertel Manja Lindemeyer Kristin Missal Andrea Tanzer Stefan Washietl Jan Korbel Olof Emanuelsson Jakob S Pedersen Nancy Holroyd Ruth Taylor David Swarbreck Nicholas Matthews Mark C Dickson Daryl J Thomas Matthew T Weirauch James Gilbert Jorg Drenkow Ian Bell XiaoDong Zhao K G Srinivasan Wing-Kin Sung Hong Sain Ooi Kuo Ping Chiu Sylvain Foissac Tyler Alioto Michael Brent Lior Pachter Michael L Tress Alfonso Valencia Siew Woh Choo Chiou Yu Choo Catherine Ucla Caroline Manzano Carine Wyss Evelyn Cheung Taane G Clark James B Brown Madhavan Ganesh Sandeep Patel Hari Tammana Jacqueline Chrast Charlotte N Henrichsen Chikatoshi Kai Jun Kawai Ugrappa Nagalakshmi Jiaqian Wu Zheng Lian Jin Lian Peter Newburger Xueqing Zhang Peter Bickel John S Mattick Piero Carninci Yoshihide Hayashizaki Sherman Weissman Tim Hubbard Richard M Myers Jane Rogers Peter F Stadler Todd M Lowe Chia-Lin Wei Yijun Ruan Kevin Struhl Mark Gerstein Stylianos E Antonarakis Yutao Fu Eric D Green Ulaş Karaöz Adam Siepel James Taylor Laura A Liefer Kris A Wetterstrand Peter J Good Elise A Feingold Mark S Guyer Gregory M Cooper George Asimenos Colin N Dewey Minmei Hou Sergey Nikolaev Juan I Montoya-Burgos Ari Löytynoja Simon Whelan Fabio Pardi Tim Massingham Haiyan Huang Nancy R Zhang Ian Holmes James C Mullikin Abel Ureta-Vidal Benedict Paten Michael Seringhaus Deanna Church Kate Rosenbloom W James Kent Eric A Stone Serafim Batzoglou Nick Goldman Ross C Hardison David Haussler Webb Miller Arend Sidow Nathan D Trinklein Zhengdong D Zhang Leah Barrera Rhona Stuart David C King Adam Ameur Stefan Enroth Mark C Bieda Jonghwan Kim Akshay A Bhinge Nan Jiang Jun Liu Fei Yao Vinsensius B Vega Charlie W H Lee Patrick Ng Atif Shahab Annie Yang Zarmik Moqtaderi Zhou Zhu Xiaoqin Xu Sharon Squazzo Matthew J Oberley David Inman Michael A Singer Todd A Richmond Kyle J Munn Alvaro Rada-Iglesias Ola Wallerman Jan Komorowski Joanna C Fowler Phillippe Couttet Alexander W Bruce Oliver M Dovey Peter D Ellis Cordelia F Langford David A Nix Ghia Euskirchen Stephen Hartman Alexander E Urban Peter Kraus Sara Van Calcar Nate Heintzman Tae Hoon Kim Kun Wang Chunxu Qu Gary Hon Rosa Luna Christopher K Glass M Geoff Rosenfeld Shelley Force Aldred Sara J Cooper Anason Halees Jane M Lin Hennady P Shulha Xiaoling Zhang Mousheng Xu Jaafar N S Haidar Yong Yu Yijun Ruan Vishwanath R Iyer Roland D Green Claes Wadelius Peggy J Farnham Bing Ren Rachel A Harte Angie S Hinrichs Heather Trumbower Hiram Clawson Jennifer Hillman-Jackson Ann S Zweig Kayla Smith Archana Thakkapallayil Galt Barber Robert M Kuhn Donna Karolchik Lluis Armengol Christine P Bird Paul I W de Bakker Andrew D Kern Nuria Lopez-Bigas Joel D Martin Barbara E Stranger Abigail Woodroffe Eugene Davydov Antigone Dimas Eduardo Eyras Ingileif B Hallgrímsdóttir Julian Huppert Michael C Zody Gonçalo R Abecasis Xavier Estivill Gerard G Bouffard Xiaobin Guan Nancy F Hansen Jacquelyn R Idol Valerie V B Maduro Baishali Maskeri Jennifer C McDowell Morgan Park Pamela J Thomas Alice C Young Robert W Blakesley Donna M Muzny Erica Sodergren David A Wheeler Kim C Worley Huaiyang Jiang George M Weinstock Richard A Gibbs Tina Graves Robert Fulton Elaine R Mardis Richard K Wilson Michele Clamp James Cuff Sante Gnerre David B Jaffe Jean L Chang Kerstin Lindblad-Toh Eric S Lander Maxim Koriabine Mikhail Nefedov Kazutoyo Osoegawa Yuko Yoshinaga Baoli Zhu Pieter J de Jong
June 2007

Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome.

Genome Res 2007 Jun;17(6):760-74

Genome Technology Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.

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http://mendel.stanford.edu/sidowlab/pdfs/2007EncodeGR.pdf
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http://www.genome.org/cgi/doi/10.1101/gr.6034307
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http://dx.doi.org/10.1101/gr.6034307DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891336PMC
June 2007

Comparative sequencing provides insights about the structure and conservation of marsupial and monotreme genomes.

Proc Natl Acad Sci U S A 2005 Mar 17;102(9):3354-9. Epub 2005 Feb 17.

Genome Technology Branch and NISC, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1073/pnas.0408539102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC549084PMC
March 2005

Transcription-associated mutational asymmetry in mammalian evolution.

Nat Genet 2003 Apr 3;33(4):514-7. Epub 2003 Mar 3.

Howard Hughes Medical Institute and Department of Genome Sciences, University of Washington, Seattle, Washington 98195, USA.

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http://dx.doi.org/10.1038/ng1103DOI Listing
April 2003

Parallel construction of orthologous sequence-ready clone contig maps in multiple species.

Genome Res 2002 Aug;12(8):1277-85

Genome Technology Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20892, USA.

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http://dx.doi.org/10.1101/gr.283202DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC186643PMC
August 2002