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Nancy Holroyd
Researcher at Wellcome Trust Sanger Institute
Publications - 89
Citations - 10604
Nancy Holroyd is an academic researcher from Wellcome Trust Sanger Institute. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 30, co-authored 83 publications receiving 9458 citations.
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Journal ArticleDOI
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
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 Frum,Elizabeth Rosenzweig,Neerja Karnani,Kirsten Lee,Gregory 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 R. Sunyaev,William Stafford Noble,Ian Dunham,Alexandre Reymond,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,Josep F. Abril,Atif Shahab,Christoph Flamm,Christoph Flamm,Claudia Fried,Jörg Hackermüller,Jana Hertel,Manja Lindemeyer,Kristin Missal,Andrea Tanzer,Andrea Tanzer,Stefan Washietl,Jan O. Korbel,Olof Emanuelsson,Jakob Skou Pedersen,Nancy Holroyd,Ruth Taylor,David Swarbreck,Nicholas Matthews,Mark Dickson,Daryl J. Thomas,Matthew T. Weirauch,James G. R. Gilbert,Jorg Drenkow,Ian Bell,Xiaodong Zhao,Kandhadayar G. Srinivasan,Wing-Kin Sung,Hong Sain Ooi,Kuo Ping Chiu,Sylvain Foissac,Tyler Alioto,Michael R. 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,Jia Qian Wu,Zheng Lian,Jin Lian,Peter E. Newburger,Xueqing Zhang,Peter J. Bickel,John S. Mattick,Piero Carninci,Yoshihide Hayashizaki,Sherman M. Weissman,Tim Hubbard,Richard M. Myers,Jane Rogers,Peter F. Stadler,Peter F. Stadler,Peter F. Stadler,Todd M. Lowe,Chia-Lin Wei,Yijun Ruan,Kevin Struhl,Mark Gerstein,Stylianos E. Antonarakis,Yutao Fu,Eric D. Green,Ulas Karaoz,Adam Siepel,Adam Siepel,James Taylor,Laura A. Liefer,Kris A. Wetterstrand,Peter J. Good,Elise A. Feingold,Mark S. Guyer,Gregory M. Cooper,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,Nan Zhang,Nan Zhang,Ian Holmes,James C. Mullikin,Abel Ureta-Vidal,Benedict Paten,Michael Seringhaus,Deanna M. Church,Kate R. 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 O. Barrera,Rhona K. Stuart,David C. King,Adam Ameur,Stefan Enroth,Mark Bieda,Jonghwan Kim,Akshay Bhinge,Nan Jiang,Jun Liu,Fei Yao,Vinsensius B. Vega,Charlie W.H. Lee,Patrick Ng,Annie Yang,Zarmik Moqtaderi,Zhou Zhu,Xiaoqin Xu,Sharon L. Squazzo,Matthew J. Oberley,David R. Inman,Michael A. Singer,Todd Richmond,Kyle J. Munn,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 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 C. Hon,Rosa Luna,Christopher K. Glass,M. Geoff Rosenfeld,Shelley Force Aldred,Sara J. Cooper,Anason S. Halees,Jane M. Lin,Hennady P. Shulha,Xiaoling Zhang,Mousheng Xu,Jaafar N. Haidar,Yong Yu,Vishwanath R. Iyer,Roland 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 E. Smith,Archana Thakkapallayil,Galt P. Barber,Robert M. Kuhn,Donna Karolchik,Lluís 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 S. Dimas,Eduardo Eyras,Ingileif B. Hallgrímsdóttir,Julian L. Huppert,Michael C. Zody,Gonçalo R. Abecasis,Xavier Estivill,Gerard G. Bouffard,Xiaobin Guan,Nancy F. Hansen,Jacquelyn R. Idol,Valerie 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 S. 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,Eric S. Lander,Maxim Koriabine,Mikhail Nefedov,Kazutoyo Osoegawa,Yuko Yoshinaga,Baoli Zhu,Pieter J. de Jong +320 more
TL;DR: Functional data from multiple, diverse experiments performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE Project are reported, providing convincing evidence that the genome is pervasively transcribed, such that the majority of its bases can be found in primary transcripts.
Journal ArticleDOI
The genomes of four tapeworm species reveal adaptations to parasitism
Isheng J. Tsai,Magdalena Zarowiecki,Nancy Holroyd,Alejandro Garciarrubio,Alejandro Sanchez-Flores,Karen Brooks,Alan Tracey,Raúl J. Bobes,Gladis Fragoso,Edda Sciutto,Martin Aslett,Helen Beasley,Hayley M. Bennett,Jianping Cai,Federico Camicia,Richard Clark,Marcela Alejandra Cucher,Nishadi De Silva,Tim A. Day,Peter Deplazes,Karel Estrada,Cecilia Fernández,Peter W. H. Holland,Junling Hou,Songnian Hu,Thomas Huckvale,Stacy S. Hung,Laura Kamenetzky,Jacqueline A. Keane,Ferenc Kiss,Uriel Koziol,Olivia Lambert,Kan Liu,Xuenong Luo,Yingfeng Luo,Natalia Macchiaroli,Sarah Nichol,Jordi Paps,John Parkinson,Natasha Pouchkina-Stantcheva,Nick Riddiford,Mara Cecilia Rosenzvit,Gustavo Salinas,James D. Wasmuth,Mostafa Zamanian,Yadong Zheng,Xuepeng Cai,Xavier Soberón,Peter D. Olson,Juan Pedro Laclette,Klaus Brehm,Matthew Berriman +51 more
TL;DR: An analysis of tapeworm genome sequences using the human-infective species Echinococcus multilocularis, E. granulosus, Taenia solium and the laboratory model Hymenolepis microstoma offers insights into the evolution of parasitism and identifies new potential drug targets.
Journal ArticleDOI
Insights from the complete genome sequence of Mycobacterium marinum on the evolution of Mycobacterium tuberculosis
Timothy P. Stinear,Torsten Seemann,Paul Harrison,Grant A. Jenkin,John K. Davies,Paul D R Johnson,Zahra Abdellah,Claire Arrowsmith,Tracey Chillingworth,Carol Churcher,Kay Clarke,Ann Cronin,Paul Davis,Ian Goodhead,Nancy Holroyd,Kay Jagels,Angela Lord,Sharon Moule,Karen Mungall,Halina Norbertczak,Michael A. Quail,Ester Rabbinowitsch,Danielle Walker,Brian White,Sally Whitehead,Pamela L. C. Small,Roland Brosch,Lalita Ramakrishnan,Michael A. Fischbach,Julian Parkhill,Stewart T. Cole +30 more
TL;DR: The genome of the M strain of M. marinum comprises a 6,636,827-bp circular chromosome with 5424 CDS, 10 prophages, and a 23-kb mercury-resistance plasmid as discussed by the authors.
Journal ArticleDOI
A systematically improved high quality genome and transcriptome of the human blood fluke Schistosoma mansoni.
Anna V. Protasio,Isheng J. Tsai,A K Babbage,Sarah Nichol,Martin Hunt,Martin Aslett,Nishadi De Silva,Giles S. Velarde,Tim J. Anderson,Richard Clark,Claire Davidson,Gary P. Dillon,Nancy Holroyd,Philip T. LoVerde,Christine Lloyd,Jacquelline McQuillan,Guilherme Oliveira,Thomas D. Otto,Sophia J. Parker-Manuel,Michael A. Quail,R. Alan Wilson,Adhemar Zerlotini,David W. Dunne,Matthew Berriman +23 more
TL;DR: The upgraded genome of Schistosoma mansoni will form a fundamental dataset to underpin further advances in schistosome research and is consolidated into a searchable format within the GeneDB and SchistoDB databases.
Journal ArticleDOI
The Genome of Burkholderia cenocepacia J2315, an Epidemic Pathogen of Cystic Fibrosis Patients
Matthew T. G. Holden,Helena M. B. Seth-Smith,Lisa Crossman,Mohammed Sebaihia,Stephen D. Bentley,Ana Cerdeño-Tárraga,Nicholas R. Thomson,Nathalie Bason,Michael A. Quail,Sarah Sharp,Inna Cherevach,Carol Churcher,Ian Goodhead,Heidi Hauser,Nancy Holroyd,Karen Mungall,Paul Scott,Danielle Walker,Brian White,Helen Rose,Pernille Iversen,Dalila Mil-Homens,Eduardo P. C. Rocha,Eduardo P. C. Rocha,Arsenio M. Fialho,Adam Baldwin,Christopher G. Dowson,Bart Barrell,John R. W. Govan,Peter Vandamme,C. Anthony Hart,Eshwar Mahenthiralingam,Julian Parkhill +32 more
TL;DR: The J2315 genome contains evidence that its unique and highly adapted genetic content has played a significant role in its success as an epidemic CF pathogen, and Pseudogenes in virulence determinants suggest that the pathogenic response of J 2315 may have been recently selected to promote persistence in the CF lung.