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Stephen J. Trevanion
Researcher at European Bioinformatics Institute
Publications - 36
Citations - 12415
Stephen J. Trevanion is an academic researcher from European Bioinformatics Institute. The author has contributed to research in topics: Ensembl & Genome. The author has an hindex of 22, co-authored 35 publications receiving 7691 citations. Previous affiliations of Stephen J. Trevanion include Commonwealth Scientific and Industrial Research Organisation & Queen's University.
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Journal ArticleDOI
The zebrafish reference genome sequence and its relationship to the human genome.
Kerstin Howe,Matthew D. Clark,Carlos Torroja,Carlos Torroja,James Torrance,Camille Berthelot,Matthieu Muffato,John E. Collins,Sean Humphray,Karen McLaren,Lucy Matthews,Stuart McLaren,Ian M Sealy,Mario Caccamo,Carol Churcher,Carol Scott,Jeffrey C. Barrett,Romke Koch,Gerd Jörg Rauch,Simon D. M. White,William Chow,Britt Kilian,Leonor T. Quintais,José Afonso Guerra-Assunção,Yi Zhou,Yong Gu,Jennifer Yen,Jan Hinnerk Vogel,Tina Eyre,Seth Redmond,Ruby Banerjee,Jianxiang Chi,Beiyuan Fu,Elizabeth Langley,Sean Maguire,Gavin K. Laird,D. M. Lloyd,Emma J. Kenyon,Sarah Donaldson,Harminder Sehra,Jeff Almeida-King,Jane E. Loveland,Stephen J. Trevanion,Matthew Jones,Michael A. Quail,Dave Willey,Adrienne Hunt,John Burton,Sarah Sims,Kirsten McLay,Bob Plumb,J. C. Davis,Chris Clee,Karen Oliver,Richard M. Clark,Clare Riddle,David Eliott,Glen Threadgold,Glenn Harden,Darren Ware,Beverly Mortimer,Giselle Kerry,Paul Heath,Benjamin Phillimore,Alan Tracey,N Corby,Matthew Dunn,Christopher M. Johnson,Jonathan Wood,Susan J. Clark,Sarah Pelan,Guy Griffiths,Michelle Smith,Rebecca Glithero,Philip Howden,Nick Barker,Christopher Stevens,Joanna Harley,Karen Holt,Georgios Panagiotidis,J Lovell,Helen Beasley,Carl Henderson,Daria Gordon,Katherine Auger,Debbie E. Wright,Joanna Collins,Claire Raisen,Lauren Dyer,Kenric Leung,Lauren Robertson,Kirsty Ambridge,Daniel Leongamornlert,Sarah McGuire,Ruth Gilderthorp,C Griffiths,Deepa Manthravadi,Sarah Nichol,Gary L A Barker,S. Whitehead,Michael Kay,Jacqueline Brown,Clare Murnane,Emma Gray,Matthew Humphries,N Sycamore,Darren Barker,David S. Saunders,J. M. Wallis,A K Babbage,S Hammond,M Mashreghi-Mohammadi,Lucy Barr,Sancha Martin,Paul Wray,Andrew D. Ellington,Nicholas Matthews,Matthew Ellwood,Rebecca Woodmansey,Graham Clark,James D. Cooper,A Tromans,Darren Grafham,C. D. Skuce,Richard Pandian,Robert Andrews,Elliot Harrison,A M Kimberley,J Garnett,Nigel Fosker,Rebekah Hall,P Garner,Daniel P. Kelly,Christine P. Bird,Sophie Palmer,Ines Gehring,Andrea Berger,Christopher M. Dooley,Christopher M. Dooley,Zübeyde Ersan-Ürün,Cigdem Eser,Horst Geiger,Maria Geisler,Lena Karotki,Anette Kirn,Judith Konantz,Martina Konantz,Martina Oberländer,Silke Rudolph-Geiger,Mathias Teucke,Kazutoyo Osoegawa,Baoli Zhu,Amanda Rapp,Sara Widaa,Cordelia Langford,Fengtang Yang,Nigel P. Carter,Jennifer Harrow,Zemin Ning,Javier Herrero,Steve Searle,Anton J. Enright,Robert Geisler,Robert Geisler,Ronald H.A. Plasterk,Charles Lee,Monte Westerfield,Pieter J. de Jong,Leonard I. Zon,John H. Postlethwait,Christiane Nüsslein-Volhard,Tim Hubbard,Hugues Roest Crollius,Jane Rogers,Derek L. Stemple +174 more
TL;DR: A high-quality sequence assembly of the zebrafish genome is generated, made up of an overlapping set of completely sequenced large-insert clones that were ordered and oriented using a high-resolution high-density meiotic map, providing a clearer understanding of key genomic features such as a unique repeat content, a scarcity of pseudogenes, an enrichment of zebra fish-specific genes on chromosome 4 and chromosomal regions that influence sex determination.
Journal ArticleDOI
The NHGRI-EBI GWAS Catalog of published genome-wide association studies, targeted arrays and summary statistics 2019.
Annalisa Buniello,Jacqueline A. L. MacArthur,Maria Cerezo,Laura W. Harris,James D. Hayhurst,Cinzia Malangone,Aoife McMahon,Joannella Morales,Edward Mountjoy,Edward Mountjoy,Elliot Sollis,Daniel Suveges,Olga Vrousgou,Patricia L. Whetzel,M. Ridwan Amode,Jose A. Guillen,Harpreet Singh Riat,Stephen J. Trevanion,Peggy Hall,Heather Junkins,Paul Flicek,Tony Burdett,Lucia A. Hindorff,Fiona Cunningham,Helen Parkinson +24 more
TL;DR: Improved data access is improved with the release of a new RESTful API to support high-throughput programmatic access, an improved web interface and a new summary statistics database.
Journal ArticleDOI
The GTEx Consortium atlas of genetic regulatory effects across human tissues
François Aguet,Alvaro N. Barbeira,Rodrigo Bonazzola,Andrew A. Brown,SE Castel,Brian Jo,Silva Kasela,Sarah Kim-Hellmuth,Yanyu Liang,Meritxell Oliva,Elise D. Flynn,Princy Parsana,Laure Fresard,Eric R. Gamazon,Andrew R. Hamel,Yuan He,Farhad Hormozdiari,Pejman Mohammadi,Manuel Muñoz-Aguirre,YoSon Park,Ashis Saha,Ayellet V. Segrè,Benjamin J. Strober,Xiaoquan Wen,Wucher,Kristin G. Ardlie,Alexis Battle,Christopher D. Brown,Nancy J. Cox,Souvik Das,Emmanouil T. Dermitzakis,Barbara E. Engelhardt,D Garrido-Martin,Gad Getz,Roderic Guigó,Robert E. Handsaker,Paul J. Hoffman,Hae Kyung Im,Seva Kashin,Alan Kwong,Lappalainen T,Xiao Li,Daniel G. MacArthur,Stephen B. Montgomery,John M. Rouhana,Matthew Stephens,Barbara E. Stranger,Ellen Todres,Ana Viñuela,Gao Wang,Yuxin Zou,Shankara Anand,S. Gabriel,Aaron Graubert,Kane Hadley,Katherine H. Huang,Meier,Jared L. Nedzel,Duyen T. Nguyen,Brunilda Balliu,Donald F. Conrad,Daniel J. Cotter,OM deGoede,Jonah Einson,Eskin E,Tiffany Eulalio,Nicole M. Ferraro,Michael J. Gloudemans,Lei Hou,Serghei Mangul,Daniel Nachun,Andrew B. Nobel,Abhiram Rao,Ferran Reverter,Chiara Sabatti,Andrew D Skol,Nicole A. Teran,Fred A. Wright,Pedro G. Ferreira,Gen Li,Marta Melé,Esti Yeger-Lotem,Mary Barcus,Debra Bradbury,T Krubit,Jeffrey McLean,Liqun Qi,Karna Robinson,Nancy Roche,Anna M. Smith,David E. Tabor,Anita H. Undale,Jason Bridge,Lori E. Brigham,Barbara A. Foster,Bryan Gillard,Rick Hasz,Marcus Hunter,Christopher Johns,Mark H. Johnson,Ellen Karasik,Gene Kopen,William F. Leinweber,Alisa McDonald,Mike Moser,Kevin Myer,Kimberly Ramsey,Bruce A. Roe,Saboor Shad,Jeffrey A. Thomas,Gary Walters,Michael Washington,Jessica Wheeler,Scott D. Jewell,Daniel C. Rohrer,David A. Davis,Deborah C. Mash,Leslie H. Sobin,Laura Barker,HM Gardiner,Maghboeba Mosavel,Laura A. Siminoff,Paul Flicek,Maximilian Haeussler,Thomas Juettemann,W. J. Kent,Christopher Lee,CC Powell,Kate R. Rosenbloom,Magali Ruffier,Dan Sheppard,Kieron Taylor,Stephen J. Trevanion,Zerbino,Nathan S. Abell,Joshua M. Akey,Lin Chen,Kathryn Demanelis,Jennifer A. Doherty,Andrew P. Feinberg,Kasper D. Hansen,Peter Hickey,Farzana Jasmine,Lihua Jiang,Rajinder Kaul,Manolis Kellis,Muhammad G. Kibriya,Jin Billy Li,Qin Li,Shin Lin,Sandra Linder,Brandon L. Pierce,Lindsay F. Rizzardi,Kevin S. Smith,Michael Snyder,John A. Stamatoyannopoulos,Hua Tang,Meng Wang,Phillip Branton,Latarsha J. Carithers,Ping Guan,Susan E. Koester,AR Little,Helen M. Moore,Concepcion R. Nierras,Abhi Rao,Jimmie B. Vaught,Simona Volpi +167 more
Journal Article
Ensembl 2021
Kevin L. Howe,P. Achuthan,Jamie Allen,Jorge Alvarez-Jarreta,M. R. Amode,Irina M. Armean,A. G. Azov,Ruth Bennett,Jyothish Bhai,Konstantinos Billis,Sanjay Boddu,M. Charkhchi,Carla Cummins,L. Da Rin Fioretto,Claire Davidson,K. Dodiya,B. El Houdaigui,R. Fatima,Astrid Gall,C. Garcia Giron,Tiago Grego,C. Guijarro-Clarke,Leanne Haggerty,A. Hemrom,Thibaut Hourlier,Osagie G. Izuogu,Thomas Juettemann,V. Kaikala,M. Kay,Ilias Lavidas,T. Le,Diana Lemos,J. Gonzalez Martinez,J. C. Marugán,Thomas Maurel,Aoife McMahon,S. Mohanan,Benjamin Moore,Matthieu Muffato,D. N. Oheh,D. Paraschas,Anne Parker,Andrew Parton,I. Prosovetskaia,Manoj Pandian Sakthivel,A. I. A. Salam,Bianca M. Schmitt,Helen Schuilenburg,Dan Sheppard,E. Steed,Michal Szpak,M. Szuba,Kieron Taylor,Anja Thormann,Glen Threadgold,Brandon Walts,Andrea Winterbottom,Marc Chakiachvili,A. Chaubal,N. De Silva,B. Flint,Adam Frankish,Sarah E. Hunt,Gr, I. Isley, Langridge, N.,Jane E. Loveland,Fergal J. Martin,Jonathan M. Mudge,Joannella Morales,Emily Perry,Magali Ruffier,John Tate,David Thybert,Stephen J. Trevanion,Fiona Cunningham,Andrew D. Yates,Daniel R. Zerbino,Paul Flicek +76 more
TL;DR: Recent Ensembl developments are presented including two new website portals, which are designed to provide core tools and services for genomes as soon as possible and has been deployed to support large biodiversity sequencing projects.
Journal ArticleDOI
Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics.
Alvaro N. Barbeira,Scott P. Dickinson,Rodrigo Bonazzola,Jiamao Zheng,Heather E. Wheeler,Jason M. Torres,Eric S. Torstenson,Kaanan P. Shah,Tzintzuni Garcia,Todd L. Edwards,Eli A. Stahl,Laura M. Huckins,François Aguet,Kristin G. Ardlie,Beryl B. Cummings,Ellen Gelfand,Gad Getz,Kane Hadley,Robert E. Handsaker,Katherine H. Huang,Seva Kashin,Konrad J. Karczewski,Monkol Lek,Xiao Li,Xiao Li,Daniel G. MacArthur,Jared L. Nedzel,Duyen T. Nguyen,Michael S. Noble,Ayellet V. Segrè,Casandra A. Trowbridge,Taru Tukiainen,Nathan S. Abell,Brunilda Balliu,Ruth Barshir,Omer Basha,Alexis Battle,Gireesh K. Bogu,Andrew A. Brown,Andrew A. Brown,Christopher D. Brown,Stephane E. Castel,Lin Chen,Colby Chiang,Donald F. Conrad,Farhan N. Damani,Joe R. Davis,Olivier Delaneau,Olivier Delaneau,Emmanouil T. Dermitzakis,Emmanouil T. Dermitzakis,Barbara E. Engelhardt,Eleazar Eskin,Pedro G. Ferreira,Laure Fresard,Eric R. Gamazon,Eric R. Gamazon,Diego Garrido-Martín,Ariel D. H. Gewirtz,Genna Gliner,Michael J. Gloudemans,Roderic Guigó,Ira M. Hall,Buhm Han,Yuan He,Farhad Hormozdiari,Cédric Howald,Cédric Howald,Brian Jo,Eun Yong Kang,Yungil Kim,Sarah Kim-Hellmuth,Tuuli Lappalainen,Gen Li,Xin Li,Boxiang Liu,Serghei Mangul,Mark I. McCarthy,Ian C. McDowell,Pejman Mohammadi,Jean Monlong,Jean Monlong,Stephen B. Montgomery,Manuel Muñoz-Aguirre,Manuel Muñoz-Aguirre,Anne Ndungu,Andrew B. Nobel,Meritxell Oliva,Halit Ongen,Halit Ongen,John Palowitch,Nikolaos I Panousis,Nikolaos I Panousis,Panagiotis Papasaikas,YoSon Park,Princy Parsana,Anthony Payne,Christine B. Peterson,Jie Quan,Ferran Reverter,Ferran Reverter,Chiara Sabatti,Ashis Saha,Michael Sammeth,Alexandra J. Scott,Andrey A. Shabalin,Reza Sodaei,Matthew Stephens,Barbara E. Stranger,Benjamin J. Strober,Jae Hoon Sul,Emily K. Tsang,Sarah Urbut,Martijn van de Bunt,Gao Wang,Xiaoquan Wen,Fred A. Wright,Hualin S. Xi,Esti Yeger-Lotem,Zachary Zappala,Judith B. Zaugg,Yi-Hui Zhou,Joshua M. Akey,Daniel Bates,Joanne Chan,Melina Claussnitzer,Melina Claussnitzer,Kathryn Demanelis,Morgan Diegel,Jennifer A. Doherty,Andrew P. Feinberg,Marian S. Fernando,Jessica Halow,Kasper D. Hansen,Eric Haugen,Peter Hickey,Lei Hou,Lei Hou,Farzana Jasmine,Ruiqi Jian,Lihua Jiang,Audra K. Johnson,Rajinder Kaul,Manolis Kellis,Manolis Kellis,Muhammad G. Kibriya,Kristen Lee,Jin Billy Li,Qin Li,Jessica Lin,Jessica Lin,Shin Lin,Shin Lin,Sandra Linder,Caroline Linke,Yaping Liu,Yaping Liu,Matthew T. Maurano,Benoit Molinie,Jemma Nelson,Fidencio J. Neri,Yongjin Park,Yongjin Park,Brandon L. Pierce,Nicola J. Rinaldi,Nicola J. Rinaldi,Lindsay F. Rizzardi,Richard Sandstrom,Andrew D. Skol,Kevin S. Smith,Michael Snyder,John A. Stamatoyannopoulos,Hua Tang,Li Wang,Meng Wang,Nicholas Van Wittenberghe,Fan Wu,Rui Zhang,Concepcion R. Nierras,Philip A. Branton,Latarsha J. Carithers,Ping Guan,Helen M. Moore,Abhi Rao,Jimmie B. Vaught,Sarah E. Gould,Nicole C. Lockart,Casey Martin,Jeffery P. Struewing,Simona Volpi,Anjené M. Addington,Susan E. Koester,A. Roger Little,Lori E. Brigham,Richard Hasz,Marcus Hunter,Christopher Johns,Mark H. Johnson,Gene Kopen,William F. Leinweber,John T. Lonsdale,Alisa McDonald,Bernadette Mestichelli,Kevin Myer,Brian Roe,Michael F. Salvatore,Saboor Shad,Jeffrey A. Thomas,Gary Walters,Michael Washington,Joseph Wheeler,Jason Bridge,Barbara A. Foster,Bryan Gillard,Ellen Karasik,Rachna Kumar,Mark Miklos,Michael T. Moser,Scott D. Jewell,Robert G. Montroy,Daniel C. Rohrer,Dana R. Valley,David A. Davis,Deborah C. Mash,Anita H. Undale,Anna M. Smith,David E. Tabor,Nancy Roche,Jeffrey McLean,Negin Vatanian,Karna Robinson,Leslie H. Sobin,Mary Barcus,Kimberly M. Valentino,Liqun Qi,Steven Hunter,Pushpa Hariharan,Shilpi Singh,Ki Sung Um,Takunda Matose,Maria M. Tomaszewski,Laura Barker,Maghboeba Mosavel,Laura A. Siminoff,Heather M. Traino,Paul Flicek,Thomas Juettemann,Magali Ruffier,Dan Sheppard,Kieron Taylor,Stephen J. Trevanion,Daniel R. Zerbino,Brian Craft,Mary Goldman,Maximilian Haeussler,W. James Kent,Christopher Lee,Benedict Paten,Kate R. Rosenbloom,John Vivian,Jingchun Zhu,Dan L. Nicolae,Nancy J. Cox,Hae Kyung Im +263 more
TL;DR: A mathematical expression is derived to compute PrediXcan results using summary data, and the effects of gene expression variation on human phenotypes in 44 GTEx tissues and >100 phenotypes are investigated.