S
Sean Humphray
Researcher at Illumina
Publications - 86
Citations - 69908
Sean Humphray is an academic researcher from Illumina. The author has contributed to research in topics: Genome & Contig. The author has an hindex of 53, co-authored 86 publications receiving 60294 citations. Previous affiliations of Sean Humphray include Wellcome Trust Sanger Institute & Washington University in St. Louis.
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Journal ArticleDOI
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
LaDeana W. Hillier,Webb Miller,Ewan Birney,Wesley C. Warren,Ross C. Hardison,Chris P. Ponting,Peer Bork,David W. Burt,Martien A. M. Groenen,Mary E. Delany,Jerry B. Dodgson,Asif T. Chinwalla,Paul F. Cliften,Sandra W. Clifton,Kimberly D. Delehaunty,Catrina Fronick,Robert S. Fulton,Tina Graves,Colin Kremitzki,Dan Layman,Vincent Magrini,John Douglas Mcpherson,Tracie L. Miner,Patrick Minx,William E. Nash,Michael N. Nhan,Joanne O. Nelson,Lachlan G. Oddy,Craig Pohl,Jennifer Randall-Maher,Scott M. Smith,John W. Wallis,Shiaw Pyng Yang,Michael N Romanov,Catherine M. Rondelli,Bob Paton,Jacqueline Smith,David Morrice,Laura M. Daniels,Helen G. Tempest,Lindsay Robertson,Julio S. Masabanda,Darren K. Griffin,Alain Vignal,Valerie Fillon,Lina Jacobbson,Susanne Kerje,Leif Andersson,Richard P. M. A. Crooijmans,Jan Aerts,Jan J. van der Poel,Hans Ellegren,Randolph B. Caldwell,Simon J. Hubbard,Darren Grafham,Andrzej M. Kierzek,Stuart McLaren,Ian M. Overton,Hiroshi Arakawa,Kevin J. Beattie,Yuri Bezzubov,Paul E. Boardman,James K. Bonfield,Michael D. R. Croning,Robert L. Davies,Matthew D. Francis,Sean Humphray,Carol Scott,Ruth Taylor,Cheryll Tickle,William Brown,Jane Rogers,Jean-Marie Buerstedde,Stuart A. Wilson,Lisa Stubbs,Ivan Ovcharenko,Laurie Gordon,Susan Lucas,Marcia M. Miller,Hidetoshi Inoko,Takashi Shiina,James C. Kaufman,Jan Salomonsen,Karsten Skjoedt,Gane Ka-Shu Wong,Jun Wang,Bin Liu,Jian Wang,Jun Yu,Huanming Yang,Mikhail Nefedov,Maxim Koriabine,Pieter J. deJong,Leo Goodstadt,Caleb Webber,Nicholas J. Dickens,Ivica Letunic,Mikita Suyama,David Torrents,Christian von Mering,Evgeny M. Zdobnov,Kateryna D. Makova,Anton Nekrutenko,Laura Elnitski,Pallavi Eswara,David C. King,Shan Yang,Svitlana Tyekucheva,Anusha Radakrishnan,Robert S. Harris,Francesca Chiaromonte,James Taylor,Jianbin He,Monique Rijnkels,Sam Griffiths-Jones,Abel Ureta-Vidal,Michael M. Hoffman,Jessica Severin,Stephen M. J. Searle,Andy Law,David Speed,D. Waddington,Ze Cheng,Eray Tüzün,Evan E. Eichler,Zhirong Bao,Paul Flicek,David Shteynberg,Michael R. Brent,Jacqueline M. Bye,Elizabeth J. Huckle,Sourav Chatterji,Colin N. Dewey,Lior Pachter,Andrei Kouranov,Zissimos Mourelatos,Artemis G. Hatzigeorgiou,Andrew H. Paterson,Robert Ivarie,Mikael Brandström,Erik Axelsson,Niclas Backström,Sofia Berlin,Matthew T. Webster,Olivier Pourquié,Alexandre Reymond,Catherine Ucla,Stylianos E. Antonarakis,Manyuan Long,J. J. Emerson,Esther Betrán,Isabelle Dupanloup,Henrik Kaessmann,Angie S. Hinrichs,Gill Bejerano,Terrence S. Furey,Rachel A. Harte,Brian J. Raney,Adam Siepel,W. James Kent,David Haussler,Eduardo Eyras,Robert Castelo,Josep F. Abril,Sergi Castellano,Francisco Camara,Genís Parra,Roderic Guigó,Guillaume Bourque,Glenn Tesler,Pavel A. Pevzner,Arian F.A. Smit,Lucinda Fulton,Elaine R. Mardis,Richard K. Wilson +174 more
TL;DR: A draft genome sequence of the red jungle fowl, Gallus gallus, provides a new perspective on vertebrate genome evolution, while also improving the annotation of mammalian genomes.
Journal ArticleDOI
Analysis of Circulating Tumor DNA to Monitor Metastatic Breast Cancer
Sarah-Jane Dawson,Dana W.Y. Tsui,Muhammed Murtaza,Heather Biggs,Oscar M. Rueda,Suet-Feung Chin,Mark J Dunning,Davina Gale,Tim Forshew,Betania Mahler-Araujo,Sabrina Rajan,Sean Humphray,Jennifer Becq,David Halsall,Matthew G. Wallis,David Bentley,Carlos Caldas,Nitzan Rosenfeld +17 more
TL;DR: This proof-of-concept analysis showed that circulating tumor DNA is an informative, inherently specific, and highly sensitive biomarker of metastatic breast cancer.
Journal ArticleDOI
A comprehensive catalogue of somatic mutations from a human cancer genome
Erin Pleasance,R. Keira Cheetham,Philip J. Stephens,David J. McBride,Sean Humphray,Christopher Greenman,Ignacio Varela,Meng-Lay Lin,Gonzalo R. Ordóñez,Graham R. Bignell,Kai Ye,Julie Alipaz,Markus J. Bauer,David Beare,Adam Butler,Richard J. Carter,Lina Chen,Anthony J. Cox,Sarah Edkins,Paula Kokko-Gonzales,Niall Anthony Gormley,Russell J. Grocock,Christian D. Haudenschild,Matthew M. Hims,Terena James,Mingming Jia,Zoya Kingsbury,Catherine Leroy,John Marshall,Andrew Menzies,Laura Mudie,Zemin Ning,Thomas Royce,Ole Schulz-Trieglaff,Anastassia Spiridou,Lucy Stebbings,Lukasz Szajkowski,Jon W. Teague,David Williamson,Lynda Chin,Mark T. Ross,Peter J. Campbell,David R. Bentley,P. Andrew Futreal,Michael R. Stratton,Michael R. Stratton +45 more
TL;DR: The genomes of a malignant melanoma and a lymphoblastoid cell line from the same person are sequenced, providing the first comprehensive catalogue of somatic mutations from an individual cancer.
Journal ArticleDOI
Non-invasive analysis of acquired resistance to cancer therapy by sequencing of plasma DNA
Muhammed Murtaza,Sarah-Jane Dawson,Dana W.Y. Tsui,Davina Gale,Tim Forshew,Anna M. Piskorz,Christine Parkinson,Suet-Feung Chin,Zoya Kingsbury,Alvin Wong,Francesco Marass,Sean Humphray,James Hadfield,David Bentley,Tan Min Chin,Tan Min Chin,James D. Brenton,Carlos Caldas,Nitzan Rosenfeld +18 more
TL;DR: Serial analysis of cancer genomes in plasma constitutes a new paradigm for the study of clonal evolution in human cancers, establishing proof of principle that exome-wide analysis of circulating tumour DNA could complement current invasive biopsy approaches to identify mutations associated with acquired drug resistance in advanced cancers.
Journal ArticleDOI
Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
William C. Nierman,William C. Nierman,Arnab Pain,Michael J. Anderson,Jennifer R. Wortman,Jennifer R. Wortman,H. Stanley Kim,H. Stanley Kim,Javier Arroyo,Matthew Berriman,Keietsu Abe,David B. Archer,Clara Bermejo,Joan W. Bennett,Paul Bowyer,Dan Chen,Dan Chen,Matthew Collins,Richard Coulsen,Robert L. Davies,Paul S. Dyer,Mark L. Farman,Nadia Fedorova,Nadia Fedorova,Natalie D. Fedorova,Natalie D. Fedorova,T. Feldblyum,T. Feldblyum,Reinhard Fischer,Nigel Fosker,Audrey Fraser,José Luis García,María Josefa Marcos García,Ariette Goble,Gustavo H. Goldman,Katsuya Gomi,Sam Griffith-Jones,R. Gwilliam,Brian J. Haas,Brian J. Haas,Hubertus Haas,David Harris,H. Horiuchi,Jiaqi Huang,Jiaqi Huang,Sean Humphray,Javier Jiménez,Nancy P. Keller,H. Khouri,H. Khouri,Katsuhiko Kitamoto,Tetsuo Kobayashi,Sven Konzack,Resham Kulkarni,Resham Kulkarni,Toshitaka Kumagai,Anne Lafton,Jean-Paul Latgé,Weixi Li,Angela Lord,Charles Lu,Charles Lu,William H. Majoros,William H. Majoros,Gregory S. May,Bruce L. Miller,Yasmin Ali Mohamoud,Yasmin Ali Mohamoud,María Molina,Michel Monod,Isabelle Mouyna,Stephanie Mulligan,Stephanie Mulligan,Lee Murphy,Susan O'Neil,Ian T. Paulsen,Ian T. Paulsen,Miguel A. Peñalva,Mihaela Pertea,Mihaela Pertea,Claire Price,Bethan L. Pritchard,Michael A. Quail,Ester Rabbinowitsch,Neil Rawlins,Marie Adele Rajandream,Utz Reichard,Hubert Renauld,Geoffrey D. Robson,Santiago Rodríguez de Córdoba,José Manuel Rodríguez-Peña,Catherine M. Ronning,Catherine M. Ronning,Simon Rutter,Steven L. Salzberg,Steven L. Salzberg,Miguel del Nogal Sánchez,Juan C. Sánchez-Ferrero,David L. Saunders,Kathy Seeger,Rob Squares,S. Squares,Michio Takeuchi,Fredj Tekaia,Geoffrey Turner,Carlos R. Vázquez de Aldana,J. Weidman,J. Weidman,Owen White,Owen White,John Woodward,Jae-Hyuk Yu,Claire M. Fraser,Claire M. Fraser,James E. Galagan,Kiyoshi Asai,Masayuki Machida,Neil Hall,Neil Hall,Bart Barrell,David W. Denning +120 more
TL;DR: The Af293 genome sequence provides an unparalleled resource for the future understanding of this remarkable fungus and revealed temperature-dependent expression of distinct sets of genes, as well as 700 A. fumigatus genes not present or significantly diverged in the closely related sexual species Neosartorya fischeri, many of which may have roles in the pathogenicity phenotype.