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Simon Brent
Researcher at Wellcome Trust Sanger Institute
Publications - 10
Citations - 1080
Simon Brent is an academic researcher from Wellcome Trust Sanger Institute. The author has contributed to research in topics: Ensembl & Exome. The author has an hindex of 7, co-authored 9 publications receiving 962 citations.
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Journal ArticleDOI
Ensembl comparative genomics resources
Javier Herrero,Javier Herrero,Matthieu Muffato,Kathryn Beal,Stephen Fitzgerald,Leo Gordon,Miguel Pignatelli,Albert J. Vilella,Stephen M. J. Searle,M. Ridwan Amode,Simon Brent,William Spooner,Eugene Kulesha,Eugene Kulesha,Andrew D. Yates,Paul Flicek +15 more
TL;DR: The consistency of the annotation across species and the focus on vertebrates makes Ensembl an ideal system to perform and support vertebrate comparative genomic analyses and it is used to produce reference comparative data and make it freely available.
Journal ArticleDOI
Ensembl’s 10th year
Paul Flicek,Bronwen Aken,Benoit Ballester,Kathryn Beal,Eugene Bragin,Simon Brent,Yuan Chen,Peter Clapham,Guy Coates,Susan Fairley,Stephen Fitzgerald,Julio Fernandez-Banet,Leo Gordon,Stefan Gräf,Syed Haider,Martin Hammond,Kerstin Howe,Andrew M. Jenkinson,Nathan Johnson,Andreas Kähäri,Damian Keefe,Stephen Keenan,Rhoda Kinsella,Felix Kokocinski,Gautier Koscielny,Eugene Kulesha,Daniel Lawson,Ian Longden,Tim Massingham,William M. McLaren,Karyn Megy,Bert Overduin,Bethan Pritchard,Daniel Rios,Magali Ruffier,Michael Schuster,Guy Slater,Damian Smedley,Giulietta Spudich,Y. Amy Tang,Stephen J. Trevanion,Albert J. Vilella,Jan Hinnerk Vogel,Simon D. M. White,Steven P. Wilder,Amonida Zadissa,Ewan Birney,Fiona Cunningham,Ian Dunham,Richard Durbin,Xosé M. Fernández-Suárez,Javier Herrero,Tim Hubbard,Anne Parker,Glenn Proctor,James Smith,Stephen M. J. Searle +56 more
TL;DR: Major additions and improvements to Ensembl since the previous report include the incorporation of the human GRCh37 assembly, enhanced visualisation and data-mining options for the Ensemblembl regulatory features and continued development of the software infrastructure.
Journal ArticleDOI
Ensembl variation resources.
Yuan Chen,Fiona Cunningham,Daniel Rios,William M. McLaren,James Smith,Bethan Pritchard,Giulietta Spudich,Simon Brent,Eugene Kulesha,Pablo Marin-Garcia,Damian Smedley,Ewan Birney,Paul Flicek,Paul Flicek +13 more
TL;DR: This paper provides a detailed description of the sources of data and the methods for creating the Ensembl variation databases, and explores the utility of the information by explaining the range of query options available, from using interactive web displays, to online data mining tools and connecting directly to the data servers programmatically.
Journal ArticleDOI
Ensembl regulation resources
Daniel R. Zerbino,Nathan Johnson,Thomas Juetteman,Dan Sheppard,Dan Sheppard,Steven P. Wilder,Ilias Lavidas,Michael Nuhn,Emily Perry,Quentin Raffaillac-Desfosses,Daniel Sobral,Damian Keefe,Stefan Gräf,Ikhlak Ahmed,Rhoda Kinsella,Bethan Pritchard,Simon Brent,Ridwan M Amode,Ridwan M Amode,Anne Parker,Anne Parker,Steven Trevanion,Steven Trevanion,Ewan Birney,Ian Dunham,Paul Flicek,Paul Flicek +26 more
TL;DR: A functional annotation of the regulatory elements along the human and mouse genomes with plans to expand to other species as data becomes available from the Ensembl project.
Posted ContentDOI
Prevalence, phenotype and architecture of developmental disorders caused by de novo mutation
Jeremy F. McRae,Stephen Clayton,Tomas W Fitzgerald,Joanna Kaplanis,Elena Prigmore,Diana Rajan,Alejandro Sifrim,Stuart Aitken,Nadia Akawi,Mohsan Alvi,Kirsty Ambridge,Daniel M Barrett,Tanya Bayzetinova,Philip Jones,Wendy D Jones,Daniel A. King,Netravathi Krishnappa,Laura E Mason,Tarjinder Singh,Adrian Tivey,Munaza Ahmed,Uruj Anjum,Hayley Archer,Ruth Armstrong,Jana Awada,Meena Balasubramanian,Siddharth Banka,Diana Baralle,Angela Barnicoat,Paul Batstone,D. Baty,Christopher P. Bennett,Jonathan Berg,Birgitta Bernhard,A. Paul Bevan,Maria Bitner-Glindzicz,Edward Blair,Moira Blyth,David Bohanna,Louise Bourdon,David Bourn,Lisa Bradley,Angela F. Brady,Simon Brent,Carole Brewer,Kate Brunstrom,David J Bunyan,John Burn,Natalie Canham,Bruce Castle,Kate Chandler,Elena Chatzimichali,Deirdre Cilliers,Angus John Clarke,Susan Clasper,Jill Clayton-Smith,Virginia Clowes,Andrea Coates,Trevor Cole,Irina Colgiu,Amanda L. Collins,Morag N Collinson,Fiona Connell,Nicola S. Cooper,Helen Cox,Lara Cresswell,Gareth Cross,Yanick J. Crow,Mariella D'Alessandro,Tabib Dabir,Rosemarie Davidson,Sally J. Davies,Dylan de Vries,John Dean,Charu Deshpande,Gemma Devlin,Abhijit Dixit,Angus Dobbie,Alan Donaldson,Dian Donnai,Deirdre E. Donnelly,Carina Donnelly,Angela E. Douglas,Sofia Douzgou,Alexis Duncan,Jacqueline Eason,Sian Ellard,Ian Ellis,Frances Elmslie,Karenza Evans,Sarah Everest,Tina Fendick,Richard Fisher,Frances Flinter,Nicola Foulds,Andrew E. Fry,Alan Fryer,Carol Gardiner,Lorraine Gaunt,Neeti Ghali,Richard Gibbons,Harinder Gill,Judith A. Goodship,David Goudie,Emma Gray,Andrew Green,Philip Greene,Lynn Greenhalgh,Susan M. Gribble,Rachel Harrison,Lucy Harrison,Victoria Harrison,Rose Hawkins,Liu He,Stephen W. Hellens,Alex Henderson,Sarah Hewitt,Lucy Hildyard,Emma Hobson,Simon Holden,Muriel Holder,Susan Holder,Georgina Hollingsworth,Tessa Homfray,Mervyn Humphreys,Jane A. Hurst,Ben Hutton,Stuart Ingram,Melita Irving,Lily Islam,Andrew Jackson,Joanna Jarvis,Lucy Jenkins,Diana Johnson,Elizabeth A. Jones,Dragana Josifova,Shelagh Joss,Beckie Kaemba,Sandra Kazembe,Rosemary Kelsell,Bronwyn Kerr,Helen Kingston,Usha Kini,Esther Kinning,Gail Kirby,Claire Kirk,Emma Kivuva,Alison Kraus,Dhavendra Kumar,V.K Ajith Kumar,Katherine Lachlan,Wayne Lam,Anne Lampe,Caroline Langman,Melissa Lees,Derek Lim,Cheryl Longman,Gordon Lowther,Sally Ann Lynch,Alex Magee,Eddy Maher,Alison Male,Sahar Mansour,Karen Marks,Katherine Martin,Una Maye,Emma McCann,Vivienne McConnell,Meriel McEntagart,Ruth McGowan,Kirsten McKay,Shane McKee,Dominic J. McMullan,Susan E. McNerlan,Catherine McWilliam,Sarju G. Mehta,Kay Metcalfe,Anna Middleton,Zosia Miedzybrodzka,Emma Miles,Shehla Mohammed,Tara Montgomery,David Moore,Sian Morgan,Jenny Morton,Hood Mugalaasi,Victoria Murday,Helen Murphy,Swati Naik,Andrea H. Németh,Louise Nevitt,Ruth Newbury-Ecob,Andrew R. Norman,Rosie O'Shea,Caroline Mackie Ogilvie,Kai-Ren Ong,Soo-Mi Park,Michael Parker,Chirag N. Patel,Joan Paterson,Stewart Payne,Daniel Perrett,Julie M. Phipps,Daniela T Pilz,Martin O. Pollard,Caroline Pottinger,Joanna Poulton,Norman Pratt,Katrina Prescott,Sue Price,Abigail Pridham,Annie Procter,Hellen Purnell,Oliver Quarrell,Nicola K. Ragge,Raheleh Rahbari,Josh Randall,Julia Rankin,Lucy Raymond,Debbie Rice,Leema Robert,Eileen Roberts,Jonathan Roberts,Paul Roberts,Gillian Roberts,Alison Ross,Elisabeth Rosser,Anand Saggar,Shalaka Samant,Julian R. Sampson,R Sandford,Ajoy Sarkar,Susann Schweiger,Richard H Scott,Ingrid Scurr,Ann Selby,Anneke Seller,Cheryl Sequeira,Nora Shannon,Saba Sharif,Charles Shaw-Smith,Emma Shearing,Debbie Shears,Eamonn Sheridan,Ingrid Simonic,Roldan Singzon,Zara Skitt,Audrey Smith,Kath Smith,Sarah F. Smithson,Linda Sneddon,Miranda Splitt,Miranda Squires,Fiona Stewart,Helen Stewart,Volker Straub,Mohnish Suri,Vivienne Sutton,Ganesh J. Swaminathan,Elizabeth M. Sweeney,Kate Tatton-Brown,Cat Taylor,Rohan Taylor,Mark Tein,I. Karen Temple,Jenny Thomson,Marc Tischkowitz,Susan Tomkins,Audrey Torokwa,Becky Treacy,Claire E. Turner,Peter D. Turnpenny,Carolyn Tysoe,Anthony Vandersteen,Vinod Varghese,Pradeep C. Vasudevan,Parthiban Vijayarangakannan,Julie Vogt,Emma Wakeling,Sarah Wallwark,Jonathon Waters,Astrid Weber,Diana Wellesley,Margo Whiteford,Sara Widaa,Sarah Wilcox,Emily Wilkinson,Denise Williams,Nicola Williams,Louise C. Wilson,Geoff Woods,Christopher Wragg,Michael Wright,Laura Yates,Michael Yau,Chris Nellaker,Helen V. Firth,Caroline F. Wright,David R. FitzPatrick,Jeffrey C. Barrett,Matthew E. Hurles +300 more
TL;DR: The most significant factors influencing the diagnostic yield of de novo mutations are the sex of the affected individual, the relatedness of their parents and the age of both father and mother as discussed by the authors.