Steven Wilder

Steven Wilder

Bioinformatician - Flicek team: Vertebrate genomics

ORCID iD: 0000-0001-8049-2559

Tel: + 44 (0) 1223 494 619 / Fax:+ 44 (0) 1223 494 468

Publications

2015

The ensembl regulatory build.
Zerbino DR, Wilder SP, Johnson N, Juettemann T, Flicek PR.
Genome Biol Volume 16 (2015) p.56
DOI: 10.1186/s13059-015-0621-5

Ensembl 2015.
Cunningham F, Amode MR, Barrell D, Beal K, Billis K, Brent S, Carvalho-Silva D, Clapham P, Coates G, Fitzgerald S, Gil L, Girón CG, Gordon L, Hourlier T, Hunt SE, Janacek SH, Johnson N, Juettemann T, Kähäri AK, Keenan S, Martin FJ, Maurel T, McLaren W, Murphy DN, Nag R, Overduin B, Parker A, Patricio M, Perry E, Pignatelli M, Riat HS, Sheppard D, Taylor K, Thormann A, Vullo A, Wilder SP, Zadissa A, Aken BL, Birney E, Harrow J, Kinsella R, Muffato M, Ruffier M, Searle SM, Spudich G, Trevanion SJ, Yates A, Zerbino DR, Flicek P.
Nucleic Acids Res Volume 43 (2015) p.d662-9
DOI: 10.1093/nar/gku1010

2014

Ensembl 2014.
Flicek P, Amode MR, Barrell D, Beal K, Billis K, Brent S, Carvalho-Silva D, Clapham P, Coates G, Fitzgerald S, Gil L, Girón CG, Gordon L, Hourlier T, Hunt S, Johnson N, Juettemann T, Kähäri AK, Keenan S, Kulesha E, Martin FJ, Maurel T, McLaren WM, Murphy DN, Nag R, Overduin B, Pignatelli M, Pritchard B, Pritchard E, Riat HS, Ruffier M, Sheppard D, Taylor K, Thormann A, Trevanion SJ, Vullo A, Wilder SP, Wilson M, Zadissa A, Aken BL, Birney E, Cunningham F, Harrow J, Herrero J, Hubbard TJ, Kinsella R, Muffato M, Parker A, Spudich G, Yates A, Zerbino DR, Searle SM.
Nucleic Acids Res Volume 42 (2014) p.d749-55
DOI: 10.1093/nar/gkt1196

Adaptive expression of microRNA-125a in adipose tissue in response to obesity in mice and men.
Diawara MR, Hue C, Wilder SP, Venteclef N, Aron-Wisnewsky J, Scott J, Clément K, Gauguier D, Calderari S.
PLoS One Volume 9 (2014) p.e91375
DOI: 10.1371/journal.pone.0091375

WiggleTools: parallel processing of large collections of genome-wide datasets for visualization and statistical analysis.
Zerbino DR, Johnson N, Juettemann T, Wilder SP, Flicek P.
Bioinformatics Volume 30 (2014) p.1008-1009
DOI: 10.1093/bioinformatics/btt737

2013

Ensembl 2013.
Flicek P, Ahmed I, Amode MR, Barrell D, Beal K, Brent S, Carvalho-Silva D, Clapham P, Coates G, Fairley S, Fitzgerald S, Gil L, García-Girón C, Gordon L, Hourlier T, Hunt S, Juettemann T, Kähäri AK, Keenan S, Komorowska M, Kulesha E, Longden I, Maurel T, McLaren WM, Muffato M, Nag R, Overduin B, Pignatelli M, Pritchard B, Pritchard E, Riat HS, Ritchie GR, Ruffier M, Schuster M, Sheppard D, Sobral D, Taylor K, Thormann A, Trevanion S, White S, Wilder SP, Aken BL, Birney E, Cunningham F, Dunham I, Harrow J, Herrero J, Hubbard TJ, Johnson N, Kinsella R, Parker A, Spudich G, Yates A, Zadissa A, Searle SM.
Nucleic Acids Res Volume 41 (2013) p.d48-55
DOI: 10.1093/nar/gks1236

Nutrigenomics of high fat diet induced obesity in mice suggests relationships between susceptibility to fatty liver disease and the proteasome.
Waller-Evans H, Hue C, Fearnside J, Rothwell AR, Lockstone HE, Caldérari S, Wilder SP, Cazier JB, Scott J, Gauguier D.
PLoS One Volume 8 (2013) p.e82825
DOI: 10.1371/journal.pone.0082825

Integrative annotation of chromatin elements from ENCODE data.
Hoffman MM, Ernst J, Wilder SP, Kundaje A, Harris RS, Libbrecht M, Giardine B, Ellenbogen PM, Bilmes JA, Birney E, Hardison RC, Dunham I, Kellis M, Noble WS.
Nucleic Acids Res Volume 41 (2013) p.827-841
DOI: 10.1093/nar/gks1284

ENCODE data in the UCSC Genome Browser: year 5 update.
Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ.
Nucleic Acids Res Volume 41 (2013) p.d56-63
DOI: 10.1093/nar/gks1172

2012

An integrated encyclopedia of DNA elements in the human genome.
ENCODE Project Consortium.
Nature Volume 489 (2012) p.57-74
DOI: 10.1038/nature11247

Ensembl 2012.
Flicek P, Amode MR, Barrell D, Beal K, Brent S, Carvalho-Silva D, Clapham P, Coates G, Fairley S, Fitzgerald S, Gil L, Gordon L, Hendrix M, Hourlier T, Johnson N, Kähäri AK, Keefe D, Keenan S, Kinsella R, Komorowska M, Koscielny G, Kulesha E, Larsson P, Longden I, McLaren W, Muffato M, Overduin B, Pignatelli M, Pritchard B, Riat HS, Ritchie GR, Ruffier M, Schuster M, Sobral D, Tang YA, Taylor K, Trevanion S, Vandrovcova J, White S, Wilson M, Wilder SP, Aken BL, Birney E, Cunningham F, Dunham I, Durbin R, Fernández-Suarez XM, Harrow J, Herrero J, Hubbard TJ, Parker A, Proctor G, Spudich G, Vogel J, Yates A, Zadissa A, Searle SM.
Nucleic Acids Res Volume 40 (2012) p.d84-90
DOI: 10.1093/nar/gkr991

2011

Ensembl 2011.
Flicek P, Amode MR, Barrell D, Beal K, Brent S, Chen Y, Clapham P, Coates G, Fairley S, Fitzgerald S, Gordon L, Hendrix M, Hourlier T, Johnson N, Kähäri A, Keefe D, Keenan S, Kinsella R, Kokocinski F, Kulesha E, Larsson P, Longden I, McLaren W, Overduin B, Pritchard B, Riat HS, Rios D, Ritchie GR, Ruffier M, Schuster M, Sobral D, Spudich G, Tang YA, Trevanion S, Vandrovcova J, Vilella AJ, White S, Wilder SP, Zadissa A, Zamora J, Aken BL, Birney E, Cunningham F, Dunham I, Durbin R, Fernández-Suarez XM, Herrero J, Hubbard TJ, Parker A, Proctor G, Vogel J, Searle SM.
Nucleic Acids Res Volume 39 (2011) p.d800-6
DOI: 10.1093/nar/gkq1064

A user's guide to the encyclopedia of DNA elements (ENCODE).
ENCODE Project Consortium.
PLoS Biol Volume 9 (2011) p.e1001046
DOI: 10.1371/journal.pbio.1001046

2010

Ensembl's 10th year.
Flicek P, Aken BL, Ballester B, Beal K, Bragin E, Brent S, Chen Y, Clapham P, Coates G, Fairley S, Fitzgerald S, Fernandez-Banet J, Gordon L, Gräf S, Haider S, Hammond M, Howe K, Jenkinson A, Johnson N, Kähäri A, Keefe D, Keenan S, Kinsella R, Kokocinski F, Koscielny G, Kulesha E, Lawson D, Longden I, Massingham T, McLaren W, Megy K, Overduin B, Pritchard B, Rios D, Ruffier M, Schuster M, Slater G, Smedley D, Spudich G, Tang YA, Trevanion S, Vilella A, Vogel J, White S, Wilder SP, Zadissa A, Birney E, Cunningham F, Dunham I, Durbin R, Fernández-Suarez XM, Herrero J, Hubbard TJ, Parker A, Proctor G, Smith J, Searle SM.
Nucleic Acids Res Volume 38 (2010) p.d557-62
DOI: 10.1093/nar/gkp972

Chromosomal mapping of pancreatic islet morphological features and regulatory hormones in the spontaneously diabetic (Type 2) Goto-Kakizaki rat.
Finlay C, Argoud K, Wilder SP, Ouali F, Ktorza A, Kaisaki PJ, Gauguier D.
Mamm Genome Volume 21 (2010) p.499-508
DOI: 10.1007/s00335-010-9285-3

ATR-X syndrome protein targets tandem repeats and influences allele-specific expression in a size-dependent manner.
Law MJ, Lower KM, Voon HP, Hughes JR, Garrick D, Viprakasit V, Mitson M, De Gobbi M, Marra M, Morris A, Abbott A, Wilder SP, Taylor S, Santos GM, Cross J, Ayyub H, Jones S, Ragoussis J, Rhodes D, Dunham I, Higgs DR, Gibbons RJ.
Cell Volume 143 (2010) p.367-378
DOI: 10.1016/j.cell.2010.09.023

2009

Functional annotations of diabetes nephropathy susceptibility loci through analysis of genome-wide renal gene expression in rat models of diabetes mellitus.
Hu Y, Kaisaki PJ, Argoud K, Wilder SP, Wallace KJ, Woon PY, Blancher C, Tarnow L, Groop PH, Hadjadj S, Marre M, Parving HH, Farrall M, Cox RD, Lathrop M, Vionnet N, Bihoreau MT, Gauguier D.
BMC Med Genomics Volume 2 (2009) p.41
DOI: 10.1186/1755-8794-2-41

Comparative analysis of methods for gene transcription profiling data derived from different microarray technologies in rat and mouse models of diabetes.
Wilder SP, Kaisaki PJ, Argoud K, Salhan A, Ragoussis J, Bihoreau MT, Gauguier D.
BMC Genomics Volume 10 (2009) p.63
DOI: 10.1186/1471-2164-10-63

2008

Phylometabonomic patterns of adaptation to high fat diet feeding in inbred mice.
Fearnside JF, Dumas ME, Rothwell AR, Wilder SP, Cloarec O, Toye A, Blancher C, Holmes E, Tatoud R, Barton RH, Scott J, Nicholson JK, Gauguier D.
PLoS One Volume 3 (2008) p.e1668
DOI: 10.1371/journal.pone.0001668

Pathophysiological, genetic and gene expression features of a novel rodent model of the cardio-metabolic syndrome.
Wallis RH, Collins SC, Kaisaki PJ, Argoud K, Wilder SP, Wallace KJ, Ria M, Ktorza A, Rorsman P, Bihoreau MT, Gauguier D.
PLoS One Volume 3 (2008) p.e2962
DOI: 10.1371/journal.pone.0002962

2007

Direct quantitative trait locus mapping of mammalian metabolic phenotypes in diabetic and normoglycemic rat models.
Dumas ME, Wilder SP, Bihoreau MT, Barton RH, Fearnside JF, Argoud K, D'Amato L, Wallis RH, Blancher C, Keun HC, Baunsgaard D, Scott J, Sidelmann UG, Nicholson JK, Gauguier D.
Nat Genet Volume 39 (2007) p.666-672
DOI: 10.1038/ng2026

Subtle metabolic and liver gene transcriptional changes underlie diet-induced fatty liver susceptibility in insulin-resistant mice.
Toye AA, Dumas ME, Blancher C, Rothwell AR, Fearnside JF, Wilder SP, Bihoreau MT, Cloarec O, Azzouzi I, Young S, Barton RH, Holmes E, McCarthy MI, Tatoud R, Nicholson JK, Scott J, Gauguier D.
Diabetologia Volume 50 (2007) p.1867-1879
DOI: 10.1007/s00125-007-0738-5

2006

Genetic control of plasma lipid levels in a cross derived from normoglycaemic Brown Norway and spontaneously diabetic Goto-Kakizaki rats.
Argoud K, Wilder SP, McAteer MA, Bihoreau MT, Ouali F, Woon PY, Wallis RH, Ktorza A, Gauguier D.
Diabetologia Volume 49 (2006) p.2679-2688
DOI: 10.1007/s00125-006-0396-z

Mapping diabetes QTL in an intercross derived from a congenic strain of the Brown Norway and Goto-Kakizaki rats.
Collins SC, Wallis RH, Wilder SP, Wallace KJ, Argoud K, Kaisaki PJ, Bihoreau MT, Gauguier D.
Mamm Genome Volume 17 (2006) p.538-547
DOI: 10.1007/s00335-005-0168-y

2005

Chromosomal mapping of quantitative trait loci controlling elastin content in rat aorta.
Gauguier D, Behmoaras J, Argoud K, Wilder SP, Pradines C, Bihoreau MT, Osborne-Pellegrin M, Jacob MP.
Hypertension Volume 45 (2005) p.460-466
DOI: 10.1161/01.hyp.0000155213.83719.7c

2004

Polymorphisms in type II SH2 domain-containing inositol 5-phosphatase (INPPL1, SHIP2) are associated with physiological abnormalities of the metabolic syndrome.
Kaisaki PJ, Delépine M, Woon PY, Sebag-Montefiore L, Wilder SP, Menzel S, Vionnet N, Marion E, Riveline JP, Charpentier G, Schurmans S, Levy JC, Lathrop M, Farrall M, Gauguier D.
Diabetes Volume 53 (2004) p.1900-1904
DOI: 10.2337/diabetes.53.7.1900

Chromosomal mapping of genetic loci controlling absence epilepsy phenotypes in the WAG/Rij rat.
Gauguier D, van Luijtelaar G, Bihoreau MT, Wilder SP, Godfrey RF, Vossen J, Coenen A, Cox RD.
Epilepsia Volume 45 (2004) p.908-915
DOI: 10.1111/j.0013-9580.2004.13104.x

Polygenic control of idiopathic generalized epilepsy phenotypes in the genetic absence rats from Strasbourg (GAERS).
Rudolf G, Bihoreau MT, Godfrey RF, Wilder SP, Cox RD, Lathrop M, Marescaux C, Gauguier D.
Epilepsia Volume 45 (2004) p.301-308
DOI: 10.1111/j.0013-9580.2004.50303.x

Integration of the rat recombination and EST maps in the rat genomic sequence and comparative mapping analysis with the mouse genome.
Wilder SP, Bihoreau MT, Argoud K, Watanabe TK, Lathrop M, Gauguier D.
Genome Res Volume 14 (2004) p.758-765
DOI: 10.1101/gr.2001604

Services