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Results: 1 to 20 of 36

1.

Whole exome sequencing of extreme morbid obesity patients: translational implications for obesity and related disorders.

Paz-Filho G, Boguszewski MC, Mastronardi CA, Patel HR, Johar AS, Chuah A, Huttley GA, Boguszewski CL, Wong ML, Arcos-Burgos M, Licinio J.

Genes (Basel). 2014 Aug 25;5(3):709-25. doi: 10.3390/genes5030709.

PMID:
25158045
[PubMed]
Free Article
2.

The embedding problem for markov models of nucleotide substitution.

Verbyla KL, Yap VB, Pahwa A, Shao Y, Huttley GA.

PLoS One. 2013 Jul 30;8(7):e69187. doi: 10.1371/journal.pone.0069187. Print 2013.

PMID:
23935949
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Infection with a Virulent Strain of Wolbachia Disrupts Genome Wide-Patterns of Cytosine Methylation in the Mosquito Aedes aegypti.

Ye YH, Woolfit M, Huttley GA, Rancès E, Caragata EP, Popovici J, O'Neill SL, McGraw EA.

PLoS One. 2013 Jun 19;8(6):e66482. Print 2013.

PMID:
23840485
[PubMed - as supplied by publisher]
Free PMC Article
4.

Histone H2A.Z inheritance during the cell cycle and its impact on promoter organization and dynamics.

Nekrasov M, Amrichova J, Parker BJ, Soboleva TA, Jack C, Williams R, Huttley GA, Tremethick DJ.

Nat Struct Mol Biol. 2012 Nov;19(11):1076-83. doi: 10.1038/nsmb.2424. Epub 2012 Oct 21.

PMID:
23085713
[PubMed - indexed for MEDLINE]
5.

Dynamic evolution of venom proteins in squamate reptiles.

Casewell NR, Huttley GA, Wüster W.

Nat Commun. 2012;3:1066. doi: 10.1038/ncomms2065.

PMID:
22990862
[PubMed - indexed for MEDLINE]
6.

A unique H2A histone variant occupies the transcriptional start site of active genes.

Soboleva TA, Nekrasov M, Pahwa A, Williams R, Huttley GA, Tremethick DJ.

Nat Struct Mol Biol. 2011 Dec 4;19(1):25-30. doi: 10.1038/nsmb.2161.

PMID:
22139013
[PubMed - indexed for MEDLINE]
7.

Statistical methods for detecting periodic fragments in DNA sequence data.

Epps J, Ying H, Huttley GA.

Biol Direct. 2011 Apr 28;6:21. doi: 10.1186/1745-6150-6-21.

PMID:
21527008
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

QIIME allows analysis of high-throughput community sequencing data.

Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R.

Nat Methods. 2010 May;7(5):335-6. doi: 10.1038/nmeth.f.303. Epub 2010 Apr 11. No abstract available.

PMID:
20383131
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Expansion of circulating T cells resembling follicular helper T cells is a fixed phenotype that identifies a subset of severe systemic lupus erythematosus.

Simpson N, Gatenby PA, Wilson A, Malik S, Fulcher DA, Tangye SG, Manku H, Vyse TJ, Roncador G, Huttley GA, Goodnow CC, Vinuesa CG, Cook MC.

Arthritis Rheum. 2010 Jan;62(1):234-44. doi: 10.1002/art.25032.

PMID:
20039395
[PubMed - indexed for MEDLINE]
Free Article
10.

Pathological rate matrices: from primates to pathogens.

Schranz HW, Yap VB, Easteal S, Knight R, Huttley GA.

BMC Bioinformatics. 2008 Dec 19;9:550. doi: 10.1186/1471-2105-9-550.

PMID:
19099591
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Pitfalls of the most commonly used models of context dependent substitution.

Lindsay H, Yap VB, Ying H, Huttley GA.

Biol Direct. 2008 Dec 16;3:52. doi: 10.1186/1745-6150-3-52. Erratum in: Biol Direct. 2009;(4). doi: 10.1186/1745-6150-4-10.

PMID:
19087239
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Detecting coevolution without phylogenetic trees? Tree-ignorant metrics of coevolution perform as well as tree-aware metrics.

Caporaso JG, Smit S, Easton BC, Hunter L, Huttley GA, Knight R.

BMC Evol Biol. 2008 Dec 3;8:327. doi: 10.1186/1471-2148-8-327.

PMID:
19055758
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Comparison of methods for estimating the nucleotide substitution matrix.

Oscamou M, McDonald D, Yap VB, Huttley GA, Lladser ME, Knight R.

BMC Bioinformatics. 2008 Dec 1;9:511. doi: 10.1186/1471-2105-9-511.

PMID:
19046431
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Genome analysis of the platypus reveals unique signatures of evolution.

Warren WC, Hillier LW, Marshall Graves JA, Birney E, Ponting CP, Grützner F, Belov K, Miller W, Clarke L, Chinwalla AT, Yang SP, Heger A, Locke DP, Miethke P, Waters PD, Veyrunes F, Fulton L, Fulton B, Graves T, Wallis J, Puente XS, López-Otín C, Ordóñez GR, Eichler EE, Chen L, Cheng Z, Deakin JE, Alsop A, Thompson K, Kirby P, Papenfuss AT, Wakefield MJ, Olender T, Lancet D, Huttley GA, Smit AF, Pask A, Temple-Smith P, Batzer MA, Walker JA, Konkel MK, Harris RS, Whittington CM, Wong ES, Gemmell NJ, Buschiazzo E, Vargas Jentzsch IM, Merkel A, Schmitz J, Zemann A, Churakov G, Kriegs JO, Brosius J, Murchison EP, Sachidanandam R, Smith C, Hannon GJ, Tsend-Ayush E, McMillan D, Attenborough R, Rens W, Ferguson-Smith M, Lefèvre CM, Sharp JA, Nicholas KR, Ray DA, Kube M, Reinhardt R, Pringle TH, Taylor J, Jones RC, Nixon B, Dacheux JL, Niwa H, Sekita Y, Huang X, Stark A, Kheradpour P, Kellis M, Flicek P, Chen Y, Webber C, Hardison R, Nelson J, Hallsworth-Pepin K, Delehaunty K, Markovic C, Minx P, Feng Y, Kremitzki C, Mitreva M, Glasscock J, Wylie T, Wohldmann P, Thiru P, Nhan MN, Pohl CS, Smith SM, Hou S, Nefedov M, de Jong PJ, Renfree MB, Mardis ER, Wilson RK.

Nature. 2008 May 8;453(7192):175-83. doi: 10.1038/nature06936. Erratum in: Nature. 2008 Sep 11;455(7210):256. Nefedov, Mikhail [added]; de Jong, Pieter J [added].

PMID:
18464734
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Loss of ACTN3 gene function alters mouse muscle metabolism and shows evidence of positive selection in humans.

MacArthur DG, Seto JT, Raftery JM, Quinlan KG, Huttley GA, Hook JW, Lemckert FA, Kee AJ, Edwards MR, Berman Y, Hardeman EC, Gunning PW, Easteal S, Yang N, North KN.

Nat Genet. 2007 Oct;39(10):1261-5. Epub 2007 Sep 9.

PMID:
17828264
[PubMed - indexed for MEDLINE]
16.

PyCogent: a toolkit for making sense from sequence.

Knight R, Maxwell P, Birmingham A, Carnes J, Caporaso JG, Easton BC, Eaton M, Hamady M, Lindsay H, Liu Z, Lozupone C, McDonald D, Robeson M, Sammut R, Smit S, Wakefield MJ, Widmann J, Wikman S, Wilson S, Ying H, Huttley GA.

Genome Biol. 2007;8(8):R171.

PMID:
17708774
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

RCPdb: An evolutionary classification and codon usage database for repeat-containing proteins.

Faux NG, Huttley GA, Mahmood K, Webb GI, de la Banda MG, Whisstock JC.

Genome Res. 2007 Jul;17(7):1118-27. Epub 2007 Jun 13.

PMID:
17567984
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences.

Mikkelsen TS, Wakefield MJ, Aken B, Amemiya CT, Chang JL, Duke S, Garber M, Gentles AJ, Goodstadt L, Heger A, Jurka J, Kamal M, Mauceli E, Searle SM, Sharpe T, Baker ML, Batzer MA, Benos PV, Belov K, Clamp M, Cook A, Cuff J, Das R, Davidow L, Deakin JE, Fazzari MJ, Glass JL, Grabherr M, Greally JM, Gu W, Hore TA, Huttley GA, Kleber M, Jirtle RL, Koina E, Lee JT, Mahony S, Marra MA, Miller RD, Nicholls RD, Oda M, Papenfuss AT, Parra ZE, Pollock DD, Ray DA, Schein JE, Speed TP, Thompson K, VandeBerg JL, Wade CM, Walker JA, Waters PD, Webber C, Weidman JR, Xie X, Zody MC; Broad Institute Genome Sequencing Platform; Broad Institute Whole Genome Assembly Team, Graves JA, Ponting CP, Breen M, Samollow PB, Lander ES, Lindblad-Toh K.

Nature. 2007 May 10;447(7141):167-77.

PMID:
17495919
[PubMed - indexed for MEDLINE]
19.

Rates of genome evolution and branching order from whole genome analysis.

Huttley GA, Wakefield MJ, Easteal S.

Mol Biol Evol. 2007 Aug;24(8):1722-30. Epub 2007 May 9.

PMID:
17494028
[PubMed - indexed for MEDLINE]
Free Article
20.

Vestige: maximum likelihood phylogenetic footprinting.

Wakefield MJ, Maxwell P, Huttley GA.

BMC Bioinformatics. 2005 May 29;6:130.

PMID:
15921531
[PubMed - indexed for MEDLINE]
Free PMC Article

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