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Results: 1 to 20 of 36

1.

Ordering of mutations in preinvasive disease stages of esophageal carcinogenesis.

Weaver JM, Ross-Innes CS, Shannon N, Lynch AG, Forshew T, Barbera M, Murtaza M, Ong CA, Lao-Sirieix P, Dunning MJ, Smith L, Smith ML, Anderson CL, Carvalho B, O'Donovan M, Underwood TJ, May AP, Grehan N, Hardwick R, Davies J, Oloumi A, Aparicio S, Caldas C, Eldridge MD, Edwards PA, Rosenfeld N, Tavaré S, Fitzgerald RC; the OCCAMS Consortium.

Nat Genet. 2014 Jun 22. doi: 10.1038/ng.3013. [Epub ahead of print]

PMID:
24952744
[PubMed - as supplied by publisher]
2.

Peroxiredoxin-3 is overexpressed in prostate cancer and promotes cancer cell survival by protecting cells from oxidative stress.

Whitaker HC, Patel D, Howat WJ, Warren AY, Kay JD, Sangan T, Marioni JC, Mitchell J, Aldridge S, Luxton HJ, Massie C, Lynch AG, Neal DE.

Br J Cancer. 2013 Aug 20;109(4):983-93. doi: 10.1038/bjc.2013.396. Epub 2013 Jul 23.

PMID:
23880827
[PubMed - indexed for MEDLINE]
3.

Variability of computational fluid dynamics solutions for pressure and flow in a giant aneurysm: the ASME 2012 Summer Bioengineering Conference CFD Challenge.

Steinman DA, Hoi Y, Fahy P, Morris L, Walsh MT, Aristokleous N, Anayiotos AS, Papaharilaou Y, Arzani A, Shadden SC, Berg P, Janiga G, Bols J, Segers P, Bressloff NW, Cibis M, Gijsen FH, Cito S, Pallarés J, Browne LD, Costelloe JA, Lynch AG, Degroote J, Vierendeels J, Fu W, Qiao A, Hodis S, Kallmes DF, Kalsi H, Long Q, Kheyfets VO, Finol EA, Kono K, Malek AM, Lauric A, Menon PG, Pekkan K, Esmaily Moghadam M, Marsden AL, Oshima M, Katagiri K, Peiffer V, Mohamied Y, Sherwin SJ, Schaller J, Goubergrits L, Usera G, Mendina M, Valen-Sendstad K, Habets DF, Xiang J, Meng H, Yu Y, Karniadakis GE, Shaffer N, Loth F.

J Biomech Eng. 2013 Feb;135(2):021016. doi: 10.1115/1.4023382.

PMID:
23445061
[PubMed - indexed for MEDLINE]
4.

Calling sample mix-ups in cancer population studies.

Lynch AG, Chin SF, Dunning MJ, Caldas C, Tavaré S, Curtis C.

PLoS One. 2012;7(8):e41815. doi: 10.1371/journal.pone.0041815. Epub 2012 Aug 9.

PMID:
22912679
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups.

Curtis C, Shah SP, Chin SF, Turashvili G, Rueda OM, Dunning MJ, Speed D, Lynch AG, Samarajiwa S, Yuan Y, Gräf S, Ha G, Haffari G, Bashashati A, Russell R, McKinney S; METABRIC Group, Langerød A, Green A, Provenzano E, Wishart G, Pinder S, Watson P, Markowetz F, Murphy L, Ellis I, Purushotham A, Børresen-Dale AL, Brenton JD, Tavaré S, Caldas C, Aparicio S.

Nature. 2012 Apr 18;486(7403):346-52. doi: 10.1038/nature10983.

PMID:
22522925
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

BeadArray expression analysis using bioconductor.

Ritchie ME, Dunning MJ, Smith ML, Shi W, Lynch AG.

PLoS Comput Biol. 2011 Dec;7(12):e1002276. doi: 10.1371/journal.pcbi.1002276. Epub 2011 Dec 1.

PMID:
22144879
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

ZNF703 is a common Luminal B breast cancer oncogene that differentially regulates luminal and basal progenitors in human mammary epithelium.

Holland DG, Burleigh A, Git A, Goldgraben MA, Perez-Mancera PA, Chin SF, Hurtado A, Bruna A, Ali HR, Greenwood W, Dunning MJ, Samarajiwa S, Menon S, Rueda OM, Lynch AG, McKinney S, Ellis IO, Eaves CJ, Carroll JS, Curtis C, Aparicio S, Caldas C.

EMBO Mol Med. 2011 Mar;3(3):167-80. doi: 10.1002/emmm.201100122. Epub 2011 Feb 18.

PMID:
21337521
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

BayesPeak--an R package for analysing ChIP-seq data.

Cairns J, Spyrou C, Stark R, Smith ML, Lynch AG, Tavaré S.

Bioinformatics. 2011 Mar 1;27(5):713-4. doi: 10.1093/bioinformatics/btq685. Epub 2011 Jan 17.

PMID:
21245054
[PubMed - indexed for MEDLINE]
Free PMC Article
9.
10.

The cost of reducing starting RNA quantity for Illumina BeadArrays: a bead-level dilution experiment.

Lynch AG, Hadfield J, Dunning MJ, Osborne M, Thorne NP, Tavaré S.

BMC Genomics. 2010 Oct 6;11:540. doi: 10.1186/1471-2164-11-540.

PMID:
20925945
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

The importance of platform annotation in interpreting microarray data.

Dunning MJ, Curtis C, Barbosa-Morais NL, Caldas C, Tavaré S, Lynch AG.

Lancet Oncol. 2010 Aug;11(8):717. doi: 10.1016/S1470-2045(10)70115-7. No abstract available.

PMID:
20688273
[PubMed - indexed for MEDLINE]
12.

Identification and correction of previously unreported spatial phenomena using raw Illumina BeadArray data.

Smith ML, Dunning MJ, Tavaré S, Lynch AG.

BMC Bioinformatics. 2010 Apr 27;11:208. doi: 10.1186/1471-2105-11-208.

PMID:
20423502
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Use of the piggyBac transposon to create HIV-1 gag transgenic insect cell lines for continuous VLP production.

Lynch AG, Tanzer F, Fraser MJ, Shephard EG, Williamson AL, Rybicki EP.

BMC Biotechnol. 2010 Mar 31;10:30. doi: 10.1186/1472-6750-10-30.

PMID:
20356379
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Driver mutations in TP53 are ubiquitous in high grade serous carcinoma of the ovary.

Ahmed AA, Etemadmoghadam D, Temple J, Lynch AG, Riad M, Sharma R, Stewart C, Fereday S, Caldas C, Defazio A, Bowtell D, Brenton JD.

J Pathol. 2010 May;221(1):49-56. doi: 10.1002/path.2696.

PMID:
20229506
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

The pitfalls of platform comparison: DNA copy number array technologies assessed.

Curtis C, Lynch AG, Dunning MJ, Spiteri I, Marioni JC, Hadfield J, Chin SF, Brenton JD, Tavaré S, Caldas C.

BMC Genomics. 2009 Dec 8;10:588. doi: 10.1186/1471-2164-10-588.

PMID:
19995423
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data.

Barbosa-Morais NL, Dunning MJ, Samarajiwa SA, Darot JF, Ritchie ME, Lynch AG, Tavaré S.

Nucleic Acids Res. 2010 Jan;38(3):e17. doi: 10.1093/nar/gkp942. Epub 2009 Nov 18.

PMID:
19923232
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

BayesPeak: Bayesian analysis of ChIP-seq data.

Spyrou C, Stark R, Lynch AG, Tavaré S.

BMC Bioinformatics. 2009 Sep 21;10:299. doi: 10.1186/1471-2105-10-299.

PMID:
19772557
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Symptom classification in irritable bowel syndrome as a guide to treatment.

Wiesner M, Naylor SJ, Copping A, Furlong A, Lynch AG, Parkes M, Hunter JO.

Scand J Gastroenterol. 2009;44(7):796-803. doi: 10.1080/00365520902964705.

PMID:
19452358
[PubMed - indexed for MEDLINE]
19.

Considerations for the processing and analysis of GoldenGate-based two-colour Illumina platforms.

Lynch AG, Dunning MJ, Iddawela M, Barbosa-Morais NL, Ritchie ME.

Stat Methods Med Res. 2009 Oct;18(5):437-52. doi: 10.1177/0962280208099451. Epub 2009 Jan 19.

PMID:
19153169
[PubMed - indexed for MEDLINE]
20.

BASH: a tool for managing BeadArray spatial artefacts.

Cairns JM, Dunning MJ, Ritchie ME, Russell R, Lynch AG.

Bioinformatics. 2008 Dec 15;24(24):2921-2. doi: 10.1093/bioinformatics/btn557. Epub 2008 Oct 25.

PMID:
18953044
[PubMed - indexed for MEDLINE]
Free PMC Article

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