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Items: 19

1.

Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics.

Baichoo S, Souilmi Y, Panji S, Botha G, Meintjes A, Hazelhurst S, Bendou H, Beste E, Mpangase PT, Souiai O, Alghali M, Yi L, O'Connor BD, Crusoe M, Armstrong D, Aron S, Joubert F, Ahmed AE, Mbiyavanga M, Heusden PV, Magosi LE, Zermeno J, Mainzer LS, Fadlelmola FM, Jongeneel CV, Mulder N.

BMC Bioinformatics. 2018 Nov 29;19(1):457. doi: 10.1186/s12859-018-2446-1.

2.

Correction: U87MG Decoded: The Genomic Sequence of a Cytogenetically Aberrant Human Cancer Cell Line.

Clark MJ, Homer N, O'Connor BD, Chen Z, Eskin A, Lee H, Merriman B, Nelson SF.

PLoS Genet. 2018 May 16;14(5):e1007392. doi: 10.1371/journal.pgen.1007392. eCollection 2018 May.

3.

The Dockstore: enabling modular, community-focused sharing of Docker-based genomics tools and workflows.

O'Connor BD, Yuen D, Chung V, Duncan AG, Liu XK, Patricia J, Paten B, Stein L, Ferretti V.

F1000Res. 2017 Jan 18;6:52. doi: 10.12688/f1000research.10137.1. eCollection 2017.

4.

Phenotypically Adapted Mycobacterium tuberculosis Populations from Sputum Are Tolerant to First-Line Drugs.

Turapov O, O'Connor BD, Sarybaeva AA, Williams C, Patel H, Kadyrov AS, Sarybaev AS, Woltmann G, Barer MR, Mukamolova GV.

Antimicrob Agents Chemother. 2016 Mar 25;60(4):2476-83. doi: 10.1128/AAC.01380-15. Print 2016 Apr.

5.

Can resuscitation-promoting factors be used to improve culture rates of extra-pulmonary tuberculosis?

O'Connor BD, Woltmann G, Patel H, Turapov O, Haldar P, Mukamolova GV.

Int J Tuberc Lung Dis. 2015 Dec;19(12):1556-7. doi: 10.5588/ijtld.15.0682. No abstract available.

PMID:
26614205
6.

New insights into the Tyrolean Iceman's origin and phenotype as inferred by whole-genome sequencing.

Keller A, Graefen A, Ball M, Matzas M, Boisguerin V, Maixner F, Leidinger P, Backes C, Khairat R, Forster M, Stade B, Franke A, Mayer J, Spangler J, McLaughlin S, Shah M, Lee C, Harkins TT, Sartori A, Moreno-Estrada A, Henn B, Sikora M, Semino O, Chiaroni J, Rootsi S, Myres NM, Cabrera VM, Underhill PA, Bustamante CD, Vigl EE, Samadelli M, Cipollini G, Haas J, Katus H, O'Connor BD, Carlson MR, Meder B, Blin N, Meese E, Pusch CM, Zink A.

Nat Commun. 2012 Feb 28;3:698. doi: 10.1038/ncomms1701.

PMID:
22426219
7.

Multiple self-healing squamous epithelioma is caused by a disease-specific spectrum of mutations in TGFBR1.

Goudie DR, D'Alessandro M, Merriman B, Lee H, Szeverényi I, Avery S, O'Connor BD, Nelson SF, Coats SE, Stewart A, Christie L, Pichert G, Friedel J, Hayes I, Burrows N, Whittaker S, Gerdes AM, Broesby-Olsen S, Ferguson-Smith MA, Verma C, Lunny DP, Reversade B, Lane EB.

Nat Genet. 2011 Feb 27;43(4):365-9. doi: 10.1038/ng.780.

PMID:
21358634
8.

SeqWare Query Engine: storing and searching sequence data in the cloud.

O'Connor BD, Merriman B, Nelson SF.

BMC Bioinformatics. 2010 Dec 21;11 Suppl 12:S2. doi: 10.1186/1471-2105-11-S12-S2.

9.

U87MG decoded: the genomic sequence of a cytogenetically aberrant human cancer cell line.

Clark MJ, Homer N, O'Connor BD, Chen Z, Eskin A, Lee H, Merriman B, Nelson SF.

PLoS Genet. 2010 Jan 29;6(1):e1000832. doi: 10.1371/journal.pgen.1000832. Erratum in: PLoS Genet. 2018 May 16;14 (5):e1007392.

10.

Improving the efficiency of genomic loci capture using oligonucleotide arrays for high throughput resequencing.

Lee H, O'Connor BD, Merriman B, Funari VA, Homer N, Chen Z, Cohn DH, Nelson SF.

BMC Genomics. 2009 Dec 31;10:646. doi: 10.1186/1471-2164-10-646.

11.

Use of lidocaine patches for neuropathic pain in a comprehensive cancer centre.

Fleming JA, O'Connor BD.

Pain Res Manag. 2009 Sep-Oct;14(5):381-8.

12.

Pathogenicity of a disease-associated human IL-4 receptor allele in experimental asthma.

Tachdjian R, Mathias C, Al Khatib S, Bryce PJ, Kim HS, Blaeser F, O'Connor BD, Rzymkiewicz D, Chen A, Holtzman MJ, Hershey GK, Garn H, Harb H, Renz H, Oettgen HC, Chatila TA.

J Exp Med. 2009 Sep 28;206(10):2191-204. doi: 10.1084/jem.20091480. Epub 2009 Sep 21.

13.

Mutations in PYCR1 cause cutis laxa with progeroid features.

Reversade B, Escande-Beillard N, Dimopoulou A, Fischer B, Chng SC, Li Y, Shboul M, Tham PY, Kayserili H, Al-Gazali L, Shahwan M, Brancati F, Lee H, O'Connor BD, Schmidt-von Kegler M, Merriman B, Nelson SF, Masri A, Alkazaleh F, Guerra D, Ferrari P, Nanda A, Rajab A, Markie D, Gray M, Nelson J, Grix A, Sommer A, Savarirayan R, Janecke AR, Steichen E, Sillence D, Hausser I, Budde B, Nürnberg G, Nürnberg P, Seemann P, Kunkel D, Zambruno G, Dallapiccola B, Schuelke M, Robertson S, Hamamy H, Wollnik B, Van Maldergem L, Mundlos S, Kornak U.

Nat Genet. 2009 Sep;41(9):1016-21. doi: 10.1038/ng.413. Epub 2009 Aug 2.

PMID:
19648921
14.

GMODWeb: a web framework for the Generic Model Organism Database.

O'Connor BD, Day A, Cain S, Arnaiz O, Sperling L, Stein LD.

Genome Biol. 2008;9(6):R102. doi: 10.1186/gb-2008-9-6-r102. Epub 2008 Jun 20.

15.

Celsius: a community resource for Affymetrix microarray data.

Day A, Carlson MR, Dong J, O'Connor BD, Nelson SF.

Genome Biol. 2007;8(6):R112.

16.

Utilizing logical relationships in genomic data to decipher cellular processes.

Bowers PM, O'Connor BD, Cokus SJ, Sprinzak E, Yeates TO, Eisenberg D.

FEBS J. 2005 Oct;272(20):5110-8. Review.

17.

The genomics of disulfide bonding and protein stabilization in thermophiles.

Beeby M, O'Connor BD, Ryttersgaard C, Boutz DR, Perry LJ, Yeates TO.

PLoS Biol. 2005 Sep;3(9):e309. Epub 2005 Aug 23.

18.

GDAP: a web tool for genome-wide protein disulfide bond prediction.

O'Connor BD, Yeates TO.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W360-4.

19.

Digital teleradiology: Seaforth--London network.

Carey LS, O'Connor BD, Bach DB, Hobbs BB, Hutton LC, Lefcoe MS, Lyons RO, Munro TG, Paterson RG, Rankin RN, et al.

Can Assoc Radiol J. 1989 Apr;40(2):71-4.

PMID:
2649210

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