Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 23

1.

Sharing interoperable workflow provenance: A review of best practices and their practical application in CWLProv.

Khan FZ, Soiland-Reyes S, Sinnott RO, Lonie A, Goble C, Crusoe MR.

Gigascience. 2019 Nov 1;8(11). pii: giz095. doi: 10.1093/gigascience/giz095.

2.

Hi-Plex2: a simple and robust approach to targeted sequencing-based genetic screening.

Hammet F, Mahmood K, Green TR, Nguyen-Dumont T, Southey MC, Buchanan DD, Lonie A, Nathanson KL, Couch FJ, Pope BJ, Park DJ.

Biotechniques. 2019 Sep;67(3):118-122. doi: 10.2144/btn-2019-0026. Epub 2019 Jul 3.

3.

Is RNASEL:p.Glu265* a modifier of early-onset breast cancer risk for carriers of high-risk mutations?

Nguyen-Dumont T, Teo ZL, Hammet F, Roberge A, Mahmoodi M, Tsimiklis H, Park DJ, Pope BJ, Lonie A, Kapuscinski MK, Mahmood K; ABCFR, Goldgar DE, Giles GG, Winship I, Hopper JL, Southey MC.

BMC Cancer. 2018 Feb 8;18(1):165. doi: 10.1186/s12885-018-4028-z.

4.

Establishing a distributed national research infrastructure providing bioinformatics support to life science researchers in Australia.

Schneider MV, Griffin PC, Tyagi S, Flannery M, Dayalan S, Gladman S, Watson-Haigh N, Bayer PE, Charleston M, Cooke I, Cook R, Edwards RJ, Edwards D, Gorse D, McConville M, Powell D, Wilkins MR, Lonie A.

Brief Bioinform. 2019 Mar 22;20(2):384-389. doi: 10.1093/bib/bbx071.

5.

Investigating reproducibility and tracking provenance - A genomic workflow case study.

Kanwal S, Khan FZ, Lonie A, Sinnott RO.

BMC Bioinformatics. 2017 Jul 12;18(1):337. doi: 10.1186/s12859-017-1747-0.

6.

Genome-Wide Measures of Peripheral Blood Dna Methylation and Prostate Cancer Risk in a Prospective Nested Case-Control Study.

FitzGerald LM, Naeem H, Makalic E, Schmidt DF, Dowty JG, Joo JE, Jung CH, Bassett JK, Dugue PA, Chung J, Lonie A, Milne RL, Wong EM, Hopper JL, English DR, Severi G, Baglietto L, Pedersen J, Giles GG, Southey MC.

Prostate. 2017 Apr;77(5):471-478. doi: 10.1002/pros.23289. Epub 2017 Jan 24.

PMID:
28116812
7.

Genome-wide measures of DNA methylation in peripheral blood and the risk of urothelial cell carcinoma: a prospective nested case-control study.

Dugué PA, Brinkman MT, Milne RL, Wong EM, FitzGerald LM, Bassett JK, Joo JE, Jung CH, Makalic E, Schmidt DF, Park DJ, Chung J, Ta AD, Bolton DM, Lonie A, Longano A, Hopper JL, Severi G, Saffery R, English DR, Southey MC, Giles GG.

Br J Cancer. 2016 Sep 6;115(6):664-73. doi: 10.1038/bjc.2016.237. Epub 2016 Aug 4.

8.

Pipeline for the identification and classification of ion channels in parasitic flatworms.

Nor B, Young ND, Korhonen PK, Hall RS, Tan P, Lonie A, Gasser RB.

Parasit Vectors. 2016 Mar 16;9:155. doi: 10.1186/s13071-016-1428-2.

9.

iSRAP - a one-touch research tool for rapid profiling of small RNA-seq data.

Quek C, Jung CH, Bellingham SA, Lonie A, Hill AF.

J Extracell Vesicles. 2015 Nov 9;4:29454. doi: 10.3402/jev.v4.29454. eCollection 2015.

10.

Corrigendum: Whole-genome characterization of chemoresistant ovarian cancer.

Patch AM, Christie EL, Etemadmoghadam D, Garsed DW, George J, Fereday S, Nones K, Cowin P, Alsop K, Bailey PJ, Kassahn KS, Newell F, Quinn MC, Kazakoff S, Quek K, Wilhelm-Benartzi C, Curry E, Leong HS; Australian Ovarian Cancer Study Group, Hamilton A, Mileshkin L, Au-Yeung G, Kennedy C, Hung J, Chiew YE, Harnett P, Friedlander M, Quinn M, Pyman J, Cordner S, O'Brien P, Leditschke J, Young G, Strachan K, Waring P, Azar W, Mitchell C, Traficante N, Hendley J, Thorne H, Shackleton M, Miller DK, Arnau GM, Tothill RW, Holloway TP, Semple T, Harliwong I, Nourse C, Nourbakhsh E, Manning S, Idrisoglu S, Bruxner TJ, Christ AN, Poudel B, Holmes O, Anderson M, Leonard C, Lonie A, Hall N, Wood S, Taylor DF, Xu Q, Fink JL, Waddell N, Drapkin R, Stronach E, Gabra H, Brown R, Jewell A, Nagaraj SH, Markham E, Wilson PJ, Ellul J, McNally O, Doyle MA, Vedururu R, Stewart C, Lengyel E, Pearson JV, Waddell N, deFazio A, Grimmond SM, Bowtell DD.

Nature. 2015 Nov 19;527(7578):398. doi: 10.1038/nature15716. Epub 2015 Oct 21. No abstract available.

PMID:
26503049
11.

Genomics Virtual Laboratory: A Practical Bioinformatics Workbench for the Cloud.

Afgan E, Sloggett C, Goonasekera N, Makunin I, Benson D, Crowe M, Gladman S, Kowsar Y, Pheasant M, Horst R, Lonie A.

PLoS One. 2015 Oct 26;10(10):e0140829. doi: 10.1371/journal.pone.0140829. eCollection 2015.

12.

Cpipe: a shared variant detection pipeline designed for diagnostic settings.

Sadedin SP, Dashnow H, James PA, Bahlo M, Bauer DC, Lonie A, Lunke S, Macciocca I, Ross JP, Siemering KR, Stark Z, White SM; Melbourne Genomics Health Alliance, Taylor G, Gaff C, Oshlack A, Thorne NP.

Genome Med. 2015 Jul 10;7(1):68. doi: 10.1186/s13073-015-0191-x. eCollection 2015.

13.

Whole-genome characterization of chemoresistant ovarian cancer.

Patch AM, Christie EL, Etemadmoghadam D, Garsed DW, George J, Fereday S, Nones K, Cowin P, Alsop K, Bailey PJ, Kassahn KS, Newell F, Quinn MC, Kazakoff S, Quek K, Wilhelm-Benartzi C, Curry E, Leong HS; Australian Ovarian Cancer Study Group, Hamilton A, Mileshkin L, Au-Yeung G, Kennedy C, Hung J, Chiew YE, Harnett P, Friedlander M, Quinn M, Pyman J, Cordner S, O'Brien P, Leditschke J, Young G, Strachan K, Waring P, Azar W, Mitchell C, Traficante N, Hendley J, Thorne H, Shackleton M, Miller DK, Arnau GM, Tothill RW, Holloway TP, Semple T, Harliwong I, Nourse C, Nourbakhsh E, Manning S, Idrisoglu S, Bruxner TJ, Christ AN, Poudel B, Holmes O, Anderson M, Leonard C, Lonie A, Hall N, Wood S, Taylor DF, Xu Q, Fink JL, Waddell N, Drapkin R, Stronach E, Gabra H, Brown R, Jewell A, Nagaraj SH, Markham E, Wilson PJ, Ellul J, McNally O, Doyle MA, Vedururu R, Stewart C, Lengyel E, Pearson JV, Waddell N, deFazio A, Grimmond SM, Bowtell DD.

Nature. 2015 May 28;521(7553):489-94. doi: 10.1038/nature14410. Erratum in: Nature. 2015 Nov 19;527(7578):398.

PMID:
26017449
14.

Tracking the origins and drivers of subclonal metastatic expansion in prostate cancer.

Hong MK, Macintyre G, Wedge DC, Van Loo P, Patel K, Lunke S, Alexandrov LB, Sloggett C, Cmero M, Marass F, Tsui D, Mangiola S, Lonie A, Naeem H, Sapre N, Phal PM, Kurganovs N, Chin X, Kerger M, Warren AY, Neal D, Gnanapragasam V, Rosenfeld N, Pedersen JS, Ryan A, Haviv I, Costello AJ, Corcoran NM, Hovens CM.

Nat Commun. 2015 Apr 1;6:6605. doi: 10.1038/ncomms7605.

15.

Epigenome-wide methylation in DNA from peripheral blood as a marker of risk for breast cancer.

Severi G, Southey MC, English DR, Jung CH, Lonie A, McLean C, Tsimiklis H, Hopper JL, Giles GG, Baglietto L.

Breast Cancer Res Treat. 2014 Dec;148(3):665-73. doi: 10.1007/s10549-014-3209-y. Epub 2014 Nov 19.

PMID:
25407397
16.

Rare mutations in RINT1 predispose carriers to breast and Lynch syndrome-spectrum cancers.

Park DJ, Tao K, Le Calvez-Kelm F, Nguyen-Dumont T, Robinot N, Hammet F, Odefrey F, Tsimiklis H, Teo ZL, Thingholm LB, Young EL, Voegele C, Lonie A, Pope BJ, Roane TC, Bell R, Hu H, Shankaracharya, Huff CD, Ellis J, Li J, Makunin IV, John EM, Andrulis IL, Terry MB, Daly M, Buys SS, Snyder C, Lynch HT, Devilee P, Giles GG, Hopper JL, Feng BJ, Lesueur F, Tavtigian SV, Southey MC, Goldgar DE.

Cancer Discov. 2014 Jul;4(7):804-15. doi: 10.1158/2159-8290.CD-14-0212. Epub 2014 May 2.

17.

Identification of G protein-coupled receptors in Schistosoma haematobium and S. mansoni by comparative genomics.

Campos TD, Young ND, Korhonen PK, Hall RS, Mangiola S, Lonie A, Gasser RB.

Parasit Vectors. 2014 May 27;7:242. doi: 10.1186/1756-3305-7-242.

18.

FAVR (Filtering and Annotation of Variants that are Rare): methods to facilitate the analysis of rare germline genetic variants from massively parallel sequencing datasets.

Pope BJ, Nguyen-Dumont T, Odefrey F, Hammet F, Bell R, Tao K, Tavtigian SV, Goldgar DE, Lonie A, Southey MC, Park DJ.

BMC Bioinformatics. 2013 Feb 25;14:65. doi: 10.1186/1471-2105-14-65.

19.

Rare mutations in XRCC2 increase the risk of breast cancer.

Park DJ, Lesueur F, Nguyen-Dumont T, Pertesi M, Odefrey F, Hammet F, Neuhausen SL, John EM, Andrulis IL, Terry MB, Daly M, Buys S, Le Calvez-Kelm F, Lonie A, Pope BJ, Tsimiklis H, Voegele C, Hilbers FM, Hoogerbrugge N, Barroso A, Osorio A; Breast Cancer Family Registry; Kathleen Cuningham Foundation Consortium for Research into Familial Breast Cancer, Giles GG, Devilee P, Benitez J, Hopper JL, Tavtigian SV, Goldgar DE, Southey MC.

Am J Hum Genet. 2012 Apr 6;90(4):734-9. doi: 10.1016/j.ajhg.2012.02.027. Epub 2012 Mar 29.

20.

Targeting gene expression to endothelium in transgenic animals: a comparison of the human ICAM-2, PECAM-1 and endoglin promoters.

Cowan PJ, Shinkel TA, Fisicaro N, Godwin JW, Bernabéu C, Almendro N, Rius C, Lonie AJ, Nottle MB, Wigley PL, Paizis K, Pearse MJ, d'Apice AJ.

Xenotransplantation. 2003 May;10(3):223-31.

PMID:
12694542
21.

High-level co-expression of complement regulators on vascular endothelium in transgenic mice: CD55 and CD59 provide greater protection from human complement-mediated injury than CD59 alone.

Cowan PJ, Shinkel TA, Aminian A, Romanella M, Wigley PL, Lonie AJ, Nottle MB, Pearse MJ, d'Apice AJ.

Xenotransplantation. 1998 Aug;5(3):184-90.

PMID:
9741456
22.

The alpha-1,3-galactosyltransferase knockout mouse. Implications for xenotransplantation.

Tearle RG, Tange MJ, Zannettino ZL, Katerelos M, Shinkel TA, Van Denderen BJ, Lonie AJ, Lyons I, Nottle MB, Cox T, Becker C, Peura AM, Wigley PL, Crawford RJ, Robins AJ, Pearse MJ, d'Apice AJ.

Transplantation. 1996 Jan 15;61(1):13-9.

PMID:
8560551

Supplemental Content

Support Center