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Items: 45

1.

Mismatch repair gene pathogenic germline variants in a population-based cohort of breast cancer.

Nguyen-Dumont T, Steen JA, Winship I, Park DJ, Pope BJ, Hammet F, Mahmoodi M, Tsimiklis H, Theys D, Clendenning M, Giles GG, Hopper JL, Southey MC.

Fam Cancer. 2020 Feb 14. doi: 10.1007/s10689-020-00164-7. [Epub ahead of print]

PMID:
32060697
2.

Radiocarbon Production Events and their Potential Relationship with the Schwabe Cycle.

Scifo A, Kuitems M, Neocleous A, Pope BJS, Miles D, Jansma E, Doeve P, Smith AM, Miyake F, Dee MW.

Sci Rep. 2019 Nov 19;9(1):17056. doi: 10.1038/s41598-019-53296-x.

3.

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.

4.

Tumor mutational signatures in sebaceous skin lesions from individuals with Lynch syndrome.

Georgeson P, Walsh MD, Clendenning M, Daneshvar S, Pope BJ, Mahmood K, Joo JE, Jayasekara H, Jenkins MA, Winship IM, Buchanan DD.

Mol Genet Genomic Med. 2019 Jul;7(7):e00781. doi: 10.1002/mgg3.781. Epub 2019 Jun 4.

5.

Annotation of the Giardia proteome through structure-based homology and machine learning.

Ansell BRE, Pope BJ, Georgeson P, Emery-Corbin SJ, Jex AR.

Gigascience. 2019 Jan 1;8(1). doi: 10.1093/gigascience/giy150.

6.

sEst: Accurate Sex-Estimation and Abnormality Detection in Methylation Microarray Data.

Jung CH, Park DJ, Georgeson P, Mahmood K, Milne RL, Southey MC, Pope BJ.

Int J Mol Sci. 2018 Oct 15;19(10). pii: E3172. doi: 10.3390/ijms19103172.

7.

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.

8.

Correction: Risk of colorectal cancer for carriers of a germ-line mutation in POLE or POLD1.

Buchanan DD, Stewart JR, Clendenning M, Rosty C, Mahmood K, Pope BJ, Jenkins MA, Hopper JL, Southey MC, Macrae FA, Winship IM, Win AK.

Genet Med. 2018 Oct;20(10):1299. doi: 10.1038/gim.2017.265.

PMID:
29388942
9.

FANCM and RECQL genetic variants and breast cancer susceptibility: relevance to South Poland and West Ukraine.

Nguyen-Dumont T, Myszka A, Karpinski P, Sasiadek MM, Akopyan H, Hammet F, Tsimiklis H, Park DJ, Pope BJ, Slezak R, Kitsera N, Siekierzynska A, Southey MC.

BMC Med Genet. 2018 Jan 19;19(1):12. doi: 10.1186/s12881-018-0524-x.

10.

Hi-Plex for Simple, Accurate, and Cost-Effective Amplicon-based Targeted DNA Sequencing.

Pope BJ, Hammet F, Nguyen-Dumont T, Park DJ.

Methods Mol Biol. 2018;1712:53-70. doi: 10.1007/978-1-4939-7514-3_5.

PMID:
29224068
11.

Risk of colorectal cancer for carriers of a germ-line mutation in POLE or POLD1.

Buchanan DD, Stewart JR, Clendenning M, Rosty C, Mahmood K, Pope BJ, Jenkins MA, Hopper JL, Southey MC, Macrae FA, Winship IM, Win AK.

Genet Med. 2018 Aug;20(8):890-895. doi: 10.1038/gim.2017.185. Epub 2017 Nov 9. Erratum in: Genet Med. 2018 Feb 01;:.

12.

Targeted massively parallel sequencing characterises the mutation spectrum of PALB2 in breast and ovarian cancer cases from Poland and Ukraine.

Myszka A, Nguyen-Dumont T, Karpinski P, Sasiadek MM, Akopyan H, Hammet F, Tsimiklis H, Park DJ, Pope BJ, Slezak R, Kitsera N, Siekierzynska A, Southey MC.

Fam Cancer. 2018 Jul;17(3):345-349. doi: 10.1007/s10689-017-0050-6.

13.

A novel Drosophila injury model reveals severed axons are cleared through a Draper/MMP-1 signaling cascade.

Purice MD, Ray A, Münzel EJ, Pope BJ, Park DJ, Speese SD, Logan MA.

Elife. 2017 Aug 21;6. pii: e23611. doi: 10.7554/eLife.23611.

14.

Somatic mutations of the coding microsatellites within the beta-2-microglobulin gene in mismatch repair-deficient colorectal cancers and adenomas.

Clendenning M, Huang A, Jayasekara H, Lorans M, Preston S, O'Callaghan N, Pope BJ, Macrae FA, Winship IM, Milne RL, Giles GG, English DR, Hopper JL, Win AK, Jenkins MA, Southey MC, Rosty C, Buchanan DD; investigators from the Melbourne Collaborative Cohort Study and the Australasian Colorectal Cancer Family Registry Cohort.

Fam Cancer. 2018 Jan;17(1):91-100. doi: 10.1007/s10689-017-0013-y.

15.

Variant effect prediction tools assessed using independent, functional assay-based datasets: implications for discovery and diagnostics.

Mahmood K, Jung CH, Philip G, Georgeson P, Chung J, Pope BJ, Park DJ.

Hum Genomics. 2017 May 16;11(1):10. doi: 10.1186/s40246-017-0104-8.

16.

Mutation screening of ACKR3 and COPS8 in kidney cancer cases from the CONFIRM study.

Mahmoodi M, Nguyen-Dumont T, Hammet F, Pope BJ, Park DJ, Southey MC, Darlow JM, Bruinsma F, Winship I.

Fam Cancer. 2017 Jul;16(3):411-416. doi: 10.1007/s10689-016-9961-x.

PMID:
28063109
17.

Single nucleotide-level mapping of DNA double-strand breaks in human HEK293T cells.

Pope BJ, Mahmood K, Jung CH, Georgeson P, Park DJ.

Genom Data. 2016 Nov 11;11:43-45. eCollection 2017 Mar.

18.

Fine resolution mapping of double-strand break sites for human ribosomal DNA units.

Pope BJ, Mahmood K, Jung CH, Park DJ.

Genom Data. 2016 Aug 24;10:19-21. doi: 10.1016/j.gdata.2016.08.012. eCollection 2016 Dec.

19.

Anchoring historical sequences using a new source of astro-chronological tie-points.

Dee MW, Pope BJ.

Proc Math Phys Eng Sci. 2016 Aug;472(2192):20160263.

20.

UNDR ROVER - a fast and accurate variant caller for targeted DNA sequencing.

Park DJ, Li R, Lau E, Georgeson P, Nguyen-Dumont T, Pope BJ.

BMC Bioinformatics. 2016 Apr 16;17:165. doi: 10.1186/s12859-016-1014-9.

21.

MethPat: a tool for the analysis and visualisation of complex methylation patterns obtained by massively parallel sequencing.

Wong NC, Pope BJ, Candiloro IL, Korbie D, Trau M, Wong SQ, Mikeska T, Zhang X, Pitman M, Eggers S, Doyle SR, Dobrovic A.

BMC Bioinformatics. 2016 Feb 24;17:98. doi: 10.1186/s12859-016-0950-8.

22.

Exemplary multiplex bisulfite amplicon data used to demonstrate the utility of Methpat.

Wong NC, Pope BJ, Candiloro I, Korbie D, Trau M, Wong SQ, Mikeska T, van Denderen BJ, Thompson EW, Eggers S, Doyle SR, Dobrovic A.

Gigascience. 2015 Nov 26;4:55. doi: 10.1186/s13742-015-0098-x. eCollection 2015.

23.

High-resolution twin-ion metabolite extraction (HiTIME) mass spectrometry: nontargeted detection of unknown drug metabolites by isotope labeling, liquid chromatography mass spectrometry, and automated high-performance computing.

Leeming MG, Isaac AP, Pope BJ, Cranswick N, Wright CE, Ziogas J, O'Hair RA, Donald WA.

Anal Chem. 2015 Apr 21;87(8):4104-9. doi: 10.1021/ac504767d. Epub 2015 Apr 8.

PMID:
25818563
24.

Abridged adapter primers increase the target scope of Hi-Plex.

Nguyen-Dumont T, Hammet F, Mahmoodi M, Pope BJ, Giles GG, Hopper JL, Southey MC, Park DJ.

Biotechniques. 2015 Jan 1;58(1):33-6. doi: 10.2144/000114247. eCollection 2015 Jan.

25.

Mutation screening of PALB2 in clinically ascertained families from the Breast Cancer Family Registry.

Nguyen-Dumont T, Hammet F, Mahmoodi M, Tsimiklis H, Teo ZL, Li R, Pope BJ, Terry MB, Buys SS, Daly M, Hopper JL, Winship I, Goldgar DE, Park DJ, Southey MC.

Breast Cancer Res Treat. 2015 Jan;149(2):547-54. doi: 10.1007/s10549-014-3260-8. Epub 2015 Jan 10.

26.

SRST2: Rapid genomic surveillance for public health and hospital microbiology labs.

Inouye M, Dashnow H, Raven LA, Schultz MB, Pope BJ, Tomita T, Zobel J, Holt KE.

Genome Med. 2014 Nov 20;6(11):90. doi: 10.1186/s13073-014-0090-6. eCollection 2014.

27.

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.

28.

ROVER variant caller: read-pair overlap considerate variant-calling software applied to PCR-based massively parallel sequencing datasets.

Pope BJ, Nguyen-Dumont T, Hammet F, Park DJ.

Source Code Biol Med. 2014 Jan 24;9(1):3. doi: 10.1186/1751-0473-9-3.

29.

Hi-Plex for high-throughput mutation screening: application to the breast cancer susceptibility gene PALB2.

Nguyen-Dumont T, Teo ZL, Pope BJ, Hammet F, Mahmoodi M, Tsimiklis H, Sabbaghian N, Tischkowitz M, Foulkes WD; Kathleen Cuningham Foundation Consortium for research into Familial Breast cancer (kConFab), Giles GG, Hopper JL; Australian Breast Cancer Family Registry, Southey MC, Park DJ.

BMC Med Genomics. 2013 Nov 8;6:48. doi: 10.1186/1755-8794-6-48.

30.

Cross-platform compatibility of Hi-Plex, a streamlined approach for targeted massively parallel sequencing.

Nguyen-Dumont T, Pope BJ, Hammet F, Mahmoodi M, Tsimiklis H, Southey MC, Park DJ.

Anal Biochem. 2013 Nov 15;442(2):127-9. doi: 10.1016/j.ab.2013.07.046. Epub 2013 Aug 8.

31.

A high-plex PCR approach for massively parallel sequencing.

Nguyen-Dumont T, Pope BJ, Hammet F, Southey MC, Park DJ.

Biotechniques. 2013 Aug;55(2):69-74. doi: 10.2144/000114052.

32.

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.

33.

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.

34.

Petascale computation performance of lightweight multiscale cardiac models using hybrid programming models.

Pope BJ, Fitch BG, Pitman MC, Rice JJ, Reumann M.

Conf Proc IEEE Eng Med Biol Soc. 2011;2011:433-6. doi: 10.1109/IEMBS.2011.6090058.

PMID:
22254341
35.

Performance of hybrid programming models for multiscale cardiac simulations: preparing for petascale computation.

Pope BJ, Fitch BG, Pitman MC, Rice JJ, Reumann M.

IEEE Trans Biomed Eng. 2011 Oct;58(10):2965-9. doi: 10.1109/TBME.2011.2161580. Epub 2011 Jul 14.

PMID:
21768044
36.

Dual effects of staurosporine on A431 and NRK cells: microfilament disassembly and uncoordinated lamellipodial activity followed by cell death.

Mannherz HG, Gonsior SM, Wu X, Polzar B, Pope BJ, Wartosch L, Weeds AG.

Eur J Cell Biol. 2006 Aug;85(8):785-802. Epub 2006 May 11.

PMID:
16697076
37.

Activated cofilin colocalises with Arp2/3 complex in apoptotic blebs during programmed cell death.

Mannherz HG, Gonsior SM, Gremm D, Wu X, Pope BJ, Weeds AG.

Eur J Cell Biol. 2005 Apr;84(4):503-15.

PMID:
15900709
38.

Backbone and sidechain 1H, 13C and 15N resonance assignments of human cofilin.

Zierler-Gould KM, Pope BJ, Weeds AG, Ball LJ.

J Biomol NMR. 2004 Jul;29(3):429-30. No abstract available.

PMID:
15213453
39.

Solution structure of human cofilin: actin binding, pH sensitivity, and relationship to actin-depolymerizing factor.

Pope BJ, Zierler-Gould KM, Kühne R, Weeds AG, Ball LJ.

J Biol Chem. 2004 Feb 6;279(6):4840-8. Epub 2003 Nov 18.

40.
41.

The C-terminal tail of UNC-60B (actin depolymerizing factor/cofilin) is critical for maintaining its stable association with F-actin and is implicated in the second actin-binding site.

Ono S, McGough A, Pope BJ, Tolbert VT, Bui A, Pohl J, Benian GM, Gernert KM, Weeds AG.

J Biol Chem. 2001 Feb 23;276(8):5952-8. Epub 2000 Oct 24.

42.

Uncoupling actin filament fragmentation by cofilin from increased subunit turnover.

Pope BJ, Gonsior SM, Yeoh S, McGough A, Weeds AG.

J Mol Biol. 2000 May 12;298(4):649-61.

PMID:
10788327
44.

Probing the effects of calcium on gelsolin.

Pope BJ, Gooch JT, Weeds AG.

Biochemistry. 1997 Dec 16;36(50):15848-55.

PMID:
9398317
45.

Heterogeneity of myosin heavy chains in subfragment-1 isoenzymes rabbit skeletal myosin.

Pope BJ, Wagner PD, Weeds AG.

J Mol Biol. 1977 Jan 25;109(3):470-3. No abstract available.

PMID:
833852

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