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Items: 1 to 20 of 103

1.

DNA repair processes are critical mediators of p53-dependent tumor suppression.

Janic A, Valente LJ, Wakefield MJ, Di Stefano L, Milla L, Wilcox S, Yang H, Tai L, Vandenberg CJ, Kueh AJ, Mizutani S, Brennan MS, Schenk RL, Lindqvist LM, Papenfuss AT, O'Connor L, Strasser A, Herold MJ.

Nat Med. 2018 Jul;24(7):947-953. doi: 10.1038/s41591-018-0043-5. Epub 2018 Jun 11.

PMID:
29892060
2.

Phylogenetic relationships, stage-specific expression and localisation of a unique family of inactive cysteine proteases in Sarcoptes scabiei.

Fernando DD, Reynolds SL, Zakrzewski M, Mofiz E, Papenfuss AT, Holt D, Fischer K.

Parasit Vectors. 2018 May 16;11(1):301. doi: 10.1186/s13071-018-2862-0.

3.

Transcriptome and proteome profiling reveals stress-induced expression signatures of imiquimod-treated Tasmanian devil facial tumor disease (DFTD) cells.

Patchett AL, Wilson R, Charlesworth JC, Corcoran LM, Papenfuss AT, Lyons BA, Woods GM, Tovar C.

Oncotarget. 2018 Mar 23;9(22):15895-15914. doi: 10.18632/oncotarget.24634. eCollection 2018 Mar 23.

4.

Optical mapping reveals a higher level of genomic architecture of chained fusions in cancer.

Chan EKF, Cameron DL, Petersen DC, Lyons RJ, Baldi BF, Papenfuss AT, Thomas DM, Hayes VM.

Genome Res. 2018 May;28(5):726-738. doi: 10.1101/gr.227975.117. Epub 2018 Apr 4.

5.

Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis.

Penington JS, Penno MAS, Ngui KM, Ajami NJ, Roth-Schulze AJ, Wilcox SA, Bandala-Sanchez E, Wentworth JM, Barry SC, Brown CY, Couper JJ, Petrosino JF, Papenfuss AT, Harrison LC; ENDIA Study Group*.

Sci Rep. 2018 Mar 12;8(1):4386. doi: 10.1038/s41598-018-22491-7.

6.

The Plasmodium falciparum transcriptome in severe malaria reveals altered expression of genes involved in important processes including surface antigen-encoding var genes.

Tonkin-Hill GQ, Trianty L, Noviyanti R, Nguyen HHT, Sebayang BF, Lampah DA, Marfurt J, Cobbold SA, Rambhatla JS, McConville MJ, Rogerson SJ, Brown GV, Day KP, Price RN, Anstey NM, Papenfuss AT, Duffy MF.

PLoS Biol. 2018 Mar 12;16(3):e2004328. doi: 10.1371/journal.pbio.2004328. eCollection 2018 Mar.

7.

Correction to: A statistical framework for analyzing deep mutational scanning data.

Rubin AF, Gelman H, Lucas N, Bajjalieh SM, Papenfuss AT, Speed TP, Fowler DM.

Genome Biol. 2018 Feb 7;19(1):17. doi: 10.1186/s13059-018-1391-7.

8.

How the evolution of multicellularity set the stage for cancer.

Trigos AS, Pearson RB, Papenfuss AT, Goode DL.

Br J Cancer. 2018 Jan;118(2):145-152. doi: 10.1038/bjc.2017.398. Epub 2018 Jan 16. Review.

9.

Canary: an atomic pipeline for clinical amplicon assays.

Doig KD, Ellul J, Fellowes A, Thompson ER, Ryland G, Blombery P, Papenfuss AT, Fox SB.

BMC Bioinformatics. 2017 Dec 15;18(1):555. doi: 10.1186/s12859-017-1950-z.

10.

Malaria parasite DNA-harbouring vesicles activate cytosolic immune sensors.

Sisquella X, Ofir-Birin Y, Pimentel MA, Cheng L, Abou Karam P, Sampaio NG, Penington JS, Connolly D, Giladi T, Scicluna BJ, Sharples RA, Waltmann A, Avni D, Schwartz E, Schofield L, Porat Z, Hansen DS, Papenfuss AT, Eriksson EM, Gerlic M, Hill AF, Bowie AG, Regev-Rudzki N.

Nat Commun. 2017 Dec 7;8(1):1985. doi: 10.1038/s41467-017-02083-1.

11.

GRIDSS: sensitive and specific genomic rearrangement detection using positional de Bruijn graph assembly.

Cameron DL, Schröder J, Penington JS, Do H, Molania R, Dobrovic A, Speed TP, Papenfuss AT.

Genome Res. 2017 Dec;27(12):2050-2060. doi: 10.1101/gr.222109.117. Epub 2017 Nov 2.

12.

TERT structural rearrangements in metastatic pheochromocytomas.

Dwight T, Flynn A, Amarasinghe K, Benn DE, Lupat R, Li J, Cameron DL, Hogg A, Balachander S, Candiloro ILM, Wong SQ, Robinson BG, Papenfuss AT, Gill AJ, Dobrovic A, Hicks RJ, Clifton-Bligh RJ, Tothill RW.

Endocr Relat Cancer. 2018 Jan;25(1):1-9. doi: 10.1530/ERC-17-0306. Epub 2017 Oct 3.

PMID:
28974544
13.

Detection of clinically relevant early genomic lesions in B-cell malignancies from circulating tumour DNA using a single hybridisation-based next generation sequencing assay.

Blombery PA, Ryland GL, Markham J, Guinto J, Wall M, McBean M, Jones K, Thompson ER, Cameron DL, Papenfuss AT, Prince MH, Dickinson M, Westerman DA.

Br J Haematol. 2017 Sep 7. doi: 10.1111/bjh.14919. [Epub ahead of print] No abstract available.

PMID:
28880377
14.

Corrigendum: Whole genome analysis of a schistosomiasis-transmitting freshwater snail.

Adema CM, Hillier LW, Jones CS, Loker ES, Knight M, Minx P, Oliveira G, Raghavan N, Shedlock A, do Amaral LR, Arican-Goktas HD, Assis JG, Baba EH, Baron OL, Bayne CJ, Bickham-Wright U, Biggar KK, Blouin M, Bonning BC, Botka C, Bridger JM, Buckley KM, Buddenborg SK, Lima Caldeira R, Carleton J, Carvalho OS, Castillo MG, Chalmers IW, Christensens M, Clifton S, Cosseau C, Coustau C, Cripps RM, Cuesta-Astroz Y, Cummins SF, Di Stefano L, Dinguirard N, Duval D, Emrich S, Feschotte C, Feyereisen R, FitzGerald P, Fronick C, Fulton L, Galinier R, Gava SG, Geusz M, Geyer KK, Giraldo-Calderón GI, de Souza Gomes M, Gordy MA, Gourbal B, Grunau C, Hanington PC, Hoffmann KF, Hughes D, Humphries J, Jackson DJ, Jannotti-Passos LK, de Jesus Jeremias W, Jobling S, Kamel B, Kapusta A, Kaur S, Koene JM, Kohn AB, Lawson D, Lawton SP, Liang D, Limpanont Y, Liu S, Lockyer AE, Lovato TAL, Ludolf F, Magrini V, McManus DP, Medina M, Misra M, Mitta G, Mkoji GM, Montague MJ, Montelongo C, Moroz LL, Munoz-Torres MC, Niazi U, Noble LR, Oliveira FS, Pais FS, Papenfuss AT, Peace R, Pena JJ, Pila EA, Quelais T, Raney BJ, Rast JP, Rollinson D, Rosse IC, Rotgans B, Routledge EJ, Ryan KM, Scholte LLS, Storey KB, Swain M, Tennessen JA, Tomlinson C, Trujillo DL, Volpi EV, Walker AJ, Wang T, Wannaporn I, Warren WC, Wu XJ, Yoshino TP, Yusuf M, Zhang SM, Zhao M, Wilson RK.

Nat Commun. 2017 Aug 23;8:16153. doi: 10.1038/ncomms16153.

15.

De novo transcriptome assembly for the spiny mouse (Acomys cahirinus).

Mamrot J, Legaie R, Ellery SJ, Wilson T, Seemann T, Powell DR, Gardner DK, Walker DW, Temple-Smith P, Papenfuss AT, Dickinson H.

Sci Rep. 2017 Aug 21;7(1):8996. doi: 10.1038/s41598-017-09334-7.

16.

A statistical framework for analyzing deep mutational scanning data.

Rubin AF, Gelman H, Lucas N, Bajjalieh SM, Papenfuss AT, Speed TP, Fowler DM.

Genome Biol. 2017 Aug 7;18(1):150. doi: 10.1186/s13059-017-1272-5. Erratum in: Genome Biol. 2018 Feb 7;19(1):17.

17.

CLOVE: classification of genomic fusions into structural variation events.

Schröder J, Wirawan A, Schmidt B, Papenfuss AT.

BMC Bioinformatics. 2017 Jul 20;18(1):346. doi: 10.1186/s12859-017-1760-3.

18.

Whole genome analysis of a schistosomiasis-transmitting freshwater snail.

Adema CM, Hillier LW, Jones CS, Loker ES, Knight M, Minx P, Oliveira G, Raghavan N, Shedlock A, do Amaral LR, Arican-Goktas HD, Assis JG, Baba EH, Baron OL, Bayne CJ, Bickham-Wright U, Biggar KK, Blouin M, Bonning BC, Botka C, Bridger JM, Buckley KM, Buddenborg SK, Lima Caldeira R, Carleton J, Carvalho OS, Castillo MG, Chalmers IW, Christensens M, Clifton S, Cosseau C, Coustau C, Cripps RM, Cuesta-Astroz Y, Cummins SF, di Stephano L, Dinguirard N, Duval D, Emrich S, Feschotte C, Feyereisen R, FitzGerald P, Fronick C, Fulton L, Galinier R, Gava SG, Geusz M, Geyer KK, Giraldo-Calderón GI, de Souza Gomes M, Gordy MA, Gourbal B, Grunau C, Hanington PC, Hoffmann KF, Hughes D, Humphries J, Jackson DJ, Jannotti-Passos LK, de Jesus Jeremias W, Jobling S, Kamel B, Kapusta A, Kaur S, Koene JM, Kohn AB, Lawson D, Lawton SP, Liang D, Limpanont Y, Liu S, Lockyer AE, Lovato TL, Ludolf F, Magrini V, McManus DP, Medina M, Misra M, Mitta G, Mkoji GM, Montague MJ, Montelongo C, Moroz LL, Munoz-Torres MC, Niazi U, Noble LR, Oliveira FS, Pais FS, Papenfuss AT, Peace R, Pena JJ, Pila EA, Quelais T, Raney BJ, Rast JP, Rollinson D, Rosse IC, Rotgans B, Routledge EJ, Ryan KM, Scholte LLS, Storey KB, Swain M, Tennessen JA, Tomlinson C, Trujillo DL, Volpi EV, Walker AJ, Wang T, Wannaporn I, Warren WC, Wu XJ, Yoshino TP, Yusuf M, Zhang SM, Zhao M, Wilson RK.

Nat Commun. 2017 May 16;8:15451. doi: 10.1038/ncomms15451. Erratum in: Nat Commun. 2017 Aug 23;8:16153.

19.

Altered interactions between unicellular and multicellular genes drive hallmarks of transformation in a diverse range of solid tumors.

Trigos AS, Pearson RB, Papenfuss AT, Goode DL.

Proc Natl Acad Sci U S A. 2017 Jun 13;114(24):6406-6411. doi: 10.1073/pnas.1617743114. Epub 2017 May 8.

20.

PathOS: a decision support system for reporting high throughput sequencing of cancers in clinical diagnostic laboratories.

Doig KD, Fellowes A, Bell AH, Seleznev A, Ma D, Ellul J, Li J, Doyle MA, Thompson ER, Kumar A, Lara L, Vedururu R, Reid G, Conway T, Papenfuss AT, Fox SB.

Genome Med. 2017 Apr 24;9(1):38. doi: 10.1186/s13073-017-0427-z.

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