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Items: 19

1.

RNA splicing alterations induce a cellular stress response associated with poor prognosis in Acute Myeloid Leukemia.

Anande G, Deshpande NP, Mareschal S, Batcha AMN, Hampton HR, Herold T, Lehmann S, Wilkins MR, Wong JWH, Unnikrishnan A, Pimanda JE.

Clin Cancer Res. 2020 Mar 2. pii: clincanres.0184.2020. doi: 10.1158/1078-0432.CCR-20-0184. [Epub ahead of print]

PMID:
32122925
2.

Whole genome sequencing of a novel, dichloromethane-fermenting Peptococcaceae from an enrichment culture.

Holland SI, Edwards RJ, Ertan H, Wong YK, Russell TL, Deshpande NP, Manefield MJ, Lee M.

PeerJ. 2019 Oct 2;7:e7775. doi: 10.7717/peerj.7775. eCollection 2019.

3.

Little evidence of adaptation potential to ocean acidification in sea urchins living in "Future Ocean" conditions at a CO2 vent.

Uthicke S, Deshpande NP, Liddy M, Patel F, Lamare M, Wilkins MR.

Ecol Evol. 2019 Aug 18;9(17):10004-10016. doi: 10.1002/ece3.5563. eCollection 2019 Sep.

4.

Signatures within the esophageal microbiome are associated with host genetics, age, and disease.

Deshpande NP, Riordan SM, Castaño-Rodríguez N, Wilkins MR, Kaakoush NO.

Microbiome. 2018 Dec 17;6(1):227. doi: 10.1186/s40168-018-0611-4.

5.

Specific Bacteria and Metabolites Associated With Response to Fecal Microbiota Transplantation in Patients With Ulcerative Colitis.

Paramsothy S, Nielsen S, Kamm MA, Deshpande NP, Faith JJ, Clemente JC, Paramsothy R, Walsh AJ, van den Bogaerde J, Samuel D, Leong RWL, Connor S, Ng W, Lin E, Borody TJ, Wilkins MR, Colombel JF, Mitchell HM, Kaakoush NO.

Gastroenterology. 2019 Apr;156(5):1440-1454.e2. doi: 10.1053/j.gastro.2018.12.001. Epub 2018 Dec 6.

PMID:
30529583
6.

Fast Short Read De-Novo Assembly Using Overlap-Layout-Consensus Approach.

Bayat A, Deshpande NP, Wilkins MR, Parameswaran S.

IEEE/ACM Trans Comput Biol Bioinform. 2020 Jan-Feb;17(1):334-338. doi: 10.1109/TCBB.2018.2875479. Epub 2018 Oct 11.

PMID:
30307874
7.

Integrative Genomics Identifies the Molecular Basis of Resistance to Azacitidine Therapy in Myelodysplastic Syndromes.

Unnikrishnan A, Papaemmanuil E, Beck D, Deshpande NP, Verma A, Kumari A, Woll PS, Richards LA, Knezevic K, Chandrakanthan V, Thoms JAI, Tursky ML, Huang Y, Ali Z, Olivier J, Galbraith S, Kulasekararaj AG, Tobiasson M, Karimi M, Pellagatti A, Wilson SR, Lindeman R, Young B, Ramakrishna R, Arthur C, Stark R, Crispin P, Curnow J, Warburton P, Roncolato F, Boultwood J, Lynch K, Jacobsen SEW, Mufti GJ, Hellstrom-Lindberg E, Wilkins MR, MacKenzie KL, Wong JWH, Campbell PJ, Pimanda JE.

Cell Rep. 2017 Jul 18;20(3):572-585. doi: 10.1016/j.celrep.2017.06.067.

8.

Small RNA interactome of pathogenic E. coli revealed through crosslinking of RNase E.

Waters SA, McAteer SP, Kudla G, Pang I, Deshpande NP, Amos TG, Leong KW, Wilkins MR, Strugnell R, Gally DL, Tollervey D, Tree JJ.

EMBO J. 2017 Feb 1;36(3):374-387. doi: 10.15252/embj.201694639. Epub 2016 Nov 11.

9.

Campylobacter concisus pathotypes induce distinct global responses in intestinal epithelial cells.

Deshpande NP, Wilkins MR, Castaño-Rodríguez N, Bainbridge E, Sodhi N, Riordan SM, Mitchell HM, Kaakoush NO.

Sci Rep. 2016 Sep 28;6:34288. doi: 10.1038/srep34288.

10.

Novel genetic markers define a subgroup of pathogenic Escherichia coli strains belonging to the B2 phylogenetic group.

Deshpande NP, Wilkins MR, Mitchell HM, Kaakoush NO.

FEMS Microbiol Lett. 2015 Nov;362(22). pii: fnv193. doi: 10.1093/femsle/fnv193. Epub 2015 Oct 12.

PMID:
26459886
11.

The draft genome of the pest tephritid fruit fly Bactrocera tryoni: resources for the genomic analysis of hybridising species.

Gilchrist AS, Shearman DC, Frommer M, Raphael KA, Deshpande NP, Wilkins MR, Sherwin WB, Sved JA.

BMC Genomics. 2014 Dec 20;15:1153. doi: 10.1186/1471-2164-15-1153.

12.

Transcriptomic and proteomic analyses reveal key innate immune signatures in the host response to the gastrointestinal pathogen Campylobacter concisus.

Kaakoush NO, Deshpande NP, Man SM, Burgos-Portugal JA, Khattak FA, Raftery MJ, Wilkins MR, Mitchell HM.

Infect Immun. 2015 Feb;83(2):832-45. doi: 10.1128/IAI.03012-14. Epub 2014 Dec 8.

13.

Tools to covisualize and coanalyze proteomic data with genomes and transcriptomes: validation of genes and alternative mRNA splicing.

Pang CN, Tay AP, Aya C, Twine NA, Harkness L, Hart-Smith G, Chia SZ, Chen Z, Deshpande NP, Kaakoush NO, Mitchell HM, Kassem M, Wilkins MR.

J Proteome Res. 2014 Jan 3;13(1):84-98. doi: 10.1021/pr400820p. Epub 2013 Nov 12.

PMID:
24152167
14.

Genome Sequence of Dehalobacter UNSWDHB, a Chloroform-Dechlorinating Bacterium.

Deshpande NP, Wong YK, Manefield M, Wilkins MR, Lee M.

Genome Announc. 2013 Sep 19;1(5). pii: e00720-13. doi: 10.1128/genomeA.00720-13.

15.

Comparative genomics of Campylobacter concisus isolates reveals genetic diversity and provides insights into disease association.

Deshpande NP, Kaakoush NO, Wilkins MR, Mitchell HM.

BMC Genomics. 2013 Aug 28;14:585. doi: 10.1186/1471-2164-14-585.

16.

Genome Sequence of Campylobacter showae UNSWCD, Isolated from a Patient with Crohn's Disease.

Tay AP, Kaakoush NO, Deshpande NP, Chen Z, Mitchell H, Wilkins MR.

Genome Announc. 2013 Jan;1(1). pii: e00193-12. doi: 10.1128/genomeA.00193-12. Epub 2013 Feb 14.

17.

The pathogenic potential of Campylobacter concisus strains associated with chronic intestinal diseases.

Kaakoush NO, Deshpande NP, Wilkins MR, Tan CG, Burgos-Portugal JA, Raftery MJ, Day AS, Lemberg DA, Mitchell H.

PLoS One. 2011;6(12):e29045. doi: 10.1371/journal.pone.0029045. Epub 2011 Dec 14.

18.

Comparative analyses of Campylobacter concisus strains reveal the genome of the reference strain BAA-1457 is not representative of the species.

Kaakoush NO, Deshpande NP, Wilkins MR, Raftery MJ, Janitz K, Mitchell H.

Gut Pathog. 2011 Oct 13;3:15. doi: 10.1186/1757-4749-3-15.

19.

Sequencing and validation of the genome of a Campylobacter concisus reveals intra-species diversity.

Deshpande NP, Kaakoush NO, Mitchell H, Janitz K, Raftery MJ, Li SS, Wilkins MR.

PLoS One. 2011;6(7):e22170. doi: 10.1371/journal.pone.0022170. Epub 2011 Jul 29.

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