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Page 1
Prediction of cancer treatment response from histopathology images through imputed transcriptomics.
Hoang DT, Dinstag G, Hermida LC, Ben-Zvi DS, Elis E, Caley K, Sammut SJ, Sinha S, Sinha N, Dampier CH, Stossel C, Patil T, Rajan A, Lassoued W, Strauss J, Bailey S, Allen C, Redman J, Beker T, Jiang P, Golan T, Wilkinson S, Sowalsky AG, Pine SR, Caldas C, Gulley JL, Aldape K, Aharonov R, Stone EA, Ruppin E. Hoang DT, et al. Among authors: sammut sj. Res Sq [Preprint]. 2023 Sep 15:rs.3.rs-3193270. doi: 10.21203/rs.3.rs-3193270/v1. Res Sq. 2023. Update in: Nat Cancer. 2024 Sep;5(9):1305-1317. doi: 10.1038/s43018-024-00793-2 PMID: 37790315 Free PMC article. Updated. Preprint.
The Pfam protein families database.
Finn RD, Tate J, Mistry J, Coggill PC, Sammut SJ, Hotz HR, Ceric G, Forslund K, Eddy SR, Sonnhammer EL, Bateman A. Finn RD, et al. Among authors: sammut sj. Nucleic Acids Res. 2008 Jan;36(Database issue):D281-8. doi: 10.1093/nar/gkm960. Epub 2007 Nov 26. Nucleic Acids Res. 2008. PMID: 18039703 Free PMC article.
Erratum: The somatic mutation profiles of 2,433 breast cancers refine their genomic and transcriptomic landscapes.
Pereira B, Chin SF, Rueda OM, Vollan HK, Provenzano E, Bardwell HA, Pugh M, Jones L, Russell R, Sammut SJ, Tsui DW, Liu B, Dawson SJ, Abraham J, Northen H, Peden JF, Mukherjee A, Turashvili G, Green AR, McKinney S, Oloumi A, Shah S, Rosenfeld N, Murphy L, Bentley DR, Ellis IO, Purushotham A, Pinder SE, Børresen-Dale AL, Earl HM, Pharoah PD, Ross MT, Aparicio S, Caldas C. Pereira B, et al. Among authors: sammut sj. Nat Commun. 2016 Jun 6;7:11908. doi: 10.1038/ncomms11908. Nat Commun. 2016. PMID: 27264733 Free PMC article. No abstract available.
AACR Project GENIE: 100,000 Cases and Beyond.
Pugh TJ, Bell JL, Bruce JP, Doherty GJ, Galvin M, Green MF, Hunter-Zinck H, Kumari P, Lenoue-Newton ML, Li MM, Lindsay J, Mazor T, Ovalle A, Sammut SJ, Schultz N, Yu TV, Sweeney SM, Bernard B; AACR Project GENIE Consortium, Genomics and Analysis Working Group. Pugh TJ, et al. Among authors: sammut sj. Cancer Discov. 2022 Sep 2;12(9):2044-2057. doi: 10.1158/2159-8290.CD-21-1547. Cancer Discov. 2022. PMID: 35819403 Free PMC article.
Pfam 10 years on: 10,000 families and still growing.
Sammut SJ, Finn RD, Bateman A. Sammut SJ, et al. Brief Bioinform. 2008 May;9(3):210-9. doi: 10.1093/bib/bbn010. Epub 2008 Mar 15. Brief Bioinform. 2008. PMID: 18344544 Review.
Transcriptional diversity during lineage commitment of human blood progenitors.
Chen L, Kostadima M, Martens JHA, Canu G, Garcia SP, Turro E, Downes K, Macaulay IC, Bielczyk-Maczynska E, Coe S, Farrow S, Poudel P, Burden F, Jansen SBG, Astle WJ, Attwood A, Bariana T, de Bono B, Breschi A, Chambers JC, Consortium B, Choudry FA, Clarke L, Coupland P, van der Ent M, Erber WN, Jansen JH, Favier R, Fenech ME, Foad N, Freson K, van Geet C, Gomez K, Guigo R, Hampshire D, Kelly AM, Kerstens HHD, Kooner JS, Laffan M, Lentaigne C, Labalette C, Martin T, Meacham S, Mumford A, Nürnberg S, Palumbo E, van der Reijden BA, Richardson D, Sammut SJ, Slodkowicz G, Tamuri AU, Vasquez L, Voss K, Watt S, Westbury S, Flicek P, Loos R, Goldman N, Bertone P, Read RJ, Richardson S, Cvejic A, Soranzo N, Ouwehand WH, Stunnenberg HG, Frontini M, Rendon A. Chen L, et al. Among authors: sammut sj. Science. 2014 Sep 26;345(6204):1251033. doi: 10.1126/science.1251033. Science. 2014. PMID: 25258084 Free PMC article.
A deep-learning framework to predict cancer treatment response from histopathology images through imputed transcriptomics.
Hoang DT, Dinstag G, Shulman ED, Hermida LC, Ben-Zvi DS, Elis E, Caley K, Sammut SJ, Sinha S, Sinha N, Dampier CH, Stossel C, Patil T, Rajan A, Lassoued W, Strauss J, Bailey S, Allen C, Redman J, Beker T, Jiang P, Golan T, Wilkinson S, Sowalsky AG, Pine SR, Caldas C, Gulley JL, Aldape K, Aharonov R, Stone EA, Ruppin E. Hoang DT, et al. Among authors: sammut sj. Nat Cancer. 2024 Sep;5(9):1305-1317. doi: 10.1038/s43018-024-00793-2. Epub 2024 Jul 3. Nat Cancer. 2024. PMID: 38961276
The expression patterns of different cell types and their interactions in the tumor microenvironment are predictive of breast cancer patient response to neoadjuvant chemotherapy.
Dhruba SR, Sahni S, Wang B, Wu D, Rajagopal PS, Schmidt Y, Shulman ED, Sinha S, Sammut SJ, Caldas C, Wang K, Ruppin E. Dhruba SR, et al. Among authors: sammut sj. bioRxiv [Preprint]. 2024 Jun 14:2024.06.14.598770. doi: 10.1101/2024.06.14.598770. bioRxiv. 2024. PMID: 39372749 Free PMC article. Preprint.
46 results