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Effective drug combinations in breast, colon and pancreatic cancer cells.
Jaaks P, Coker EA, Vis DJ, Edwards O, Carpenter EF, Leto SM, Dwane L, Sassi F, Lightfoot H, Barthorpe S, van der Meer D, Yang W, Beck A, Mironenko T, Hall C, Hall J, Mali I, Richardson L, Tolley C, Morris J, Thomas F, Lleshi E, Aben N, Benes CH, Bertotti A, Trusolino L, Wessels L, Garnett MJ. Jaaks P, et al. Among authors: aben n. Nature. 2022 Mar;603(7899):166-173. doi: 10.1038/s41586-022-04437-2. Epub 2022 Feb 23. Nature. 2022. PMID: 35197630 Free PMC article.
A Landscape of Pharmacogenomic Interactions in Cancer.
Iorio F, Knijnenburg TA, Vis DJ, Bignell GR, Menden MP, Schubert M, Aben N, Gonçalves E, Barthorpe S, Lightfoot H, Cokelaer T, Greninger P, van Dyk E, Chang H, de Silva H, Heyn H, Deng X, Egan RK, Liu Q, Mironenko T, Mitropoulos X, Richardson L, Wang J, Zhang T, Moran S, Sayols S, Soleimani M, Tamborero D, Lopez-Bigas N, Ross-Macdonald P, Esteller M, Gray NS, Haber DA, Stratton MR, Benes CH, Wessels LFA, Saez-Rodriguez J, McDermott U, Garnett MJ. Iorio F, et al. Among authors: aben n. Cell. 2016 Jul 28;166(3):740-754. doi: 10.1016/j.cell.2016.06.017. Epub 2016 Jul 7. Cell. 2016. PMID: 27397505 Free PMC article.
Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen.
Menden MP, Wang D, Mason MJ, Szalai B, Bulusu KC, Guan Y, Yu T, Kang J, Jeon M, Wolfinger R, Nguyen T, Zaslavskiy M; AstraZeneca-Sanger Drug Combination DREAM Consortium; Jang IS, Ghazoui Z, Ahsen ME, Vogel R, Neto EC, Norman T, Tang EKY, Garnett MJ, Veroli GYD, Fawell S, Stolovitzky G, Guinney J, Dry JR, Saez-Rodriguez J. Menden MP, et al. Nat Commun. 2019 Jun 17;10(1):2674. doi: 10.1038/s41467-019-09799-2. Nat Commun. 2019. PMID: 31209238 Free PMC article.
iTOP: inferring the topology of omics data.
Aben N, Westerhuis JA, Song Y, Kiers HAL, Michaut M, Smilde AK, Wessels LFA. Aben N, et al. Bioinformatics. 2018 Sep 1;34(17):i988-i996. doi: 10.1093/bioinformatics/bty636. Bioinformatics. 2018. PMID: 30423084 Free PMC article.
Principal component analysis of binary genomics data.
Song Y, Westerhuis JA, Aben N, Michaut M, Wessels LFA, Smilde AK. Song Y, et al. Among authors: aben n. Brief Bioinform. 2019 Jan 18;20(1):317-329. doi: 10.1093/bib/bbx119. Brief Bioinform. 2019. PMID: 30657888
Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells.
Roumeliotis TI, Williams SP, Gonçalves E, Alsinet C, Del Castillo Velasco-Herrera M, Aben N, Ghavidel FZ, Michaut M, Schubert M, Price S, Wright JC, Yu L, Yang M, Dienstmann R, Guinney J, Beltrao P, Brazma A, Pardo M, Stegle O, Adams DJ, Wessels L, Saez-Rodriguez J, McDermott U, Choudhary JS. Roumeliotis TI, et al. Among authors: aben n. Cell Rep. 2017 Aug 29;20(9):2201-2214. doi: 10.1016/j.celrep.2017.08.010. Cell Rep. 2017. PMID: 28854368 Free PMC article.
Highlights from the ISCB Student Council Symposia in 2016.
Cuypers B, Jacobsen A, Siranosian B, Schwahn K, Conard AM, Aben N, Hassan M, Fatima N, Hermans SMA, Woghiren M, Meysman P, Rahman F, Jigisha A. Cuypers B, et al. Among authors: aben n. F1000Res. 2016 Dec 15;5:ISCB Comm J-2852. doi: 10.12688/f1000research.10389.1. eCollection 2016. F1000Res. 2016. PMID: 28003876 Free PMC article.