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Page 1
Enhancing reproducibility in cancer drug screening: how do we move forward?
Hatzis C, Bedard PL, Birkbak NJ, Beck AH, Aerts HJ, Stem DF, Shi L, Clarke R, Quackenbush J, Haibe-Kains B. Hatzis C, et al. Cancer Res. 2014 Aug 1;74(15):4016-23. doi: 10.1158/0008-5472.CAN-14-0725. Epub 2014 Jul 11. Cancer Res. 2014. PMID: 25015668 Free PMC article. Review.
Assessment of pharmacogenomic agreement.
Safikhani Z, El-Hachem N, Quevedo R, Smirnov P, Goldenberg A, Juul Birkbak N, Mason C, Hatzis C, Shi L, Aerts HJ, Quackenbush J, Haibe-Kains B. Safikhani Z, et al. F1000Res. 2016 May 9;5:825. doi: 10.12688/f1000research.8705.1. eCollection 2016. F1000Res. 2016. PMID: 27408686 Free PMC article.
Transparency and reproducibility in artificial intelligence.
Haibe-Kains B, Adam GA, Hosny A, Khodakarami F; Massive Analysis Quality Control (MAQC) Society Board of Directors; Waldron L, Wang B, McIntosh C, Goldenberg A, Kundaje A, Greene CS, Broderick T, Hoffman MM, Leek JT, Korthauer K, Huber W, Brazma A, Pineau J, Tibshirani R, Hastie T, Ioannidis JPA, Quackenbush J, Aerts HJWL. Haibe-Kains B, et al. Nature. 2020 Oct;586(7829):E14-E16. doi: 10.1038/s41586-020-2766-y. Epub 2020 Oct 14. Nature. 2020. PMID: 33057217 Free PMC article.
Orchestrating and sharing large multimodal data for transparent and reproducible research.
Mammoliti A, Smirnov P, Nakano M, Safikhani Z, Eeles C, Seo H, Nair SK, Mer AS, Smith I, Ho C, Beri G, Kusko R; Massive Analysis Quality Control (MAQC) Society Board of Directors; Lin E, Yu Y, Martin S, Hafner M, Haibe-Kains B. Mammoliti A, et al. Nat Commun. 2021 Oct 4;12(1):5797. doi: 10.1038/s41467-021-25974-w. Nat Commun. 2021. PMID: 34608132 Free PMC article.
Reporting guidelines for human microbiome research: the STORMS checklist.
Mirzayi C, Renson A; Genomic Standards Consortium; Massive Analysis and Quality Control Society; Zohra F, Elsafoury S, Geistlinger L, Kasselman LJ, Eckenrode K, van de Wijgert J, Loughman A, Marques FZ, MacIntyre DA, Arumugam M, Azhar R, Beghini F, Bergstrom K, Bhatt A, Bisanz JE, Braun J, Bravo HC, Buck GA, Bushman F, Casero D, Clarke G, Collado MC, Cotter PD, Cryan JF, Demmer RT, Devkota S, Elinav E, Escobar JS, Fettweis J, Finn RD, Fodor AA, Forslund S, Franke A, Furlanello C, Gilbert J, Grice E, Haibe-Kains B, Handley S, Herd P, Holmes S, Jacobs JP, Karstens L, Knight R, Knights D, Koren O, Kwon DS, Langille M, Lindsay B, McGovern D, McHardy AC, McWeeney S, Mueller NT, Nezi L, Olm M, Palm N, Pasolli E, Raes J, Redinbo MR, Rühlemann M, Balfour Sartor R, Schloss PD, Schriml L, Segal E, Shardell M, Sharpton T, Smirnova E, Sokol H, Sonnenburg JL, Srinivasan S, Thingholm LB, Turnbaugh PJ, Upadhyay V, Walls RL, Wilmes P, Yamada T, Zeller G, Zhang M, Zhao N, Zhao L, Bao W, Culhane A, Devanarayan V, Dopazo J, Fan X, Fischer M, Jones W, Kusko R, Mason CE, Mercer TR, Sansone SA, Scherer A, Shi L, Thakkar S, Tong W, Wolfinger R, Hunter C, Segata N, Huttenhower C, Dowd JB, Jones HE, Waldr… See abstract for full author list ➔ Mirzayi C, et al. Nat Med. 2021 Nov;27(11):1885-1892. doi: 10.1038/s41591-021-01552-x. Epub 2021 Nov 17. Nat Med. 2021. PMID: 34789871 Free PMC article. Review.
Revisiting inconsistency in large pharmacogenomic studies.
Safikhani Z, Smirnov P, Freeman M, El-Hachem N, She A, Rene Q, Goldenberg A, Birkbak NJ, Hatzis C, Shi L, Beck AH, Aerts HJWL, Quackenbush J, Haibe-Kains B. Safikhani Z, et al. F1000Res. 2016 Sep 16;5:2333. doi: 10.12688/f1000research.9611.3. eCollection 2016. F1000Res. 2016. PMID: 28928933 Free PMC article.
Inconsistency in large pharmacogenomic studies.
Haibe-Kains B, El-Hachem N, Birkbak NJ, Jin AC, Beck AH, Aerts HJ, Quackenbush J. Haibe-Kains B, et al. Nature. 2013 Dec 19;504(7480):389-93. doi: 10.1038/nature12831. Epub 2013 Nov 27. Nature. 2013. PMID: 24284626 Free PMC article.
249 results