Orchestrating and sharing large multimodal data for transparent and reproducible research
Mammoliti, Anthony, Smirnov, Petr, Nakano, Minoru, Safikhani, Zhaleh, Eeles, Christopher, Seo, Heewon, Nair, Sisira Kadambat, Mer, Arvind S., Smith, Ian, Ho, Chantal, Beri, Gangesh, Kusko, Rebecca, Shraddha, Thakkar, Sansone, Susanna-Assunta, Tong, Weida, Wolfinger, Russ D., Mason, Christopher E., Jones, Wendell, Dopazo, Joaquin, Furlanello, Cesare, Lin, Eva, Yu, Yihong, Martin, Scott, Hafner, Marc, Haibe-Kains, Benjamin
Published in Nature communications (04.10.2021)
Published in Nature communications (04.10.2021)
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Journal Article
Drug sensitivity prediction from cell line-based pharmacogenomics data: guidelines for developing machine learning models
Sharifi-Noghabi, Hossein, Jahangiri-Tazehkand, Soheil, Smirnov, Petr, Hon, Casey, Mammoliti, Anthony, Nair, Sisira Kadambat, Mer, Arvind Singh, Ester, Martin, Haibe-Kains, Benjamin
Published in Briefings in bioinformatics (05.11.2021)
Published in Briefings in bioinformatics (05.11.2021)
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Journal Article
Bimodal Gene Expression in Patients with Cancer Provides Interpretable Biomarkers for Drug Sensitivity
Ba-Alawi, Wail, Nair, Sisira Kadambat, Li, Bo, Mammoliti, Anthony, Smirnov, Petr, Mer, Arvind Singh, Penn, Linda Z., Haibe-Kains, Benjamin
Published in Cancer research (Chicago, Ill.) (05.07.2022)
Published in Cancer research (Chicago, Ill.) (05.07.2022)
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Journal Article
Abstract PO-070: Bimodality of gene expression in cancer patient tumors as interpretable biomarkers for drug sensitivity
Ba-alawi, Wail, Nair, Sisira Kadambat, Li, Bo, Mammoliti, Anthony, Smirnov, Petr, Mer, Arvind Singh, Penn, Linda, Haibe-Kains, Benjamin
Published in Clinical cancer research (01.03.2021)
Published in Clinical cancer research (01.03.2021)
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Journal Article
Abstract PR-07: ORCESTRA: A platform for orchestrating and sharing high-throughput multimodal data analyses
Mammoliti, Anthony, Smirnov, Petr, Nakano, Minoru, Safikhani, Zhaleh, Nair, Sisira, Mer, Arvind Singh, Ho, Chantal, Beri, Gangesh, Haibe-Kains, Benjamin
Published in Clinical cancer research (01.03.2021)
Published in Clinical cancer research (01.03.2021)
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Journal Article
PharmacoDB 2.0: improving scalability and transparency of in vitro pharmacogenomics analysis
Feizi, Nikta, Nair, Sisira Kadambat, Smirnov, Petr, Beri, Gangesh, Eeles, Christopher, Esfahani, Parinaz Nasr, Nakano, Minoru, Tkachuk, Denis, Mammoliti, Anthony, Gorobets, Evgeniya, Mer, Arvind Singh, Lin, Eva, Yu, Yihong, Martin, Scott, Hafner, Marc, Haibe-Kains, Benjamin
Published in Nucleic acids research (07.01.2022)
Published in Nucleic acids research (07.01.2022)
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Journal Article
ToxicoDB: an integrated database to mine and visualize large-scale toxicogenomic datasets
Nair, Sisira Kadambat, Eeles, Christopher, Ho, Chantal, Beri, Gangesh, Yoo, Esther, Tkachuk, Denis, Tang, Amy, Nijrabi, Parwaiz, Smirnov, Petr, Seo, Heewon, Jennen, Danyel, Haibe-Kains, Benjamin
Published in Nucleic acids research (02.07.2020)
Published in Nucleic acids research (02.07.2020)
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Journal Article
Biological and therapeutic implications of a unique subtype of NPM1 mutated AML
Mer, Arvind Singh, Heath, Emily M, Madani Tonekaboni, Seyed Ali, Dogan-Artun, Nergiz, Nair, Sisira Kadambat, Murison, Alex, Garcia-Prat, Laura, Shlush, Liran, Hurren, Rose, Voisin, Veronique, Bader, Gary D, Nislow, Corey, Rantalainen, Mattias, Lehmann, Soren, Gower, Mark, Guidos, Cynthia J, Lupien, Mathieu, Dick, John E, Minden, Mark D, Schimmer, Aaron D, Haibe-Kains, Benjamin
Published in Nature communications (16.02.2021)
Published in Nature communications (16.02.2021)
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Journal Article
Meta-analysis of preclinical pharmacogenomic studies to discover robust and translatable biomarkers of drug response
Smirnov, Petr, Nair, Sisira Kadambat, Abbas-Aghababazadeh, Farnoosh, Feizi, Nikta, Smith, Ian, Pugh, Trevor J, Haibe-Kains, Benjamin
Published in bioRxiv (24.10.2022)
Published in bioRxiv (24.10.2022)
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Paper
PharmacoDB 2.0 : Improving scalability and transparency of in vitro pharmacogenomics analysis
Feizi, Nikta, Nair, Sisira Kadambat, Smirnov, Petr, Beri, Gangesh, Eeles, Christopher, Parinaz Nasr Esfahani, Nakano, Minoru, Tkachuk, Denis, Mammoliti, Anthony, Gorobets, Evgeniya, Arvind Singh Mer, Lin, Eva, Yu, Yihong, Martin, Scott, Hafner, Marc, Haibe-Kains, Benjamin
Published in bioRxiv (24.09.2021)
Published in bioRxiv (24.09.2021)
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