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The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.
Keenan AB, Jenkins SL, Jagodnik KM, Koplev S, He E, Torre D, Wang Z, Dohlman AB, Silverstein MC, Lachmann A, Kuleshov MV, Ma'ayan A, Stathias V, Terryn R, Cooper D, Forlin M, Koleti A, Vidovic D, Chung C, Schürer SC, Vasiliauskas J, Pilarczyk M, Shamsaei B, Fazel M, Ren Y, Niu W, Clark NA, White S, Mahi N, Zhang L, Kouril M, Reichard JF, Sivaganesan S, Medvedovic M, Meller J, Koch RJ, Birtwistle MR, Iyengar R, Sobie EA, Azeloglu EU, Kaye J, Osterloh J, Haston K, Kalra J, Finkbiener S, Li J, Milani P, Adam M, Escalante-Chong R, Sachs K, Lenail A, Ramamoorthy D, Fraenkel E, Daigle G, Hussain U, Coye A, Rothstein J, Sareen D, Ornelas L, Banuelos M, Mandefro B, Ho R, Svendsen CN, Lim RG, Stocksdale J, Casale MS, Thompson TG, Wu J, Thompson LM, Dardov V, Venkatraman V, Matlock A, Van Eyk JE, Jaffe JD, Papanastasiou M, Subramanian A, Golub TR, Erickson SD, Fallahi-Sichani M, Hafner M, Gray NS, Lin JR, Mills CE, Muhlich JL, Niepel M, Shamu CE, Williams EH, Wrobel D, Sorger PK, Heiser LM, Gray JW, Korkola JE, Mills GB, LaBarge M, Feiler HS, Dane MA, Bucher E, Nederlof M, Sudar D, Gross S, Kilburn DF, Smith R, Devlin K, Margolis R, Derr L, Lee A, Pillai A. Keenan AB, et al. Among authors: kuleshov mv. Cell Syst. 2018 Jan 24;6(1):13-24. doi: 10.1016/j.cels.2017.11.001. Epub 2017 Nov 29. Cell Syst. 2018. PMID: 29199020 Free PMC article. Review.
Enrichr: a comprehensive gene set enrichment analysis web server 2016 update.
Kuleshov MV, Jones MR, Rouillard AD, Fernandez NF, Duan Q, Wang Z, Koplev S, Jenkins SL, Jagodnik KM, Lachmann A, McDermott MG, Monteiro CD, Gundersen GW, Ma'ayan A. Kuleshov MV, et al. Nucleic Acids Res. 2016 Jul 8;44(W1):W90-7. doi: 10.1093/nar/gkw377. Epub 2016 May 3. Nucleic Acids Res. 2016. PMID: 27141961 Free PMC article.
Gene Set Knowledge Discovery with Enrichr.
Xie Z, Bailey A, Kuleshov MV, Clarke DJB, Evangelista JE, Jenkins SL, Lachmann A, Wojciechowicz ML, Kropiwnicki E, Jagodnik KM, Jeon M, Ma'ayan A. Xie Z, et al. Among authors: kuleshov mv. Curr Protoc. 2021 Mar;1(3):e90. doi: 10.1002/cpz1.90. Curr Protoc. 2021. PMID: 33780170 Free PMC article.
SigCom LINCS: data and metadata search engine for a million gene expression signatures.
Evangelista JE, Clarke DJB, Xie Z, Lachmann A, Jeon M, Chen K, Jagodnik KM, Jenkins SL, Kuleshov MV, Wojciechowicz ML, Schürer SC, Medvedovic M, Ma'ayan A. Evangelista JE, et al. Among authors: kuleshov mv. Nucleic Acids Res. 2022 Jul 5;50(W1):W697-W709. doi: 10.1093/nar/gkac328. Nucleic Acids Res. 2022. PMID: 35524556 Free PMC article.
Geneshot: search engine for ranking genes from arbitrary text queries.
Lachmann A, Schilder BM, Wojciechowicz ML, Torre D, Kuleshov MV, Keenan AB, Ma'ayan A. Lachmann A, et al. Among authors: kuleshov mv. Nucleic Acids Res. 2019 Jul 2;47(W1):W571-W577. doi: 10.1093/nar/gkz393. Nucleic Acids Res. 2019. PMID: 31114885 Free PMC article.
The COVID-19 Gene and Drug Set Library.
Kuleshov MV, Clarke DJB, Kropiwnicki E, Jagodnik KM, Bartal A, Evangelista JE, Zhou A, Ferguson LB, Lachmann A, Ma'ayan A. Kuleshov MV, et al. Res Sq [Preprint]. 2020 May 13:rs.3.rs-28582. doi: 10.21203/rs.3.rs-28582/v1. Res Sq. 2020. PMID: 32702729 Free PMC article. Updated. Preprint.
KEA3: improved kinase enrichment analysis via data integration.
Kuleshov MV, Xie Z, London ABK, Yang J, Evangelista JE, Lachmann A, Shu I, Torre D, Ma'ayan A. Kuleshov MV, et al. Nucleic Acids Res. 2021 Jul 2;49(W1):W304-W316. doi: 10.1093/nar/gkab359. Nucleic Acids Res. 2021. PMID: 34019655 Free PMC article.
16 results