Alexandra B Keenan

Alexandra B Keenan

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Alexandra B Keenan

Alexandra B Keenan

Publications by authors named "Alexandra B Keenan"

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modEnrichr: a suite of gene set enrichment analysis tools for model organisms.

Nucleic Acids Res 2019 Jul;47(W1):W183-W190

Department of Pharmacological Sciences, Mount Sinai Center for Bioinformatics, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place Box 1215, New York, NY 10029, USA.

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http://dx.doi.org/10.1093/nar/gkz347DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602483PMC
July 2019

Geneshot: search engine for ranking genes from arbitrary text queries.

Nucleic Acids Res 2019 Jul;47(W1):W571-W577

Department of Pharmacological Sciences, Mount Sinai Center for Bioinformatics, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, Box 1603, New York, NY 10029 USA.

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http://dx.doi.org/10.1093/nar/gkz393DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602493PMC
July 2019

ChEA3: transcription factor enrichment analysis by orthogonal omics integration.

Nucleic Acids Res 2019 Jul;47(W1):W212-W224

Department of Pharmacological Sciences, Mount Sinai Center for Bioinformatics, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, Box 1603, New York, NY 10029, USA.

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http://dx.doi.org/10.1093/nar/gkz446DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602523PMC
July 2019

eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks.

Nucleic Acids Res 2018 07;46(W1):W171-W179

DBD2K-LINCS Data Coordination and Integration Center; Knowledge Management Center for the Illuminating the Druggable Genome; Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, Box 1603, New York, NY 10029, USA.

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http://dx.doi.org/10.1093/nar/gky458DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030863PMC
July 2018

L1000FWD: fireworks visualization of drug-induced transcriptomic signatures.

Bioinformatics 2018 06;34(12):2150-2152

Department of Pharmacological Sciences, BD2K-LINCS Data Coordination and Integration Center, Icahn School of Medicine at Mount Sinai, New York, NY, USA.

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http://dx.doi.org/10.1093/bioinformatics/bty060DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454499PMC
June 2018

Massive mining of publicly available RNA-seq data from human and mouse.

Nat Commun 2018 04 10;9(1):1366. Epub 2018 Apr 10.

Department of Pharmacological Sciences; Mount Sinai Center for Bioinformatics; Big Data to Knowledge, Library of Integrated Network-based Cellular Signatures, Data Coordination and Integration Center (BD2K-LINCS DCIC); Knowledge Management Center for Illuminating the Druggable Genome (KMC-IDG), Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, Box 1603, New York, NY, 10029, USA.

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http://dx.doi.org/10.1038/s41467-018-03751-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5893633PMC
April 2018

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.

Authors:
Alexandra B Keenan Sherry L Jenkins Kathleen M Jagodnik Simon Koplev Edward He Denis Torre Zichen Wang Anders B Dohlman Moshe C Silverstein Alexander Lachmann Maxim V Kuleshov Avi Ma'ayan Vasileios Stathias Raymond Terryn Daniel Cooper Michele Forlin Amar Koleti Dusica Vidovic Caty Chung Stephan C Schürer Jouzas Vasiliauskas Marcin Pilarczyk Behrouz Shamsaei Mehdi Fazel Yan Ren Wen Niu Nicholas A Clark Shana White Naim Mahi Lixia Zhang Michal Kouril John F Reichard Siva Sivaganesan Mario Medvedovic Jaroslaw Meller Rick J Koch Marc R Birtwistle Ravi Iyengar Eric A Sobie Evren U Azeloglu Julia Kaye Jeannette Osterloh Kelly Haston Jaslin Kalra Steve Finkbiener Jonathan Li Pamela Milani Miriam Adam Renan Escalante-Chong Karen Sachs Alex Lenail Divya Ramamoorthy Ernest Fraenkel Gavin Daigle Uzma Hussain Alyssa Coye Jeffrey Rothstein Dhruv Sareen Loren Ornelas Maria Banuelos Berhan Mandefro Ritchie Ho Clive N Svendsen Ryan G Lim Jennifer Stocksdale Malcolm S Casale Terri G Thompson Jie Wu Leslie M Thompson Victoria Dardov Vidya Venkatraman Andrea Matlock Jennifer E Van Eyk Jacob D Jaffe Malvina Papanastasiou Aravind Subramanian Todd R Golub Sean D Erickson Mohammad Fallahi-Sichani Marc Hafner Nathanael S Gray Jia-Ren Lin Caitlin E Mills Jeremy L Muhlich Mario Niepel Caroline E Shamu Elizabeth H Williams David Wrobel Peter K Sorger Laura M Heiser Joe W Gray James E Korkola Gordon B Mills Mark LaBarge Heidi S Feiler Mark A Dane Elmar Bucher Michel Nederlof Damir Sudar Sean Gross David F Kilburn Rebecca Smith Kaylyn Devlin Ron Margolis Leslie Derr Albert Lee Ajay Pillai

Cell Syst 2018 01 29;6(1):13-24. Epub 2017 Nov 29.

NIH, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1016/j.cels.2017.11.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5799026PMC
January 2018

Leishmania infantum chagasi: a genome-based approach to identification of excreted/secreted proteins.

Exp Parasitol 2010 Dec 11;126(4):582-91. Epub 2010 Jun 11.

Department of Internal Medicine, University of Iowa, Iowa City, IA 52242, USA.

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http://dx.doi.org/10.1016/j.exppara.2010.06.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2939245PMC
December 2010