NetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis von Zhou, Guangyan, Soufan, Othman, Ewald, Jessica, Hancock, Robert E W, Basu, Niladri, Xia, Jianguo

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MetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis von Chong, Jasmine, Soufan, Othman, Li, Carin, Caraus, Iurie, Li, Shuzhao, Bourque, Guillaume, Wishart, David S, Xia, Jianguo

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A novel graph mining approach to predict and evaluate food-drug interactions von Rahman, Md. Mostafizur, Vadrev, Srinivas Mukund, Magana-Mora, Arturo, Levman, Jacob, Soufan, Othman

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DPubChem: a web tool for QSAR modeling and high-throughput virtual screening von Soufan, Othman, Ba-alawi, Wail, Magana-Mora, Arturo, Essack, Magbubah, Bajic, Vladimir B.

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DWFS: a wrapper feature selection tool based on a parallel genetic algorithm von Soufan, Othman, Kleftogiannis, Dimitrios, Kalnis, Panos, Bajic, Vladimir B

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EcoToxXplorer: Leveraging Design Thinking to Develop a Standardized Web‐Based Transcriptomics Analytics Platform for Diverse Users von Soufan, Othman, Ewald, Jessica, Zhou, Guangyan, Hacariz, Orcun, Boulanger, Emily, Alcaraz, Alper James, Hickey, Gordon, Maguire, Steve, Pain, Guillaume, Hogan, Natacha, Hecker, Markus, Crump, Doug, Head, Jessica, Basu, Niladri, Xia, Jianguo

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Hepatic Transcriptomic Responses to Ethinylestradiol in Two Life Stages of Japanese Quail von Jeon, Yeon‐Seon, Crump, Doug, Boulanger, Emily, Soufan, Othman, Park, Bradley, Basu, Niladri, Hecker, Markus, Xia, Jianguo, Head, Jessica A.

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miRNet 2.0: network-based visual analytics for miRNA functional analysis and systems biology von Chang, Le, Zhou, Guangyan, Soufan, Othman, Xia, Jianguo

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T1000: a reduced gene set prioritized for toxicogenomic studies von Soufan, Othman, Ewald, Jessica, Viau, Charles, Crump, Doug, Hecker, Markus, Basu, Niladri, Xia, Jianguo

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Mining Chemical Activity Status from High-Throughput Screening Assays von Soufan, Othman, Ba-alawi, Wail, Afeef, Moataz, Essack, Magbubah, Rodionov, Valentin, Kalnis, Panos, Bajic, Vladimir B

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DANNP: an efficient artificial neural network pruning tool von Alshahrani, Mona, Soufan, Othman, Magana-Mora, Arturo, Bajic, Vladimir B

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FastBMD: an online tool for rapid benchmark dose–response analysis of transcriptomics data von Ewald, Jessica, Soufan, Othman, Xia, Jianguo, Basu, Niladri

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Systematic selection of chemical fingerprint features improves the Gibbs energy prediction of biochemical reactions von Alazmi, Meshari, Kuwahara, Hiroyuki, Soufan, Othman, Ding, Lizhong, Gao, Xin

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Transcriptome and physiological analysis reveal alterations in muscle metabolisms and immune responses of grass carp (Ctenopharyngodon idellus) cultured at different stocking densi... von Zhao, Honghao, Soufan, Othman, Xia, Jianguo, Tang, Rong, Li, Li, Li, Dapeng

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EcoToxModules: Custom Gene Sets to Organize and Analyze Toxicogenomics Data from Ecological Species von Ewald, Jessica D, Soufan, Othman, Crump, Doug, Hecker, Markus, Xia, Jianguo, Basu, Niladri

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DASPfind: new efficient method to predict drug–target interactions von Ba-alawi, Wail, Soufan, Othman, Essack, Magbubah, Kalnis, Panos, Bajic, Vladimir B.

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Characterizing toxicity pathways of fluoxetine to predict adverse outcomes in adult fathead minnows (Pimephales promelas) von Colville, Carly, Alcaraz, Alper James, Green, Derek, Park, Bradley, Xia, Jianguo, Soufan, Othman, Hruṧka, Pavel, Potěšil, David, Zdráhal, Zbyněk, Crump, Doug, Basu, Niladri, Hogan, Natacha, Hecker, Markus

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R400: A novel gene signature for dose prediction in radiation exposure studies in humans von St. Peter, Frederick, Vadrev, Srinivas Mukund, Soufan, Othman

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Development of a Comprehensive Toxicity Pathway Model for 17α-Ethinylestradiol in Early Life Stage Fathead Minnows (Pimephales promelas) von Alcaraz, Alper James G, Potěšil, David, Mikulášek, Kamil, Green, Derek, Park, Bradley, Burbridge, Connor, Bluhm, Kerstin, Soufan, Othman, Lane, Taylor, Pipal, Marek, Brinkmann, Markus, Xia, Jianguo, Zdráhal, Zbyněk, Schneider, David, Crump, Doug, Basu, Niladri, Hogan, Natacha, Hecker, Markus

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DRABAL: novel method to mine large high-throughput screening assays using Bayesian active learning von Soufan, Othman, Ba-Alawi, Wail, Afeef, Moataz, Essack, Magbubah, Kalnis, Panos, Bajic, Vladimir B.

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