eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks. - Daniel J. B. Clarke; Maxim V. Kuleshov; Brian M. Schilder; Denis Torre; Mary E. Duffy; Alexandra B. Keenan; Alexander Lachmann; Axel S. Feldmann; Gregory W. Gundersen; Moshe C. Silverstein; Zichen Wang 002; Avi Ma'ayan (Nucleic Acids Res., 2018)

Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data. - Amar Koleti; Raymond Terryn; Vasileios Stathias; Caty Chung; Daniel J. Cooper; John Paul Turner; Dusica Vidovic; Michele Forlin; Tanya T. Kelley; Alessandro D'Urso; Bryce K. Allen; Denis Torre; et al. (Nucleic Acids Res., 2018)

ChEA3: transcription factor enrichment analysis by orthogonal omics integration. - Alexandra B. Keenan; Denis Torre; Alexander Lachmann; Ariel K. Leong; Megan L. Wojciechowicz; Vivian Utti; Kathleen M. Jagodnik; Eryk Kropiwnicki; Zichen Wang 002; Avi Ma'ayan (Nucleic Acids Res., 2019)

Geneshot: search engine for ranking genes from arbitrary text queries. - Alexander Lachmann; Brian M. Schilder; Megan L. Wojciechowicz; Denis Torre; Maxim V. Kuleshov; Alexandra B. Keenan; Avi Ma'ayan (Nucleic Acids Res., 2019)

KEA3: improved kinase enrichment analysis via data integration. - Maxim V. Kuleshov; Zhuorui Xie; Alexandra B. K. London; Janice Yang; John Erol Evangelista; Alexander Lachmann; Ingrid Shu; Denis Torre; Avi Ma'ayan (Nucleic Acids Res., 2021)