| Massive mining of publicly available RNA-seq data from human and mouse A Lachmann, D Torre, AB Keenan, KM Jagodnik, HJ Lee, L Wang, ... Nature communications 9 (1), 1366, 2018 | 597 | 2018 |
| ChEA3: transcription factor enrichment analysis by orthogonal omics integration AB Keenan, D Torre, A Lachmann, AK Leong, ML Wojciechowicz, V Utti, ... Nucleic acids research 47 (W1), W212-W224, 2019 | 558 | 2019 |
| The library of integrated network-based cellular signatures NIH program: system-level cataloging of human cells response to perturbations AB Keenan, SL Jenkins, KM Jagodnik, S Koplev, E He, D Torre, Z Wang, ... Cell systems 6 (1), 13-24, 2018 | 390 | 2018 |
| BioJupies: automated generation of interactive notebooks for RNA-Seq data analysis in the cloud D Torre, A Lachmann, A Ma’ayan Cell systems 7 (5), 556-561. e3, 2018 | 250 | 2018 |
| Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data A Koleti, R Terryn, V Stathias, C Chung, DJ Cooper, JP Turner, D Vidović, ... Nucleic acids research 46 (D1), D558-D566, 2018 | 168 | 2018 |
| eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks DJB Clarke, MV Kuleshov, BM Schilder, D Torre, ME Duffy, AB Keenan, ... Nucleic acids research 46 (W1), W171-W179, 2018 | 164 | 2018 |
| Trained immunity-promoting nanobiologic therapy suppresses tumor growth and potentiates checkpoint inhibition B Priem, MMT van Leent, AJP Teunissen, AM Sofias, VP Mourits, ... Cell 183 (3), 786-801. e19, 2020 | 102 | 2020 |
| Toward a fine-scale population health monitoring system GM Belbin, S Cullina, S Wenric, ER Soper, BS Glicksberg, D Torre, ... Cell 184 (8), 2068-2083. e11, 2021 | 96 | 2021 |
| KEA3: improved kinase enrichment analysis via data integration MV Kuleshov, Z Xie, ABK London, J Yang, JE Evangelista, A Lachmann, ... Nucleic acids research 49 (W1), W304-W316, 2021 | 72 | 2021 |
| Geneshot: search engine for ranking genes from arbitrary text queries A Lachmann, BM Schilder, ML Wojciechowicz, D Torre, MV Kuleshov, ... Nucleic acids research 47 (W1), W571-W577, 2019 | 64 | 2019 |
| FAIRshake: toolkit to evaluate the FAIRness of research digital resources DJB Clarke, L Wang, A Jones, ML Wojciechowicz, D Torre, KM Jagodnik, ... Cell systems 9 (5), 417-421, 2019 | 48 | 2019 |
| PPARdelta activation induces metabolic and contractile maturation of human pluripotent stem cell-derived cardiomyocytes NM Wickramasinghe, D Sachs, B Shewale, DM Gonzalez, ... Cell Stem Cell 29 (4), 559-576. e7, 2022 | 42 | 2022 |
| Cell-autonomous and cell non-autonomous downregulation of tumor suppressor DAB2IP by microRNA-149-3p promotes aggressiveness of cancer cells A Bellazzo, G Di Minin, E Valentino, D Sicari, D Torre, L Marchionni, ... Cell Death & Differentiation 25 (7), 1224-1238, 2018 | 42 | 2018 |
| Clonally expanded CD8 T cells characterize amyotrophic lateral sclerosis-4 L Campisi, S Chizari, JSY Ho, A Gromova, FJ Arnold, L Mosca, X Mei, ... Nature 606 (7916), 945-952, 2022 | 33 | 2022 |
| Rapid, scalable assessment of SARS-CoV-2 cellular immunity by whole-blood PCR M Schwarz, D Torre, D Lozano-Ojalvo, AT Tan, T Tabaglio, S Mzoughi, ... Nature biotechnology 40 (11), 1680-1689, 2022 | 29 | 2022 |
| Sustainable data and metadata management at the BD2K-LINCS Data Coordination and Integration Center V Stathias, A Koleti, D Vidović, DJ Cooper, KM Jagodnik, R Terryn, ... Scientific data 5 (1), 1-14, 2018 | 28 | 2018 |
| PRDM15 is a key regulator of metabolism critical to sustain B-cell lymphomagenesis S Mzoughi, JY Fong, D Papadopoli, CM Koh, L Hulea, P Pigini, F Di Tullio, ... Nature communications 11 (1), 3520, 2020 | 25 | 2020 |
| Interoperable RNA-Seq analysis in the cloud A Lachmann, DJB Clarke, D Torre, Z Xie, A Ma'ayan Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms 1863 (6), 194521, 2020 | 21 | 2020 |
| FAIRshake: toolkit to evaluate the findability, accessibility, interoperability, and reusability of research digital resources DJB Clarke, L Wang, A Jones, ML Wojciechowicz, D Torre, KM Jagodnik, ... BioRxiv, 657676, 2019 | 14 | 2019 |
| Datasets2Tools, repository and search engine for bioinformatics datasets, tools and canned analyses D Torre, P Krawczuk, KM Jagodnik, A Lachmann, Z Wang, L Wang, ... Scientific data 5 (1), 1-10, 2018 | 14 | 2018 |
