| modEnrichr: a suite of gene set enrichment analysis tools for model organisms MV Kuleshov, JEL Diaz, ZN Flamholz, AB Keenan, A Lachmann, ... Nucleic acids research 47 (W1), W183-W190, 2019 | 73 | 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 | 61 | 2019 |
| Large language models improve annotation of prokaryotic viral proteins ZN Flamholz, SJ Biller, L Kelly Nature Microbiology 9 (2), 537-549, 2024 | 29 | 2024 |
| Word embeddings trained on published case reports are lightweight, effective for clinical tasks, and free of protected health information ZN Flamholz, A Crane-Droesch, LH Ungar, GE Weissman Journal of biomedical informatics 125, 103971, 2022 | 15 | 2022 |
| H/ACA snRNP–dependent ribosome biogenesis regulates translation of polyglutamine proteins SM Breznak, Y Peng, L Deng, NM Kotb, Z Flamholz, IT Rapisarda, ... Science Advances 9 (25), eade5492, 2023 | 6 | 2023 |
| Improving viral annotation with artificial intelligence ZN Flamholz, C Li, L Kelly Mbio 15 (10), e03206-23, 2024 | | 2024 |
| Towards the Utilization of Uncultivated Bacteriophages for Translational Applications in Human Health and Disease ZN Flamholz Albert Einstein College of Medicine, 2024 | | 2024 |
| Content Summaries of Best Papers for the Natural Lan-guage Processing Section of the 2022 IMIA Yearbook ZN Flamholz, A Crane-Droesch, LH Ungar, GE Weissman J Biomed Inform 125, 103971, 2022 | | 2022 |
| Halting on Transcripts: Analysis of Post-Initiation Translational Regulation by Ribosome Profiling Z Flamholz | | 2018 |
