| GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics M Zvyagin, A Brace, K Hippe, Y Deng, B Zhang, CO Bohorquez, A Clyde, ... The International Journal of High Performance Computing Applications 37 (6 …, 2023 | 92 | 2023 |
| Recent progress of machine learning in gene therapy C Hunt, S Montgomery, JW Berkenpas, N Sigafoos, JC Oakley, ... Current Gene Therapy 22 (2), 132-143, 2022 | 30 | 2022 |
| Artificial intelligence advances for de novo molecular structure modeling in cryo‐electron microscopy D Si, A Nakamura, R Tang, H Guan, J Hou, A Firozi, R Cao, K Hippe, ... Wiley Interdisciplinary Reviews: Computational Molecular Science 12 (2), e1542, 2022 | 19 | 2022 |
| Computational identification of N4-methylcytosine sites in the mouse genome with machine-learning method H Zulfiqar, RS Khan, F Hassan, K Hippe, C Hunt, H Ding, XM Song, ... Math. Biosci. Eng 18 (4), 3348-3363, 2021 | 16 | 2021 |
| Towards a modular architecture for science factories R Vescovi, T Ginsburg, K Hippe, D Ozgulbas, C Stone, A Stroka, R Butler, ... Digital Discovery 2 (6), 1980-1998, 2023 | 14 | 2023 |
| DeepSpeed4Science Initiative: Enabling Large-Scale Scientific Discovery through Sophisticated AI System Technologies SL Song, B Kruft, M Zhang, C Li, S Chen, C Zhang, M Tanaka, X Wu, ... arXiv preprint arXiv:2310.04610, 2023 | 12 | 2023 |
| ProLanGO2: protein function prediction with ensemble of encoder-decoder networks K Hippe, S Gbenro, R Cao Proceedings of the 11th ACM International Conference on Bioinformatics …, 2020 | 10 | 2020 |
| ZoomQA: residue-level protein model accuracy estimation with machine learning on sequential and 3D structural features K Hippe, C Lilley, J William Berkenpas, C Chandana Pocha, K Kishaba, ... Briefings in bioinformatics 23 (1), bbab384, 2022 | 7 | 2022 |
| GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics. bioRxiv 2022 MT Zvyagin, A Brace, K Hippe, Y Deng, B Zhang, CO Bohorquez, A Clyde, ... Academic Search, 2022 | 5 | 2022 |
| Protein Generation via Genome-scale Language Models with Bio-physical Scoring G Dharuman, L Ward, H Ma, PV Setty, O Gokdemir, S Foreman, M Emani, ... Proceedings of the SC'23 Workshops of The International Conference on High …, 2023 | 4 | 2023 |
| The development of machine learning methods in discriminating secretory proteins of malaria parasite T Liu, J Chen, Q Zhang, K Hippe, C Hunt, T Le, R Cao, H Tang Current Medicinal Chemistry 29 (5), 807-821, 2022 | 3 | 2022 |
| HMMeta: Protein function prediction using hidden markov models S Gbenro, K Hippe, R Cao Proceedings of the 11th ACM international conference on bioinformatics …, 2020 | 2 | 2020 |
| BioNeMo Framework: a modular, high-performance library for AI model development in drug discovery PS John, D Lin, P Binder, M Greaves, V Shah, JS John, A Lange, P Hsu, ... arXiv preprint arXiv:2411.10548, 2024 | 1 | 2024 |
| Zoomqa: Residue-level single-model QA support vector machine utilizing sequential and 3D structural features K Hippe, C Lilley, W Berkenpas, K Kishaba, R Cao bioRxiv, 2021.01. 28.428680, 2021 | 1 | 2021 |
| Synthqa-hierarchical machine learning-based protein quality assessment M Korovnik, K Hippe, J Hou, D Si, K Kishaba, R Cao bioRxiv, 2021.01. 28.428710, 2021 | 1 | 2021 |
| MProt-DPO: Breaking the ExaFLOPS Barrier for Multimodal Protein Design Workflows with Direct Preference Optimization G Dharuman, K Hippe, A Brace, S Foreman, V Hatanpää, VK Sastry, ... SC24: International Conference for High Performance Computing, Networking …, 2024 | | 2024 |
| LSHBloom: Memory-efficient, Extreme-scale Document Deduplication A Khan, R Underwood, C Siebenschuh, Y Babuji, A Ajith, K Hippe, ... arXiv preprint arXiv:2411.04257, 2024 | | 2024 |
| 2023 AI Testbed Expeditions Report V Vishwanath, M Emani, V Sastry, W Arnold, R Thakur, V Taylor, I Foster, ... Argonne National Laboratory (ANL), Argonne, IL (United States). Argonne …, 2023 | | 2023 |
| Exploring Benchmarks for Self-Driving Labs using Color Matching T Ginsburg, K Hippe, R Lewis, A Cleary, D Ozgulbas, R Butler, C Stone, ... Proceedings of the SC'23 Workshops of The International Conference on High …, 2023 | | 2023 |
| AI-enabled multiscale modeling of SARS-CoV-2 replication transcription complex R Arvind, A Trifan, D Ozgulbas, A Brace, K Hippe, A Anandkumar, ... The Journal of Biological Chemistry 299 (3), 103443, 2023 | | 2023 |
