| Genomic and molecular landscape of DNA damage repair deficiency across the cancer genome atlas TA Knijnenburg, L Wang, MT Zimmermann, N Chambwe, GF Gao, ... Cell reports 23 (1), 239-254. e6, 2018 | 906 | 2018 |
| DeepAffinity: interpretable deep learning of compound–protein affinity through unified recurrent and convolutional neural networks M Karimi, D Wu, Z Wang, Y Shen Bioinformatics 35 (18), 3329-3338, 2019 | 399 | 2019 |
| Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen MP Menden, D Wang, MJ Mason, B Szalai, KC Bulusu, Y Guan, T Yu, ... Nature communications 10 (1), 2674, 2019 | 297 | 2019 |
| The SERM/SERD bazedoxifene disrupts ESR1 helix 12 to overcome acquired hormone resistance in breast cancer cells SW Fanning, R Jeselsohn, V Dharmarajan, CG Mayne, M Karimi, ... Elife 7, e37161, 2018 | 89 | 2018 |
| De novo protein design for novel folds using guided conditional Wasserstein generative adversarial networks M Karimi, S Zhu, Y Cao, Y Shen Journal of Chemical Information and Modeling 60 (12), 5667–5681, 2020 | 82 | 2020 |
| Engineering a HER2-specific antibody–drug conjugate to increase lysosomal delivery and therapeutic efficacy JC Kang, W Sun, P Khare, M Karimi, X Wang, Y Shen, RJ Ober, ES Ward Nature biotechnology 37 (5), 523-526, 2019 | 72 | 2019 |
| Crowdsourced mapping of unexplored target space of kinase inhibitors A Cichońska, B Ravikumar, RJ Allaway, F Wan, S Park, O Isayev, S Li, ... Nature communications 12 (1), 3307, 2021 | 63 | 2021 |
| Multihypothesis compressed video sensing technique M Azghani, M Karimi, F Marvasti IEEE Transactions on Circuits and Systems for Video Technology 26 (4), 627-635, 2015 | 47 | 2015 |
| Explainable Deep Relational Networks for Predicting Compound–Protein Affinities and Contacts M Karimi, D Wu, Z Wang, Y Shen Journal of Chemical Information and Modeling 61 (1), 46–66, 2020 | 45 | 2020 |
| Network-principled deep generative models for designing drug combinations as graph sets M Karimi, A Hasanzadeh, Y Shen Bioinformatics 36 (Supplement_1), i445-i454, 2020 | 30 | 2020 |
| Evaluating the predictions of the protein stability change upon single amino acid substitutions for the FXN CAGI5 challenge C Savojardo, M Petrosino, G Babbi, S Bovo, C Corbi‐Verge, R Casadio, ... Human mutation 40 (9), 1392-1399, 2019 | 19 | 2019 |
| iCFN: an efficient exact algorithm for multistate protein design M Karimi, Y Shen Bioinformatics 34 (17), i811-i820, 2018 | 16 | 2018 |
| CAGI, the Critical Assessment of Genome Interpretation, establishes progress and prospects for computational genetic variant interpretation methods Genome Biology 25 (1), 53, 2024 | 10* | 2024 |
| Predicting pathogenicity of missense variants with weakly supervised regression Y Cao, Y Sun, M Karimi, H Chen, O Moronfoye, Y Shen Human mutation 40 (9), 1579-1592, 2019 | 10 | 2019 |
| Illegible text to readable text: An image-to-image transformation using conditional sliced wasserstein adversarial networks M Karimi, G Veni, YY Yu Proceedings of the IEEE/CVF conference on computer vision and pattern …, 2020 | 7 | 2020 |
| Deploying self-supervised learning in the wild for hybrid automatic speech recognition M Karimi, C Liu, K Kumatani, Y Qian, T Wu, J Wu arXiv preprint arXiv:2205.08598, 2022 | 5 | 2022 |
| Somatic estrogen receptor α mutations that induce dimerization promote receptor activity and breast cancer proliferation S Irani, W Tan, Q Li, W Toy, C Jones, M Gadiya, A Marra, ... The Journal of Clinical Investigation 134 (1), 2024 | 3 | 2024 |
| Directionally dependent multi-view clustering using copula model K Afrin, AS Iquebal, M Karimi, A Souris, SY Lee, BK Mallick PloS one 15 (10), e0238996, 2020 | 1 | 2020 |
| Adversarial network for transforming handwritten text M Karimi, G Veni, YY Yu US Patent 11,551,034, 2023 | | 2023 |
| Processes, machines, and articles of manufacture related to machine learning for predicting bioactivity of compounds H Hei TAM, V SHIVASHANKAR, N SANDERS, T LANE, D KOLESKY, ... WO Patent App. 2022240751A1, 2022 | | 2022 |
Yang ShenAssociate Professor, ECE + CSE @ Texas A&M UniversityVerified email at tamu.edu
