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A foundation model for clinician-centered drug repurposing.
Huang K, Chandak P, Wang Q, Havaldar S, Vaid A, Leskovec J, Nadkarni G, Glicksberg BS, Gehlenborg N, Zitnik M. Huang K, et al. Among authors: zitnik m. medRxiv [Preprint]. 2024 Aug 7:2023.03.19.23287458. doi: 10.1101/2023.03.19.23287458. medRxiv. 2024. PMID: 39148855 Free PMC article. Preprint.
Current and future directions in network biology.
Zitnik M, Li MM, Wells A, Glass K, Morselli Gysi D, Krishnan A, Murali TM, Radivojac P, Roy S, Baudot A, Bozdag S, Chen DZ, Cowen L, Devkota K, Gitter A, Gosline SJC, Gu P, Guzzi PH, Huang H, Jiang M, Kesimoglu ZN, Koyuturk M, Ma J, Pico AR, Pržulj N, Przytycka TM, Raphael BJ, Ritz A, Sharan R, Shen Y, Singh M, Slonim DK, Tong H, Yang XH, Yoon BJ, Yu H, Milenković T. Zitnik M, et al. Bioinform Adv. 2024 Aug 14;4(1):vbae099. doi: 10.1093/bioadv/vbae099. eCollection 2024. Bioinform Adv. 2024. PMID: 39143982 Free PMC article.
Contextual AI models for single-cell protein biology.
Li MM, Huang Y, Sumathipala M, Liang MQ, Valdeolivas A, Ananthakrishnan AN, Liao K, Marbach D, Zitnik M. Li MM, et al. Among authors: zitnik m. Nat Methods. 2024 Aug;21(8):1546-1557. doi: 10.1038/s41592-024-02341-3. Epub 2024 Jul 22. Nat Methods. 2024. PMID: 39039335 Free PMC article.
TDC-2: Multimodal Foundation for Therapeutic Science.
Velez-Arce A, Huang K, Li MM, Lin X, Gao W, Fu T, Kellis M, Pentelute BL, Zitnik M. Velez-Arce A, et al. Among authors: zitnik m. bioRxiv [Preprint]. 2024 Jun 21:2024.06.12.598655. doi: 10.1101/2024.06.12.598655. bioRxiv. 2024. PMID: 38948789 Free PMC article. Preprint.
On knowing a gene: A distributional hypothesis of gene function.
Kwon JJ, Pan J, Gonzalez G, Hahn WC, Zitnik M. Kwon JJ, et al. Among authors: zitnik m. Cell Syst. 2024 Jun 19;15(6):488-496. doi: 10.1016/j.cels.2024.04.008. Epub 2024 May 28. Cell Syst. 2024. PMID: 38810640 Free article. Review.
Graph Artificial Intelligence in Medicine.
Johnson R, Li MM, Noori A, Queen O, Zitnik M. Johnson R, et al. Among authors: zitnik m. Annu Rev Biomed Data Sci. 2024 Aug;7(1):345-368. doi: 10.1146/annurev-biodatasci-110723-024625. Epub 2024 Jul 24. Annu Rev Biomed Data Sci. 2024. PMID: 38749465 Free PMC article. Review.
Efficient Generation of Protein Pockets with PocketGen.
Zhang Z, Shen W, Liu Q, Zitnik M. Zhang Z, et al. Among authors: zitnik m. bioRxiv [Preprint]. 2024 Sep 23:2024.02.25.581968. doi: 10.1101/2024.02.25.581968. bioRxiv. 2024. PMID: 38464121 Free PMC article. Preprint.
111 results