CM4AI Publications

  1. Le T, Winsnes CF, Axelsson U, et al. (2022) Analysis of the Human Protein Atlas Weakly Supervised Single-Cell Classification competition. Nat Methods 19, 1221–1229. https://doi.org/10.1038/s41592-022-01606-z
  2. Victor, G., Bélisle-Pipon, J. C., & Ravitsky, V. (2023). Generative AI, Specific Moral Values: A Closer Look at ChatGPT’s New Ethical Implications for Medical AI. The American Journal of Bioethics, 23(10), 65–68. https://doi.org/10.1080/15265161.2023.2250311
  3. Hu M, Alkhairy S, Lee I, Pillich RT, Fong D, Smith K, Bachelder R, Ideker T, Pratt D. (2024) Evaluation of large language models for discovery of gene set function. ArXiv [Preprint]. arXiv:2309.04019v2. PMID: 37731657; PMCID: PMC10508824. https://pubmed.ncbi.nlm.nih.gov/37731657/
  4. Cesnik A, Schaffer LV, Gaur I, Jain M, Ideker T, Lundberg E. (2024). Mapping multiscale proteomic organization of cellular and disease phenotypes. Annu Rev Biomed Data Sci, 15(42): 369-389. https://doi.org/10.1146/annurev-biodatasci-102423-113534
  5. Clark T, Mohan J, Schaffer L, Obernier K, Al Manir S, Churas CP, Dailamy A, Doctor Y, Forget A, Hansen JN, Hu M, Lenkiewicz J, Levinson MA, Marquez C, Nourreddine S, Niestroy J, Pratt D, Qian G, Thaker S, Bélisle-Pipon JC, Brandt C, Chen J, Ding Y, Fodeh S, Krogan N, Lundberg E, Mali P, Payne-Foster P, Ratcliffe S, Ravitsky V, Sali A, Schulz W, Ideker T (2024). Cell Maps for Artificial Intelligence: AI-Ready Maps of Human Cell Architecture from Disease-Relevant Cell Lines. bioRxiv 2024.05.21.589311; https://doi.org/10.1101/2024.05.21.589311
  6. Hsu CY, Cox K, Xu J, Tan Z, Zhai T, Hu M, Pratt D, Chen T, Hu Z, Ding Y. Thought Graph: Generating Thought Process for Biological Reasoning. In Companion Proceedings of the ACM on Web Conference 2024, 2024 May 13 (pp. 537-540). https://dl.acm.org/doi/pdf/10.1145/3589335.3651572