Edelman, E, H Kim, Skolnick J. 2025. Trajectories matter: Discovery and validation of ordered EHR sequences that inform clinical risk predictions. medRxiv 2025.09.14.25335720; doi: https://doi.org/10.1101/2025.09.14.25335720. PDF
Zhao, H, Velez C, Naravane A, Saha A, Feldman J, Skolnick J, Murray D, Honig B. 2025. Combining structural modeling and deep learning to calculate the E. coli protein interactome and functional networks. bioRxiv 2025.05.07.652715; doi: https://doi.org/10.1101/2025.05.07.652715. PDF
Zhou, H, Edelman B, Skolnick J. 2025. MENDELSEEK: An algorithm that predicts Mendelian Genes and elucidates what makes them special. bioRxiv 2025.04.06.647432; doi: https://doi.org/10.1101/2025.04.06.647432. PDF
Feldman, J, Skolnick J. 2025. AF3Complex Yields Improved Structural Predictions of Protein Complexes. bioRxiv 2025.02.27.640585; doi: https://doi.org/10.1101/2025.02.27.640585. PDF
Ban, D, Housley S N, Matyunina L V, McDonald L D, Bae-Jump V L, Benigno B, Skolnick J, McDonald J F. 2023. A Personalized Probabilistic Approach to Ovarian Cancer Diagnostics. medRxiv 2023.11.24.23298971; doi: https://doi.org/10.1101/2023.11.24.23298971. PDF
Gao, M, Nakajima An D, Skolnick J. 2022. Deep learning-driven insights into super protein complexes for outer membrane protein biogenesis in bacteria. bioRxiv 2022.08.25.505253; doi: https://doi.org/10.1101/2022.08.25.505253. PDF
Guo, Z, Liu J, Skolnick J, Cheng J. 2022. Prediction of inter-chain distance maps of protein complexes with 2D attention-based deep neural networks.
Gao, M, Nakajima An D, Parks J M, Skolnick J. 2021. Predicting direct physical interactions in multimeric proteins with deep learning. bioRxiv 2021.11.09.467949; doi: https://doi.org/10.1101/2021.11.09.467949. PDF
Astore, C, Zhou H, Skolnick J. 2021. LeMeDISCO: A computational method for large-scale prediction & molecular interpretation of disease comorbidity. medRxiv 2021.06.28.21259559; doi: https://doi.org/10.1101/2021.06.28.21259559 PDF
Gao, M, Skolnick, J. 2021. A general framework to learn tertiary structure for protein sequence annotation. bioRxiv 2021.04.01.438098; doi: https://doi.org/10.1101/2021.04.01.438098. PDF
Astore, C, Zhou H, Jacob J, Skolnick J. 2021. MOATAI-VIR – an AI algorithm that predicts severe adverse events and molecular features for COVID-19’s complications. medRxiv 2021.01.29.21250712; doi: https://doi.org/10.1101/2021.01.29.21250712. PDF
Yamashita, D, Botta D, Cho HJ, Guo X, Ozaki S, Flanary V L, Sirota I, Gao M, Yamaguchi S, Nakano M A, Zhou F, Zhou H, Kondo T, Kunieda T, Crossman D K, Kornblum H I, Gorospe M, Nam D, Zamboni N, Skolnick J, Gu Z, Lund F E, Nakano I. 2020. Spatial heterogeneity of glioblastoma cells reveals sensitivity to NAD+ depletion at tumor edge. bioRxiv 2020.11.26.399725; doi: https://doi.org/10.1101/2020.11.26.399725. PDF