| Inferring causal molecular networks: empirical assessment through a community-based effort SM Hill, LM Heiser, T Cokelaer, M Unger, NK Nesser, DE Carlin, Y Zhang, ... Nature methods 13 (4), 310-318, 2016 | 237 | 2016 |
| Precision oncology beyond targeted therapy: combining omics data with machine learning matches the majority of cancer cells to effective therapeutics MQ Ding, L Chen, GF Cooper, JD Young, X Lu Molecular cancer research 16 (2), 269-278, 2018 | 160 | 2018 |
| Learning a hierarchical representation of the yeast transcriptomic machinery using an autoencoder model L Chen, C Cai, V Chen, X Lu BMC bioinformatics 17, 97-107, 2016 | 107 | 2016 |
| Distinct signaling roles of ceramide species in yeast revealed through systematic perturbation and systems biology analyses DJ Montefusco, L Chen, N Matmati, S Lu, B Newcomb, GF Cooper, ... Sci. Signal. 6 (299), rs14-rs14, 2013 | 40 | 2013 |
| Trans-species learning of cellular signaling systems with bimodal deep belief networks L Chen, C Cai, V Chen, X Lu Bioinformatics 31 (18), 3008-3015, 2015 | 39 | 2015 |
| Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference C Cai, GF Cooper, KN Lu, X Ma, S Xu, Z Zhao, X Chen, Y Xue, AV Lee, ... PLoS computational biology 15 (7), e1007088, 2019 | 38 | 2019 |
| Interferon β drives intestinal regeneration after radiation BJ Leibowitz, G Zhao, L Wei, H Ruan, M Epperly, L Chen, X Lu, ... Science Advances 7 (41), eabi5253, 2021 | 24 | 2021 |
| eIF4E S209 phosphorylation licenses myc-and stress-driven oncogenesis H Ruan, X Li, X Xu, BJ Leibowitz, J Tong, L Chen, L Ao, W Xing, J Luo, ... Elife 9, e60151, 2020 | 22 | 2020 |
| Modeling signal transduction from protein phosphorylation to gene expression C Cai, L Chen, X Jiang, X Lu Cancer Informatics 13, CIN. S13883, 2014 | 8 | 2014 |
| An individualized causal framework for learning intercellular communication networks that define microenvironments of individual tumors X Chen, L Chen, CHL Kürten, F Jabbari, L Vujanovic, Y Ding, B Lu, K Lu, ... PLOS Computational Biology 18 (12), e1010761, 2022 | 5 | 2022 |
| Targeting Myc-driven stress vulnerability in mutant KRAS colorectal cancer H Ruan, BJ Leibowitz, Y Peng, L Shen, L Chen, C Kuang, RE Schoen, ... Molecular Biomedicine 3 (1), 10, 2022 | 5 | 2022 |
| A novel method of using Deep Belief Networks and genetic perturbation data to search for yeast signaling pathways S Lu, X Fan, L Chen, X Lu Plos one 13 (9), e0203871, 2018 | 5 | 2018 |
| Making deep learning models transparent L Chen, X Lu J Med Artif Intell 1 (5), 2018 | 5 | 2018 |
| Amphiregulin couples IL1RL1+ regulatory T cells and cancer-associated fibroblasts to impede antitumor immunity R Sun, H Zhao, DS Gao, A Ni, H Li, L Chen, X Lu, K Chen, B Lu Science Advances 9 (34), eadd7399, 2023 | 4 | 2023 |
| Discovering functional impacts of miRNAs in cancers using a causal deep learning model L Chen, X Lu BMC medical genomics 11, 53-63, 2018 | 3 | 2018 |
| Signal-oriented pathway analyses reveal a signaling complex as a synthetic lethal target for p53 mutations S Lu, C Cai, G Yan, Z Zhou, Y Wan, V Chen, L Chen, GF Cooper, ... Cancer research 76 (23), 6785-6794, 2016 | 3 | 2016 |
| Mapping annotations with textual evidence using an scLDA model B Jin, V Chen, L Chen, X Lu AMIA Annual Symposium Proceedings 2011, 834, 2011 | 3 | 2011 |
| Machine Learning Predicts Oxaliplatin Benefit in Early Colon Cancer L Chen, Y Wang, C Cai, Y Ding, RS Kim, C Lipchik, PG Gavin, G Yothers, ... Journal of Clinical Oncology, JCO. 23.01080, 2024 | 1 | 2024 |
| Deep Learning Models for modeling cellular transcription systems L Chen University of Pittsburgh, 2017 | 1 | 2017 |
| Identification of survival-associated epithelial cell markers linked to TROP2 through single-cell and bulk sequencing analysis NN Al-Bzour, AN Al-Bzour, A Saeed, L Chen, A Saeed Cancer Research 84 (6_Supplement), 866-866, 2024 | | 2024 |
