| 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 | 217 | 2016 |
| Learning a hierarchical representation of the yeast transcriptomic machinery using an autoencoder model L Chen, C Cai, V Chen, X Lu BMC bioinformatics 17 (1), 97-107, 2016 | 90 | 2016 |
| Unsupervised deep learning reveals prognostically relevant subtypes of glioblastoma JD Young, C Cai, X Lu BMC bioinformatics 18 (11), 5-17, 2017 | 52 | 2017 |
| Chitinase-3-like 1 protein complexes modulate macrophage-mediated immune suppression in glioblastoma A Chen, Y Jiang, Z Li, L Wu, U Santiago, H Zou, C Cai, V Sharma, Y Guan, ... The Journal of clinical investigation 131 (16), 2021 | 38 | 2021 |
| 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 | 36 | 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 | 29 | 2019 |
| From genome to phenome: Predicting multiple cancer phenotypes based on somatic genomic alterations via the genomic impact transformer Y Tao, C Cai, WW Cohen, X Lu PACIFIC SYMPOSIUM ON BIOCOMPUTING 2020, 79-90, 2019 | 19 | 2019 |
| Tumor-specific causal inference (tci): A bayesian method for identifying causative genome alterations within individual tumors G Cooper, C Cai, X Lu bioRxiv, 225631, 2017 | 12 | 2017 |
| Modeling signal transduction from protein phosphorylation to gene expression C Cai, L Chen, X Jiang, X Lu Cancer Informatics 13, CIN. S13883, 2014 | 6 | 2014 |
| Signal-Oriented Pathway Analyses Reveal a Signaling Complex as a Synthetic Lethal Target for p53 MutationsSynthetic Lethal Targets for Treating 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 |
| Tumour-specific causal inference discovers distinct disease mechanisms underlying cancer subtypes Y Xue, G Cooper, C Cai, S Lu, B Hu, X Ma, X Lu Scientific reports 9 (1), 1-13, 2019 | 2 | 2019 |
| FAK loss reduces BRAFV600E-induced ERK phosphorylation to promote intestinal stemness and cecal tumor formation C Gao, H Ge, SF Kuan, C Cai, X Lu, F Esni, R Schoen, J Wang, E Chu, ... | | 2023 |
| A Novel Bayesian Framework Infers Driver Activation States and Reveals Pathway-Oriented Molecular Subtypes in Head and Neck Cancer Z Liu, C Cai, X Ma, J Liu, L Chen, VWY Lui, GF Cooper, X Lu Cancers 14 (19), 4825, 2022 | | 2022 |
| An individualized Bayesian method for estimating genomic variants of hypertension MA Rahman, C Cai, DM McNamara, Y Ding, GF Cooper, X Lu, J Liu medRxiv, 2022.06. 25.22276897, 2022 | | 2022 |
| Identification of instance-specific somatic genome alterations with functional impact X Lu, G Cooper, C Cai, S Visweswaran US Patent App. 16/349,192, 2019 | | 2019 |
| Trans-species learning of cellular signaling with bimodal deep belief networks L Chen, C Cai, V Chen, X Lu | | |
| Breast Cancer Challenge: Team “PittTransMed” places second for Metabric phase of the Challenge S Lu, C Cai, HU Osmanbeyoglu, L Chen, R Day, G Cooper, X Lu | | |
