Trans-species learning of cellular signaling systems with bimodal deep belief networks. - Lujia Chen 001; Chunhui Cai; Vicky Chen; Xinghua Lu 001 (Bioinform., 2015)

Learning a hierarchical representation of the yeast transcriptomic machinery using an autoencoder model. - Lujia Chen 001; Chunhui Cai; Vicky Chen; Xinghua Lu 001 (BMC Bioinform., 2016)

Revealing common disease mechanisms shared by tumors of different tissues of origin through semantic representation of genomic alterations and topic modeling. - Vicky Chen; John W. Paisley; Xinghua Lu (BMC Genom., 2017)

Integrating data and knowledge to identify functional modules of genes: a multilayer approach. - Lifan Liang; Vicky Chen; Kunju Zhu; Xiaonan Fan 001; Xinghua Lu 001; Songjian Lu (BMC Bioinform., 2019)

Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference. - Chunhui Cai; Gregory F. Cooper; Kevin N. Lu; Xiaojun Ma; Shuping Xu; Zhenlong Zhao; Xueer Chen; Yifan Xue; Adrian V. Lee; Nathan Clark; Vicky Chen; Songjian Lu; et al. (PLoS Comput. Biol., 2019)

Enhancing Multilingual Language Models for Code-Switched Input Data. - Katherine Xie; Nitya Babbar; Vicky Chen; Yoanna Turura (CoRR, 2025)