Feixiong Cheng

Publication Activity (10 Years)

Years Active: 2010-2024
Publications (10 Years): 34

Top Topics

Multimodal Data

Computational Methods

Genome Sequencing

Top Venues

PLoS Comput. Biol.

Briefings Bioinform.

J. Chem. Inf. Model.

Publications

Yuxin Yang, Zixu Wang, Pegah Ahadian, Abby Jerger, Jeremy Zucker, Song Feng, Feixiong Cheng, Qiang Guan
A Deep Multimodal Representation Learning Framework for Accurate Molecular Properties Prediction. ACM Great Lakes Symposium on VLSI (2024)
Chang Su, Yu Hou, Jielin Xu, Zhenxing Xu, Manqi Zhou, Alison Ke, Haoyang Li, Jie Xu, Matthew Brendel, Jacqueline R. M. A. Maasch, Zilong Bai, Haotan Zhang, Yingying Zhu, Molly C. Cincotta, Xinghua Shi, Claire Henchcliffe, James B. Leverenz, Jeffrey Cummings, Michael S. Okun, Jiang Bian, Feixiong Cheng, Fei Wang
Identification of Parkinson's disease PACE subtypes and repurposing treatments through integrative analyses of multimodal data. npj Digit. Medicine 7 (1) (2024)
Chang Su, Yu Hou, Jielin Xu, Matthew Brendel, Jacqueline R. M. A. Maasch, Zilong Bai, Yingying Zhu, Claire Henchcliffe, Feixiong Cheng, Fei Wang
Comprehensively modeling heterogeneous symptom progression for Parkinson's disease subtyping. AMIA (2022)
Adrienne S. Kline, Hanyin Wang, Yikuan Li, Saya R. Dennis, Meghan Hutch, Zhenxing Xu, Fei Wang, Feixiong Cheng, Yuan Luo
Multimodal Machine Learning in Precision Health. CoRR (2022)
Adrienne S. Kline, Hanyin Wang, Yikuan Li, Saya R. Dennis, Meghan Hutch, Zhenxing Xu, Fei Wang, Feixiong Cheng, Yuan Luo
Multimodal machine learning in precision health: A scoping review. npj Digit. Medicine 5 (2022)
Xiangxiang Zeng, Hongxin Xiang, Linhui Yu, Jianmin Wang, Kenli Li, Ruth Nussinov, Feixiong Cheng
Accurate prediction of molecular properties and drug targets using a self-supervised image representation learning framework. Nat. Mac. Intell. 4 (11) (2022)
Chirag Gupta, Jielin Xu, Ting Jin, Saniya Khullar, Xiaoyu Liu, Sayali Alatkar, Feixiong Cheng, Daifeng Wang
Single-cell network biology characterizes cell type gene regulation for drug repurposing and phenotype prediction in Alzheimer's disease. PLoS Comput. Biol. 18 (7) (2022)
Xiaoqin Pan, Xuan Lin, Dongsheng Cao, Xiangxiang Zeng, Philip S. Yu, Lifang He, Ruth Nussinov, Feixiong Cheng
Deep learning for drug repurposing: methods, databases, and applications. CoRR (2022)
Jian Tang, Fei Wang, Feixiong Cheng
Artificial Intelligence for Drug Discovery. KDD (2021)
Chuang Liu, Zhen Han, Zi-Ke Zhang, Ruth Nussinov, Feixiong Cheng
A network-based deep learning methodology for stratification of tumor mutations. Bioinform. 37 (1) (2021)
Chuang Liu, Junfei Zhao, Weiqiang Lu, Yao Dai, Jennifer Hockings, Yadi Zhou, Ruth Nussinov, Charis Eng, Feixiong Cheng
Individualized genetic network analysis reveals new therapeutic vulnerabilities in 6, 700 cancer genomes. PLoS Comput. Biol. 16 (2) (2020)
Xiangxiang Zeng, Xiang Song, Tengfei Ma, Xiaoqin Pan, Yadi Zhou, Yuan Hou, Zheng Zhang, George Karypis, Feixiong Cheng
Repurpose Open Data to Discover Therapeutics for COVID-19 using Deep Learning. CoRR (2020)
Huiyuan Chen, Feixiong Cheng, Jing Li
iDrug: Integration of drug repositioning and drug-target prediction via cross-network embedding. PLoS Comput. Biol. 16 (7) (2020)
Xiangxiang Zeng, Siyi Zhu, Yuan Hou, Pengyue Zhang, Lang Li, Jing Li, L. Frank Huang, Stephen J. Lewis, Ruth Nussinov, Feixiong Cheng
Network-based prediction of drug-target interactions using an arbitrary-order proximity embedded deep forest. Bioinform. 36 (9) (2020)
Feixiong Cheng, Weihua Li, Yadi Zhou, Jie Shen, Zengrui Wu, Guixia Liu, Philip W. Lee, Yun Tang
Correction to "admetSAR: A Comprehensive Source and Free Tool for Assessment of Chemical ADMET Properties". J. Chem. Inf. Model. 59 (11) (2019)
Chuipu Cai, Pengfei Guo, Yadi Zhou, Jingwei Zhou, Qi Wang, Fengxue Zhang, Jiansong Fang, Feixiong Cheng
Deep Learning-Based Prediction of Drug-Induced Cardiotoxicity. J. Chem. Inf. Model. 59 (3) (2019)
Xiangxiang Zeng, Siyi Zhu, Xiangrong Liu, Yadi Zhou, Ruth Nussinov, Feixiong Cheng
deepDR: a network-based deep learning approach to in silico drug repositioning. Bioinform. 35 (24) (2019)
Ruth Nussinov, Hyunbum Jang, Chung-Jung Tsai, Feixiong Cheng
Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers. PLoS Comput. Biol. 15 (3) (2019)
Ruth Nussinov, Hyunbum Jang, Chung-Jung Tsai, Feixiong Cheng
Correction: Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers. PLoS Comput. Biol. 15 (6) (2019)
He Peng, Xiangxiang Zeng, Yadi Zhou, Defu Zhang, Ruth Nussinov, Feixiong Cheng
A component overlapping attribute clustering (COAC) algorithm for single-cell RNA sequencing data analysis and potential pathobiological implications. PLoS Comput. Biol. 15 (2) (2019)
Chuipu Cai, Jiansong Fang, Pengfei Guo, Qi Wang, Huixiao Hong, Javid Moslehi, Feixiong Cheng
In Silico Pharmacoepidemiologic Evaluation of Drug-Induced Cardiovascular Complications Using Combined Classifiers. J. Chem. Inf. Model. 58 (5) (2018)
Jiansong Fang, Chuang Liu, Qi Wang, Ping Lin, Feixiong Cheng
In silico polypharmacology of natural products. Briefings Bioinform. 19 (6) (2018)
Feixiong Cheng, Huixiao Hong, Sheng-Yong Yang, Yuquan Wei
Individualized network-based drug repositioning infrastructure for precision oncology in the panomics era. Briefings Bioinform. 18 (4) (2017)
Hongfu Liu, Rui Zhao, Hongsheng Fang, Feixiong Cheng, Yun Fu, Yang-Yu Liu
Entropy-based consensus clustering for patient stratification. Bioinform. 33 (17) (2017)
Zengrui Wu, Feixiong Cheng, Jie Li, Weihua Li, Guixia Liu, Yun Tang
SDTNBI: an integrated network and chemoinformatics tool for systematic prediction of drug-target interactions and drug repositioning. Briefings Bioinform. 18 (2) (2017)
Jiansong Fang, Zengrui Wu, Chuipu Cai, Qi Wang, Yun Tang, Feixiong Cheng
Prediction of Drug-Target Interactions of Natural Products Enables New Targeted Cancer Therapy. J. Chem. Inf. Model. 57 (11) (2017)
Feixiong Cheng, Junfei Zhao, Michaela Fooksa, Zhongming Zhao
A network-based drug repositioning infrastructure for precision cancer medicine through targeting significantly mutated genes in the human cancer genomes. J. Am. Medical Informatics Assoc. 23 (4) (2016)
Pora Kim, Feixiong Cheng, Junfei Zhao, Zhongming Zhao
ccmGDB: a database for cancer cell metabolism genes. Nucleic Acids Res. 44 (Database-Issue) (2016)
Feixiong Cheng, James L. Murray, Junfei Zhao, Jinsong Sheng, Zhongming Zhao, Donald H. Rubin
Systems Biology-Based Investigation of Cellular Antiviral Drug Targets Identified by Gene-Trap Insertional Mutagenesis. PLoS Comput. Biol. 12 (9) (2016)
Wei Jiang, Ramkrishna Mitra, Chen-Ching Lin, Quan Wang, Feixiong Cheng, Zhongming Zhao
Systematic dissection of dysregulated transcription factor-miRNA feed-forward loops across tumor types. Briefings Bioinform. 17 (6) (2016)
Feixiong Cheng, Chuang Liu, Bairong Shen, Zhongming Zhao
Investigating cellular network heterogeneity and modularity in cancer: a network entropy and unbalanced motif approach. BMC Syst. Biol. 10 (S-3) (2016)
Feixiong Cheng, Junfei Zhao, Zhongming Zhao
Advances in computational approaches for prioritizing driver mutations and significantly mutated genes in cancer genomes. Briefings Bioinform. 17 (4) (2016)
Feixiong Cheng, Chuang Liu, Chen-Ching Lin, Junfei Zhao, Peilin Jia, Wen-Hsiung Li, Zhongming Zhao
A Gene Gravity Model for the Evolution of Cancer Genomes: A Study of 3, 000 Cancer Genomes across 9 Cancer Types. PLoS Comput. Biol. 11 (9) (2015)
Junfei Zhao, Feixiong Cheng, Zhongming Zhao
SGDriver: a novel structural genomics-based approach to prioritize cancer related and potentially druggable somatic mutations. BMC Bioinform. 16 (S15) (2015)
Xiao Li, Lei Chen, Feixiong Cheng, Zengrui Wu, Hanping Bian, Congying Xu, Weihua Li, Guixia Liu, Xu Shen, Yun Tang
Prediction of Chemical Acute Oral Toxicity Using Multi-Classification Methods. J. Chem. Inf. Model. 54 (4) (2014)
Feixiong Cheng, Weihua Li, Xichuan Wang, Yadi Zhou, Zengrui Wu, Jie Shen, Yun Tang
Adverse Drug Events: Database Construction and in Silico Prediction. J. Chem. Inf. Model. 53 (4) (2013)
Feixiong Cheng, Weihua Li, Zengrui Wu, Xichuan Wang, Chen Zhang, Jie Li, Guixia Liu, Yun Tang
Prediction of Polypharmacological Profiles of Drugs by the Integration of Chemical, Side Effect, and Therapeutic Space. J. Chem. Inf. Model. 53 (4) (2013)
Feixiong Cheng, Weihua Li, Yadi Zhou, Jie Shen, Zengrui Wu, Guixia Liu, Philip W. Lee, Yun Tang
admetSAR: A Comprehensive Source and Free Tool for Assessment of Chemical ADMET Properties. J. Chem. Inf. Model. 52 (11) (2012)
Feixiong Cheng, Chuang Liu, Jing Jiang, Weiqiang Lu, Weihua Li, Guixia Liu, Wei-Xing Zhou, Jin Huang, Yun Tang
Prediction of Drug-Target Interactions and Drug Repositioning via Network-Based Inference. PLoS Comput. Biol. 8 (5) (2012)
Feixiong Cheng, Yutaka Ikenaga, Yadi Zhou, Yue Yu, Weihua Li, Jie Shen, Zheng Du, Lei Chen, Congying Xu, Guixia Liu, Philip W. Lee, Yun Tang
In Silico Assessment of Chemical Biodegradability. J. Chem. Inf. Model. 52 (3) (2012)
Weihua Li, Jing Fu, Feixiong Cheng, Mingyue Zheng, Jian Zhang, Guixia Liu, Yun Tang
Unbinding Pathways of GW4064 from Human Farnesoid X Receptor As Revealed by Molecular Dynamics Simulations. J. Chem. Inf. Model. 52 (11) (2012)
Congying Xu, Feixiong Cheng, Lei Chen, Zheng Du, Weihua Li, Guixia Liu, Philip W. Lee, Yun Tang
In silico Prediction of Chemical Ames Mutagenicity. J. Chem. Inf. Model. 52 (11) (2012)
Feixiong Cheng, Yue Yu, Yadi Zhou, Zhonghua Shen, Wen Xiao, Guixia Liu, Weihua Li, Philip W. Lee, Yun Tang
Insights into Molecular Basis of Cytochrome P450 Inhibitory Promiscuity of Compounds. J. Chem. Inf. Model. 51 (10) (2011)
Feixiong Cheng, Yue Yu, Jie Shen, Lei Yang, Weihua Li, Guixia Liu, Philip W. Lee, Yun Tang
Classification of Cytochrome P450 Inhibitors and Noninhibitors Using Combined Classifiers. J. Chem. Inf. Model. 51 (5) (2011)
Jie Shen, Feixiong Cheng, You Xu, Weihua Li, Yun Tang
Estimation of ADME Properties with Substructure Pattern Recognition. J. Chem. Inf. Model. 50 (6) (2010)