Chen Wang

According to our database, Chen Wang authored at least 35 papers between 2007 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2024

Enabling the clinical application of artificial intelligence in genomics: a perspective of the AMIA Genomics and Translational Bioinformatics Workgroup.

Nephi A. Walton, Radhakrishnan Nagarajan, Chen Wang, Murat Sincan, Robert R. Freimuth, David B. Everman, Derek C. Walton, Scott P. McGrath, Dominick J. Lemas, Panayiotis V. Benos, Alexander V. Alekseyenko, Qianqian Song, Ece D. Gamsiz Uzun, Casey Overby Taylor, Alper Uzun, Thomas N. Person, Nadav Rappoport, Zhongming Zhao, Marc S. Williams

J. Am. Medical Informatics Assoc., January, 2024

2023

Excerno: Using Mutational Signatures in Sequencing Data to Filter False Variants Caused by Clinical Archival.

Audrey Mitchell, Marco Ruiz, Soua Yang, Chen Wang, Jaime I. Dávila

J. Comput. Biol., April, 2023

Batch-effect correction with sample remeasurement in highly confounded case-control studies.

Hanxuan Ye, Xianyang Zhang, Chen Wang, Ellen L. Goode, Jun Chen

Nat. Comput. Sci., 2023

2022

Leveraging a pharmacogenomics knowledgebase to formulate a drug response phenotype terminology for genomic medicine.

Yiqing Zhao, Matthew Brush, Chen Wang, Alex H. Wagner, Hongfang Liu, Robert R. Freimuth

Bioinform., November, 2022

2021

Semi-Supervised Topological Analysis for Elucidating Hidden Structures in High-Dimensional Transcriptome Datasets.

Tianshu Feng, Jaime I. Dávila, Yuanhang Liu, Sangdi Lin, Shuai Huang, Chen Wang

IEEE ACM Trans. Comput. Biol. Bioinform., 2021

Generating real-world evidence from unstructured clinical notes to examine clinical utility of genetic tests: use case in BRCAness.

Yiqing Zhao, Saravut J. Weroha, Ellen L. Goode, Hongfang Liu, Chen Wang

BMC Medical Informatics Decis. Mak., 2021

Modeling cancer clinical trials using HL7 FHIR to support downstream applications: A case study with colorectal cancer data.

Nansu Zong, Daniel J. Stone, Deepak K. Sharma, Andrew Wen, Chen Wang, Yue Yu, Ming Huang, Sijia Liu, Hongfang Liu, Qian Shi, Guoqian Jiang

Int. J. Medical Informatics, 2021

Leveraging a Joint of Phenotypic and Genetic Features on Cancer Patient Subgrouping.

David Oniani, Chen Wang, Yiqing Zhao, Andrew Wen, Hongfang Liu, Feichen Shen

CoRR, 2021

Comparisons of Graph Neural Networks on Cancer Classification Leveraging a Joint of Phenotypic and Genetic Features.

David Oniani, Chen Wang, Yiqing Zhao, Andrew Wen, Hongfang Liu, Feichen Shen

CoRR, 2021

POKR: Building a Computable Heterogeneous Knowledge Resource for Precision Oncology.

Yanbo Guo, Chen Wang, Raymond M. Moore, Hongfang Liu, Feichen Shen

Proceedings of the MEDINFO 2021: One World, One Health - Global Partnership for Digital Innovation, 2021

Excerno: Filtering Mutations Caused by the Clinical Archival Process in Sequencing Data.

Audrey Mitchell, Marco Ruiz, Soua Yang, Chen Wang, Jaime I. Dávila

Proceedings of the Computational Advances in Bio and Medical Sciences: 11th International Conference, 2021

2020

Coverage Profile Correction of Shallow-Depth Circulating Cell-Free DNA Sequencing via Multi-Distance Learning.

Nicholas B. Larson, Melissa C. Larson, Jie Na, Carlos P. Sosa, Chen Wang, Jean-Pierre A. Kocher, Ross A. Rowsey

Proceedings of the Pacific Symposium on Biocomputing 2020, 2020

Extracting Patient Genetic Information from Unstructured Clinical Notes.

Yiqing Zhao, Hanzhong Yu, Luke A. Carlson, Feichen Shen, Sunyang Fu, Hongfang Liu, Chen Wang

Proceedings of the AMIA 2020, 2020

2018

Improving Single-Nucleotide Polymorphism-Based Fetal Fraction Estimation of Maternal Plasma Circulating Cell-Free DNA Using Bayesian Hierarchical Models.

Nicholas B. Larson, Chen Wang, Jie Na, Ross A. Rowsey, William Edward Highsmith, Nicole L. Hoppman, Jean-Pierre A. Kocher, Eric W. Klee

J. Comput. Biol., 2018

Detection and visualization of complex structural variants from long reads.

Zachary Stephens, Chen Wang, Ravishankar K. Iyer, Jean-Pierre A. Kocher

BMC Bioinform., 2018

Building a Research-Quality Copy Number Variation Data Repository for Translational Research.

Chen Wang, Raymond M. Moore, Jared Evans, Xiao-Nan Hou, S. John Weroha, Guoqian Jiang

Proceedings of the Heterogeneous Data Management, Polystores, and Analytics for Healthcare, 2018

2017

Unraveling complex local genomic rearrangements from long-read data.

Zachary D. Stephens, Ravishankar K. Iyer, Chen Wang, Jean-Pierre A. Kocher

Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

2016

Building an i2b2-Based Integrated Data Repository for Cancer Research: A Case Study of Ovarian Cancer Registry.

Na Hong, Zheng Li, Richard C. Kiefer, Melissa S. Robertson, Ellen L. Goode, Chen Wang, Guoqian Jiang

Proceedings of the Data Management and Analytics for Medicine and Healthcare, 2016

2014

PatternCNV: a versatile tool for detecting copy number changes from exome sequencing data.

Chen Wang, Jared Evans, Aditya Bhagwate, Naresh Prodduturi, Vivekananda Sarangi, Mridu Middha, Hugues Sicotte, Peter T. Vedell, Steven N. Hart, Gavin R. Oliver, Jean-Pierre A. Kocher, Matthew J. Maurer, Anne J. Novak, Susan L. Slager, James R. Cerhan, Yan W. Asmann

Bioinform., 2014

RVboost: RNA-seq variants prioritization using a boosting method.

Chen Wang, Jaime I. Dávila, Saurabh Baheti, Aditya Bhagwate, Xue Wang, Jean-Pierre A. Kocher, Susan L. Slager, Andrew L. Feldman, Anne J. Novak, James R. Cerhan, E. Aubrey Thompson, Yan W. Asmann

Bioinform., 2014

2013

Reconstruction of Transcriptional Regulatory Networks by Stability-Based Network Component Analysis.

Xi Chen, Jianhua Xuan, Chen Wang, Ayesha N. Shajahan, Rebecca B. Riggins, Robert Clarke

IEEE ACM Trans. Comput. Biol. Bioinform., 2013

2012

Regulatory component analysis: A semi-blind extraction approach to infer gene regulatory networks with imperfect biological knowledge.

Chen Wang, Jianhua Xuan, Ie-Ming Shih, Robert Clarke, Yue Joseph Wang

Signal Process., 2012

Reconstruction of Transcription Regulatory Networks by Stability-Based Network Component Analysis.

Xi Chen, Chen Wang, Ayesha N. Shajahan, Rebecca B. Riggins, Robert Clarke, Jianhua Xuan

Proceedings of the Bioinformatics Research and Applications - 8th International Symposium, 2012

Detecting aberrant signal transduction pathways from high-throughput data using GIST algorithm.

Jinghua Gu, Jianhua Xuan, Chen Wang, Li Chen, Tian-Li Wang, Ie-Ming Shih

Proceedings of the 2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2012

2011

GIST: A Gibbs sampler to identify intracellular signal transduction pathways.

Jinghua Gu, Chen Wang, Ie-Ming Shih, Tian-Li Wang, Yue Wang, Robert Clarke, Jianhua Xuan

Proceedings of the 33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2011

2010

Knowledge-guided gene ranking by coordinative component analysis.

Chen Wang, Jianhua Xuan, Huai Li, Yue Joseph Wang, Ming Zhan, Eric P. Hoffman, Robert Clarke

BMC Bioinform., 2010

Computational Analysis of Muscular Dystrophy Sub-types Using a Novel Integrative Scheme.

Chen Wang, Sook Shin Ha, Yue Joseph Wang, Jianhua Xuan, Eric P. Hoffman

Proceedings of the Ninth International Conference on Machine Learning and Applications, 2010

2009

Biomarker identification by knowledge-driven multilevel ICA and motif analysis.

Li Chen, Jianhua Xuan, Chen Wang, Yue Joseph Wang, Ie-Ming Shih, Tian-Li Wang, Zhen Zhang, Robert Clarke, Eric P. Hoffman

Int. J. Data Min. Bioinform., 2009

2008

Motif-directed network component analysis for regulatory network inference.

Chen Wang, Jianhua Xuan, Li Chen, Po Zhao, Yue Joseph Wang, Robert Clarke, Eric P. Hoffman

BMC Bioinform., 2008

Knowledge-guided multi-scale independent component analysis for biomarker identification.

Li Chen, Jianhua Xuan, Chen Wang, Ie-Ming Shih, Yue Joseph Wang, Zhen Zhang, Eric P. Hoffman, Robert Clarke

BMC Bioinform., 2008

Integrative Network Component Analysis for Regulatory Network Reconstruction.

Chen Wang, Jianhua Xuan, Li Chen, Po Zhao, Yue Joseph Wang, Robert Clarke, Eric P. Hoffman

Proceedings of the Bioinformatics Research and Applications, 2008

Inferring Condition-Specific miRNA-Gene Modules from miRNA and mRNA Profiling Data.

Jianghui Xiong, Chen Wang, Bai Zhang, Yue Joseph Wang, Eric P. Hoffman, Robert Clarke, Jianhua Xuan

Proceedings of the International Conference on Bioinformatics, 2008

Reliability Analysis of Transcriptional Regulatory Networks.

Chen Wang, Jianhua Xuan, Li Chen, Eric P. Hoffman, Robert Clarke

Proceedings of the International Conference on Bioinformatics, 2008

2007

Biomarker Identification by Knowledge-Driven Multi-Level ICA and Motif Analysis.

Li Chen, Chen Wang, Ie-Ming Shih, Tian-Li Wang, Zhen Zhang, Yue Joseph Wang, Robert Clarke, Eric P. Hoffman, Jianhua Xuan

Proceedings of the Sixth International Conference on Machine Learning and Applications, 2007

Stability-Based Dimension Estimation of ICA with Application to Microarray Data Analysis.

Chen Wang, Jianhua Xuan, Ting Gong, Robert Clarke, Eric P. Hoffman, Yue Joseph Wang

Proceedings of the International Conference on Bioinformatics & Computational Biology, 2007