Scholars

Associate Professor

Positions:

Faculty, Center for Statistical Bioinformatics, College of Science
Associate Professor (affiliated), Electrical and Computer Engineering, College of Engineering
Associate Professor, Veterinary Integrative Biosciences, College of Veterinary Medicine and Biomedical Sciences

Research Areas:

Computational biology, Human genetics, Science--Data processing, Quantum theory, Artificial intelligence, Machine learning--Statistical methods, Bioinformatics, Genomics, Software, Statistics, Genetic transcription, Computers--Scientific applications

UN Sustainable Development Goals:

Single Page Bio

Profile Summary

jcai@tamu.edu

19794585482

Co-author Network

Map of Science

Co-investigator Network

Websites

ORCID

0000-0002-8081-6725

UN Sustainable Development Goals:

Research Areas:

Twitter

Tweets by @jamescai

overview

Dr. Cai's research lies at the interface of single-cell biology, computational statistics, and data science. Current research focuses on using machine learning, network science and dynamical system analysis to better understand the diverse behaviors of cells. Dr. Cai's group develops novel algorithms and analytical frameworks to study single-cell omics data from various types of cells. Dr. Cai also studies the genetic basis of phenotypic variability, identifying genetic variants that control complex traits and determine the susceptibility of genetic disorders.

education and training

Stanford University - (Stanford, California, United States), Postdoctoral Training
Ph.D. in Genomics, University of Hong Kong - (Hong Kong, Hong Kong, China) 2006

selected publications

Academic Articles72

Osorio, D., Zhong, Y., Li, G., Xu, Q., Yang, Y., Tian, Y., ... Cai, J. J. (2022). scTenifoldKnk: An efficient virtual knockout tool for gene function predictions via single-cell gene regulatory network perturbation. Patterns. 100434-100434.
Osorio, D., Kuijjer, M. L., & Cai, J. J. (2021). rPanglaoDB: an R package to download and merge labeled single-cell RNA-seq data from the PanglaoDB database. Bioinformatics.
Fink, D. L., Cai, J., Whelan, M., Monit, C., de Motes, C. M., Towers, G. J., & Sumner, R. P. (2021). HIV-2/SIV Vpx antagonises NF-κB activation by targeting p65. bioRxiv. 2021.06.26.450035.

SDG 3
Osorio, D., & Cai, J. J. (2021). Systematic determination of the mitochondrial proportion in human and mice tissues for single-cell RNA-sequencing data quality control.. Bioinformatics. 37(7), 963-967.
Osorio, D., Kuijjer, M. L., & Cai, J. J. (2021). rPanglaoDB: an R package to download and merge labeled single-cell RNA-seq data from the PanglaoDB database. bioRxiv. 2021.05.28.446161.

SDG 3

Chapters2

Cai, J. J., & Osorio, D. (2021). Single-Cell Gene Regulatory Network Analysis Reveals Potential Mechanisms of Action of Antimalarials Against SARS-CoV-2. ALGORITHMS AND DATA STRUCTURES, PROCEEDINGS. Computational Advances in Bio and Medical Sciences. 88-94. Springer International Publishing.
J., J. (2011). Evolutionary Bioinformatics with a Scientific Computing Environment. Yang, N. S. (Eds.), Systems and Computational Biology - Bioinformatics and Computational Modeling. InTech.

Conference Papers1

Al Kawam, A., Alshawaqfeh, M., Cai, J., Serpedin, E., & Datta, A. (2017). Simulating Variance Heterogeneity in Quantitative Genome Wide Association Studies. Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology,and Health Informatics, BCB '17: 8th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics. 762-763.