James J. Cai

Publication Activity (10 Years)

Years Active: 2005-2023
Publications (10 Years): 11

Top Topics

Machine Learning

Regulatory Networks

Gene Regulatory

Top Venues

Publications

Yongjian Yang, Yu-Te Lin, Guanxun Li, Yan Zhong, Qian Xu, James J. Cai
Interpretable modeling of time-resolved single-cell gene-protein expression with CrossmodalNet. Briefings Bioinform. 24 (6) (2023)
Daniel Osorio, Marieke L. Kuijjer, James J. Cai
rPanglaoDB: an R package to download and merge labeled single-cell RNA-seq data from the PanglaoDB database. Bioinform. 38 (2) (2022)
Cristhian Roman-Vicharra, James J. Cai
Quantum gene regulatory networks. CoRR (2022)
Daniel Osório, Yan Zhong, Guanxun Li, Qian Xu, Yongjian Yang, Yanan Tian, Robert S. Chapkin, Jianhua Z. Huang, James J. Cai
scTenifoldKnk: An efficient virtual knockout tool for gene function predictions via single-cell gene regulatory network perturbation. Patterns 3 (3) (2022)
Daniel Osorio, James J. Cai
Systematic determination of the mitochondrial proportion in human and mice tissues for single-cell RNA-sequencing data quality control. Bioinform. 37 (7) (2021)
James J. Cai
scGEAToolbox: a Matlab toolbox for single-cell RNA sequencing data analysis. Bioinform. 36 (6) (2020)
Daniel Osorio, Yan Zhong, Guanxun Li, Jianhua Z. Huang, James J. Cai
scTenifoldNet: A Machine Learning Workflow for Constructing and Comparing Transcriptome-wide Gene Regulatory Networks from Single-Cell Data. Patterns 1 (9) (2020)
James J. Cai, Daniel Osorio
Single-Cell Gene Regulatory Network Analysis Reveals Potential Mechanisms of Action of Antimalarials Against SARS-CoV-2. ICCABS (2020)
Ahmad Al Kawam, Mustafa Alshawaqfeh, James J. Cai, Erchin Serpedin, Aniruddha Datta
Simulating variance heterogeneity in quantitative genome wide association studies. BMC Bioinform. (3) (2018)
Jinting Guan, Moliang Chen, Congting Ye, James J. Cai, Guoli Ji
AEGS: identifying aberrantly expressed gene sets for differential variability analysis. Bioinform. 34 (5) (2018)
Ahmad Al Kawam, Mustafa Alshawaqfeh, James J. Cai, Erchin Serpedin, Aniruddha Datta
Simulating Variance Heterogeneity in Quantitative Genome Wide Association Studies. BCB (2017)
James J. Cai, David K. Smith, Xuhua Xia, Kwok-Yung Yuen
MBEToolbox: a Matlab toolbox for sequence data analysis in molecular biology and evolution. BMC Bioinform. 6 (2005)