James Cai - Systems Genetics at Texas A&M
James Cai, Ph.D.
Associate Professor
Department of Veterinary Integrative Biosciences
Department of Electrical & Computer Engineering (affiliated)
Faculty of Genetics
Texas A&M University
4458 TAMU
College Station, TX 77843-4458
Tel (979) 458-5482 | Fax (979) 847-8981
jcai@tamu.edu
http://people.tamu.edu/~jcai/
[Faculty page | Lab website]

Research Interests

  • Human genetics
  • Computational statistics
  • Data science

Select Publications [Show All]

  1. Osorio D, Yu X, Zhong Y, Li G, Yu P, Serpedin E, Huang J, Cai JJ* (2019) Single cell expression variability in highly homogeneous populations of human cells is widespread, heritable, and implies cell function. [bioRxiv 574426]

  2. Osorio D, Yu X, Yu P, Serpedin E, Cai JJ* (2019) Single-cell RNA sequencing of a European and an African lymphoblastoid cell line. [bioRxiv 548115]

  3. Cai JJ* (2019) scGEApp: a Matlab app for feature selection on single-cell RNA sequencing data. [bioRxiv 544163]

  4. Huang G, Osorio D, Guan J, Ji G, Cai JJ* (2018) Overdispersed gene expression characterizes schizophrenic brains. [bioRxiv 441527]

  5. Yang E, Wang G, Yang J, Zhou B, Tian Y, Cai JJ* (2016) Epistasis and destabilizing mutations shape gene expression variability in humans via distinct modes of action. Hum Mol Genet., 25 (22): 4911-4919. [Preprint]
    [PubMed][Full Text]

  6. Brinkmeyer-Langford CL, Guan J, Ji G, Cai JJ* (2016) Aging shapes the population-mean and -dispersion of gene expression in human brains. Front Aging Neurosci., Aug 3. [Full Text]
    [Preprint]

  7. Guan J, Wang G, Yang E, Yang J, Zeng Y, Ji G, Cai JJ* (2016) Exploiting aberrant mRNA expression in autism for gene discovery and diagnosis. Human Genetics, 135(7):797-811. [PDFPDF][PubMed][Full Text]
    [Preprint]

  8. Zeng Y, Wang G, Yang E, Ji G, Brinkmeyer-Langford CL, Cai JJ* (2015) Aberrant gene expression in humans. PLoS Genetics, 11(1):e1004942. doi:10.1371/journal.pgen.1004942. [PDFPDF][PubMed][Full Text]

  9. Wang G, Yang E, Smith KJ, Zeng Y, Ji G, Connon R, Fangue NA, Cai JJ* (2014) Gene expression responses of threespine stickleback to salinity: implications for salt-sensitive hypertension. Frontiers in Genetics, 5:312 doi: 10.3389/fgene.2014.00312 [PDFPDF][PubMed][Full Text]

  10. Yang E, Chow WN, Wang G, Woo PCY, Lau SKP, Yuen KY, Lin X, Cai JJ* (2014) Signature gene expression reveals novel clues to the molecular mechanisms of dimorphic transition in Penicillium marneffei. PLoS Genetics, 10(10):e1004662. [PDFPDF][PubMed][Full Text]

  11. Wang G, Yang E, Brinkmeyer-Langford CL, Cai JJ* (2014) Additive, epistatic, and environmental effects through the lens of expression variability QTLs in a twin cohort. Genetics, 196:413-25. [PDFPDF][PubMed][Featured in AJHG][Cover Article][Featured in "GENETICS 2014 Spotlight" booklet]

  12. Wang G, Yang E, Mandhan I, Brinkmeyer-Langford CL, Cai JJ* (2014) Population-level expression variability of mitochondrial DNA-encoded genes in humans. European Journal of Human Genetics, 1-7. [PDFPDF][PubMed]

  13. Hulse AM, Cai JJ* (2013) Genetic variants contribute to gene expression variability in humans. Genetics, 193(1):95-108. [PDFPDF][PubMed][Journal Highlight][Highlight][Cover Article][Featured in "GENETICS 2013 Spotlight" booklet]
[Google Cites | MyBibliography (NCBI) | SciENCV]

Book Chapter

  • Cai JJ* (2011) Evolutionary bioinformatics with a scientific computing environment. Systems and Computational Biology - Bioinformatics and Computational Modeling Ning-Sun Yang (Ed.), 51-74, ISBN 978-953-307-875-5, InTech. [PDFPDF][Link]

Software

  • scGEApp: a Matlab app for scRNA-seq analysis (scGEApp)
  • Population Genetics & Evolution Toolbox (PGEToolbox)
  • Molecular Biology & Evolution Toolbox (MBEToolbox)
  • Systems Biology & Evolution Toolbox (SBEToolbox)
jamesjcai's Github chart
   https://github.com/jamesjcai
Updated on 3/12/2019