Welcome! Visit Cai Lab website at genomezoo.net 

James Cai, Ph.D.
Assistant Professor
Department of Veterinary Integrative Biosciences
Texas A&M University
4458 TAMU
College Station, TX 77843-4458
Tel (979) 458-5482 | Fax (979) 847-8981
jcai@tamu.edu
people.tamu.edu/~jcai/

[Administrative profile | Lab website | SciENCV]

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Research Interests

  • Population genomics: theory, methods and applications
  • Regulation and evolution of gene expression
  • Genetic disorders, complex traits and interaction network
  • Fungal genomics
  • Scientific computing, algorithms and software tools
  

Selected Publications [Show All]

  1. 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][Open Access]

  2. 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][Open Access]

  3. 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]

  4. 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]

  5. Konganti K, Wang G, Yang E, Cai JJ* (2013) SBEToolbox: a Matlab toolbox for biological network analysis. Evolutionary Bioinformatics, 9:1-8. [PDFPDF][PubMed][Open Access][Software Download]

  6. 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]

  7. Chang CL, Cai JJ, Park JI, Lo C, Amigo J, Cheng PJ, Chueh HY, Hsu SYT (2011) Adaptive selection of an incretin gene in Eurasian populations. Genome Research 21(1):21-32. [PDFPDF][PubMed][Cover Article]

  8. Cai JJ*, Borenstein E, Petrov DA (2010) Broker genes in human disease. Genome Biology and Evolution, 2:815-25. [PDFPDF][Pubmed]

  9. Cai JJ, Macpherson M, Sella G, Petrov DA (2009) Pervasive hitchhiking at coding and regulatory sites in humans. PLoS Genetics, 5(1):e1000336. [PDFPDF][PubMed][i][ii][iii]
[Google Cites | MyBibliography (NCBI)]

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

  • Population Genetics & Evolution Toolbox (PGEToolbox)
  • Molecular Biology & Evolution Toolbox (MBEToolbox)
  • Systems Biology & Evolution Toolbox (SBEToolbox)

Updated on 10/17/2014