Chen-Ching Lin

Personal Profile

Chen-Ching Lin
Associate Professor, Institute of Biomedical Informatics
PhD of Biomedical Electronics and Bioinformatics, National Taiwan
University, Taiwan
Field of Interest: Data Science, Computational Cancer Biology,
Bioinformatics, Systems Biology
Office: R313, 3F, SoRen Building
Phone: 886-2-28267949

Research Interests

  • 數據與資料科學 (Data Science)
  • 癌症計算生物學 (Computational Cancer Biology)
  • 生物資訊學 (Bioinformatics)
  • 系統生物學 (Systems Biology)


  • Chen, Y.R., H.C. Huang, and C.C. Lin, Regulatory feedback loops bridge the human gene regulatory network and regulate carcinogenesis. Brief Bioinform, 2019.
  • Sahu, D., et al., Co-expression analysis identifies long noncoding RNA SNHG1 as a novel predictor for event-free survival in neuroblastoma. Oncotarget, 2016. 7(36): p. 58022-58037.
  • Jiang, W., et al., Systematic dissection of dysregulated transcription factor-miRNA feed-forward loops across tumor types. Brief Bioinform, 2016. 17(6): p. 996-1008.
  • Jager, E., et al., Dendritic Cells Regulate GPR34 through Mitogenic Signals and Undergo Apoptosis in Its Absence. J Immunol, 2016. 196(6): p. 2504-13.
  • Mitra, R., et al., Concordant dysregulation of miR-5p and miR-3p arms of the same precursor microRNA may be a mechanism in inducing cell proliferation and tumorigenesis: a lung cancer study. Rna, 2015. 21(6): p. 1055-65
  • Lin, C.C., et al., A cross-cancer differential co-expression network reveals microRNA-regulated oncogenic functional modules. Mol Biosyst, 2015. 11(12): p. 3244-52.
  • Lin, C.C., et al., Regulation rewiring analysis reveals mutual regulation between STAT1 and miR-155-5p in tumor immunosurveillance in seven major cancers. Sci Rep, 2015. 5: p. 12063.
  • Cheng, F., et al., A Gene Gravity Model for the Evolution of Cancer Genomes: A Study of 3,000 Cancer Genomes across 9 Cancer Types. PLoS Comput Biol, 2015. 11(9): p. e1004497.
  • Yang, K.C., et al., Mirin: identifying microRNA regulatory modules in protein-protein interaction networks. Bioinformatics, 2014. 30(17): p. 2527-8
  • Vuong, H., et al., Functional consequences of somatic mutations in cancer using protein pocket-based prioritization approach. Genome Med, 2014. 6(10): p. 81.
  • Lin, C.C., R. Mitra, and Z. Zhao, A tri-component conservation strategy reveals highly confident microRNA-mRNA interactions and evolution of microRNA regulatory networks. PLoS One, 2014. 9(7): p. e103142
  • Lin, C.C., et al., Functional evolution of cardiac microRNAs in heart development and functions. Mol Biol Evol, 2014. 31(10): p. 2722-34.
  • Cheng, F., et al., Studying tumorigenesis through network evolution and somatic mutational perturbations in the cancer interactome. Mol Biol Evol, 2014. 31(8): p. 2156-69.
  • Yu, H., et al., Dynamic protein interaction modules in human hepatocellular carcinoma progression. BMC Syst Biol, 2013. 7 Suppl 5: p. S2.
  • Lin, C.C., et al., Link clustering reveals structural characteristics and biological contexts in signed molecular networks. PLoS One, 2013. 8(6): p. e67089.
  • Liaw, H.H., et al., Differential microRNA regulation correlates with alternative polyadenylation pattern between breast cancer and normal cells. PLoS One, 2013. 8(2): p. e56958.
  • Lee, C.H., et al., MicroRNA-regulated protein-protein interaction networks and their functions in breast cancer. Int J Mol Sci, 2013. 14(6): p. 11560-606.
  • Lu, K.Y., et al., Profiling lipid-protein interactions using nonquenched fluorescent liposomal nanovesicles and proteome microarrays. Mol Cell Proteomics, 2012. 11(11): p. 1177-90.
  • Lin, C.C., et al., Crosstalk between transcription factors and microRNAs in human protein interaction network. BMC Syst Biol, 2012. 6: p. 18.
  • Chen, P.J., et al., Androgen pathway stimulates microRNA-216a transcription to suppress the tumor suppressor in lung cancer-1 gene in early hepatocarcinogenesis. Hepatology, 2012. 56(2): p. 632-43.
  • Tseng, C.W., et al., Identification of 14-3-3beta in human gastric cancer cells and its potency as a diagnostic and prognostic biomarker. Proteomics, 2011. 11(12): p. 2423-39.
  • Tseng, C.W., et al., Integrative network analysis reveals active microRNAs and their functions in gastric cancer. BMC Syst Biol, 2011. 5: p. 99.
  • Lin, C.C., et al., Dynamic functional modules in co-expressed protein interaction networks of dilated cardiomyopathy. BMC Syst Biol, 2010. 4: p. 138.
  • Lin, C.C., et al., Essential core of protein-protein interaction network in Escherichia coli. J Proteome Res, 2009. 8(4): p. 1925-31.
  • Hwang, Y.C., et al., Predicting essential genes based on network and sequence analysis. Mol Biosyst, 2009. 5(12): p. 1672-8.