Faculty Profile

Cathy Wu

Cathy Wu

Unidel Edward G. Jefferson Chair
DBI Suite 205
Newark, Delaware 19716
P: 302-831-8869

Personal Website


BS, Plant Pathology, National Taiwan University, Taiwan, 1978
MS, Plant Pathology, Purdue University, West Lafayette, IN, 1982
PhD, Plant Pathology, Purdue University, West Lafayette, IN, 1984
Postdoc, Molecular Biology, Michigan State University, East Lansing, MI, 1986
MS, Computer Science, University of Texas at Tyler, Tyler, TX, 1989


Bioinformatics and Computational Biology: Biological Text Mining, Biological Ontology, Computational Systems Biology, Protein Structure-Function-Network Analysis, Bioinformatics Cyberinfrastructure


  • Biomedical Informatics/Computational Biomedicine
  • Data Science



  1. Wu CH and Chen C. (Editors) (2011). Bioinformatics for Comparative Proteomics. Series Methods in Molecular Biology, Volume 694, Series Editor: Walker, John M. 387p. Humana Press. ISBN: 978-1-60761-976-5.
  2. Wang J, Wu CH and Wang P. (Editors) (2003) Computational Biology and Genome Informatics. World Scientific. ISBN 981-238-257-7.
  3. Wu CH and McLarty J. (2000) Neural Networks and Genome Informatics. Methods in Computational Biology and Biochemistry, Volume 1, Series Editor: Konopka, AK. 205 p. Elsevier Science. ISBN 0 08 042800 2.

Journal Special Issues

  1. Arighi CN, Cohen KB, Hirschman L, Lu Z, Tudor OC, Wiegers T, Wilbur J, Wu CH. (Editors) (2014) BioCreative-IV Virtual Issue. Database 2014; bau039 . [doi:10.1093/database/bau039]
  2. Wu CH, Arighi CN, Cohen KB, Hirschman L, Krallinger M, Lu Z, Mattingly C, Valencia A, Wiegers TC, Wilbur WJ. (Editors) (2012) BioCreative-2012 Virtual Issue. Database 2012; bas049 . [doi:10.1093/database/bas049]
  3. Arighi CN, Cohen KB, Hirschman L, Krallinger M, Lu Z, Valencia A, Wilbur J, Wu CH. (Editors) (2011). The Third BioCreative – Critical Assessment of Information Extraction in Biology Challenge. BMC Bioinformatics, Volume 12, Supplement 8.

Refereed Publications (selected from >230 peer-reviewed publications)

Google Scholar (>18,000 citations, h-index: 48, i10-index: 113)
NIH MyBibliography 

  1. Ross KE, Arighi CN, Ren J, Wu CH.(2013) Construction of protein phosphorylation networks by data mining, text mining, and ontology integration: Analysis of the spindle checkpoint. Database 2013; (accepted)
  2. Gonzalez AJ, Liao L, Wu CH. (2013) Prediction of contact matrix for protein-protein interaction. Bioinformatics 2013; Mar 13.
  3. Tudor CO, Arighi CN, Wang Q, Wu CH, Vijay-Shanker K. (2012) The eFIP system for text mining of protein
    interaction networks of phosphorylated proteins
    . Database 2012; bas044.
  4. Wang Q, Arighi CN, King BL, Polson SW, Vincent J, Chen C, Huang H, Kingham B, Page ST, Rendino
    MF, Thomas WK, Udwary DW, Wu CH, North East Bioinformatics Collaborative Curation Team. (2012) Community annotation and bioinformatics workforce development in concert – Little skate genome annotation workshops and jamborees. Database 2012, bar064.
  5. Bult CJ, Drabkin HJ, Evsikov A, Natale D, Arighi C, Roberts N, Ruttenberg A, D’Eustachio P, Smith B,
    Blake JA, Wu CH. (2011) The representation of protein complexes in the protein ontology (PRO). BMC Bioinformatics 2011; 12, 371.
  6. Chen C, Natale DA, Finn RD, Huang H, Zhang J, Wu CH, Mazumder R. (2011) Representative Proteomes: a
    stable, scalable and unbiased proteome set for sequence analysis and functional annotation
    . PLOS One
    2011; 6(4), e18910.
  7. Huang H, McGarvey PB, Suzek BE, Mazumder R, Zhang J, Chen Y, and Wu CH. (2011) A comprehensive
    protein-centric ID mapping service for molecular data integration
    . Bioinformatics 2011; 27, 1190-1191.
  8. Natale DA, Arighi CN, Barker WC, Blake JA, Bult CJ, Caudy M, Drabkin HJ, D’Eustachio P, Evsikov AV,
    Huang H, Nchoutmboube J, Roberts NV, Smith B, Wu CH. (2011) The Protein Ontology (PRO): A structured
    representation of protein forms and complexes
    . Nucl. Acids Res. 2011; 39, D539-545. [PMC3013777]
  9. Hu ZZ, Kagan BL, Ariazic EA, Rosenthala DS, Zhanga L, Li JV, Huang H, Wu CH, Jordan VC, Riegela
    AT, Wellsteina A. (2011) Proteomic analysis of pathways involved in estrogen-induced growth and apoptosis in breast cancer cells. PLOS One 2011; 6(6), e20410.
  10. Mazumder R, Natale DA, Julio JA, Yeh LS, Wu CH. (2010) Community annotation in biology. Biology Direct 2010; 5, 12.
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