Yimeng Dou
Ph.D, Information and Computer Science.
ydou@ics.uci.edu, I graduated from UCI in September, 2006.
Advisor:
Pierre Baldi
School of Information and Computer Sciences,
University of California, Irvine
Research Publications Education
Astronomy Page
My
Favorite Readings (in Chinese)
Research
- Inter-chain
Beta Sheets ICBS, A database of protein protein
interaction mediated by Beta Sheet formation.
-
GONet Protein
interaction and Gene Ontology network database server.
-
Alternative
Splicing Ongoing collaboration
with the
Hertel group.
- UCI ChemDB One of the largest free chemical databases in
the world.
-
Sigmoid A Biological Pathway database. Contributing to the database
server.
-
SwissToGene:
Automatically converts Swiss-Prot Accession Numbers into gene names.
-
Sourcerer:
Search engine designed for software developers.
Journal Papers
- Y. Dou, K. Fox-Walsh, P. Baldi, and K. Hertel. Genomic Splice-Site Analysis
Reveals Frequent Alternative Splicing Close to the Dominant Splice Site. RNA,12(12):2047-56. (2006).Online
- Y. Dou, P. Baisnee, G. Pollastri, Y. Pecout,
J. Nowick, and P. Baldi. ICBS: A Database of Protein-Protein
Interactions Mediated by Beta-Sheet Formation. Bioinformatics, 20 16.
2767-2777, (2004). Online
- B. Irwin, M. Aye, P. Baldi, N.
Beliakova-Bethell, H. Cheng, Y. Dou, W. Liou, and S. Sandmeyer. Retroviruses
and Yeast Retrotransposons Use Overlapping Sets of Host Genes. Genome
Research, 15, 641-654, (2005).Online
- D. M. Chung, Y. Dou, P. Baldi, and J. S.
Nowick. The Absence of Favorable Aromatic Interactions between Beta-Sheet
Peptides. Journal of the American Chemical Society, Vol. 127, No. 28, (2005). Online
- J. Chen, S. J. Swamidass, Y. Dou, J. Bruand, and P. Baldi. ChemDB: A Public Database of Small Molecules and Related
Chemoinformatics Resourrces. Bioinformatics, in press, (2005).Online
- K. Fox-Walsh, Y. Dou, B. Lam, S. Hung, P.
Baldi, and K. Hertel. The architecture of premRNAs affects mechanisms
of splice-site pairing. Proceedings of the National Academy of Sciences USA, in press, (2005). Online
- C. Tagwerker, K. Flick, M. Cui, C. Guerrero, Y. Dou, B. Auer, P. Baldi, L. Huang and P. Kaiser.
A tandem-affinity tag for two-step purification under fully denaturing conditions: Application in ubiquitin profiling and protein complex
identification combined with in vivo cross-linking. Molecular and Cellular Proteomics, in press, (2006). Online
Posters
- Y. Dou, P. Baldi and S. Sandmeyer. GOnet: a
database of protein-protein interaction and gene ontology. ISMB/ECCB,
2004.
- J. Chen, Y. Dou, S. Swamidass and J. Bruand.
ChemDB and reaction processing tools. Chemical Biology Symposium, 2004.
Education
- Ph.D. Informatics in Biology and
Medicine. UC Irvine, September, 2006.
- M.S. Informatics in Biology and
Medicine. UC Irvine, December 2003.
- B.S. Management in Information Management
and Systems. Degreed conferred by Nanjing University, July 2001.
Honors
- BREP Program Trainee, 2002-Present, UC Irvine.
- Graduate student fellowship 2001-2002, UC
Irvine.
- First prize, National English competition
(for non-major students), China, 2000.
- Renmin Fellowship, Nanjing University, 2000
and 2001.
Memberships
- Full member of the Honorary Sigma Xi Scientific Research Society.
- Member of ISCB (The International Society for Computational Biology) and the ISCB student council.
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