Liliana D. Florea

Designing algorithms and software tools for: Sequence and Genome Analysis, Alternative Splicing Identification and Characterization, Comparative Analysis of Bacterial Genomes, Computational Vaccine Design

Ph.D., 2000, Penn State University

M.Sc., 1998, Penn State University

B.Sc., 1994, University of Bucharest

Dr. Florea's research interests are in applying computational techniques towards modeling and solving biological problems. In particular, her work revolves around designing methods and tools for sequence and genome analysis, identifying and characterizing alternative splicing and its regulation, comparative and evolutionary analyses of bacterial and viral genomes, and computational vaccine design.

Selected Publications

1. Zhou, L., J. Stanton, L. Florea, Universal seeds for cDNA-to-genome comparison , BMC Bioinformatics 9:36, 2008.



2. Zhou, L., L. Florea, Designing sensitive and specific spaced seeds for cross-species mRNA-to-genome alignment , J. Comput. Biol. 14(2), 113-130, 2007.



3. Florea, L., Bioinformatics of alternative splicing and its regulation , Brief. Bioinformatics 7(1), 55-69, 2006.



4. Florea, L., V. Di Francesco, J. Miller, R. Turner, C. Mobarry, A. Yao, M. Harris, B. Walenz, I. Dew, G. Merkulov, R. Charlab, Z. Deng, S. Istrail, P. Li, G. Sutton, Gene and alternative splicing annotation with AIR , Genome Res. 15(1), 54-66, 2005.



5. Istrail, S., L. Florea, B.V. Halldorsson, O. Kohlbacher, R.S. Schwartz, V.B. Yap, J.W. Yewdell, S.L. Hoffman , Comparative immunopeptidomics of humans and their pathogens , Proc. Natl. Acad. Sci. USA 101(36), 13268-13272, 2004.



6. Istrail, S., G.G. Sutton, L. Florea, A. Halpern, C.M. Mobarry, R. Lippert et al., Whole-genome shotgun assembly and comparison of human genome assemblies , Proc. Natl. Acad. Sci. USA 101(7), 1916-1921, 2004.



7. Florea, L., M. McClelland, C. Riemer, S. Schwartz, W. Miller, EnteriX 2003: Visualization tools for genome alignments of Enterobacteriaceae , Nucleic Acids Res. 31(13), 3527-3532, 2003.



8. Venter J.C., M.D. Adams, G. Myers, P.W. Li, R. Mural, G.G. Sutton, ..., L. Florea, ..., X. Zhou, The sequence of the human genome , Science 291(5507), 1304-1351, 2001.