Lynda Ellis

Research Interests:

• Bioinformatics
• computational biology

Dr. Ellis focuses on developing bioinformatics tools that support the work of life science colleagues.  With biochemist Larry Wackett, Dr. Ellis has created an innovative microbial biotechnology databaseb: The University of Minnesota Biocatalysis/Biodegradation Database.  She develops bioinformatic databases and selects targets for vertebrate functional genomics with developmental biologists Stephen Ekker and Scott Fahrenkrug. 

Dr. Ellis is member of the Bioinformatics, Health Informatics, Microbial Engineering, and Microbiology, Immunology, and Cancer Biology (MICaB) graduate programs, is on the Health Informatics Seminar Committee, co-directs the Bioinfornatics Journal Club, teaches a Biocatalysis and Biodegradation course completely over the Internet for Microbial Engineering, and teaches a protein sequence analysis course in the MICaB graduate program.

Techniques:

• Database design and development
• protein sequence analysis

Recent Publications:

• Ellis, Lynda B.M., Roe, David, and Wackett, Lawrence P. (2006) The University of Minnesota Biocatalysis/Biodegradation Database: The First Decade.  Nucleic Acids Research, 34:D517-D521.

• Klee, Eric W., Ellis, Lynda B.M. (2005) Evaluating Eukaryotic Secreted Protein Prediction.  BMC Bioinformatics, 6:256.

• Klee, Eric W., Shim, Kyong Jin, Pickert, Michael, Ekker, Stephen C., Ellis, Lynda B.M. (2005) AMOD: A morpholino oligonucleotide selection tool.  Nucleic Acids Research, 33: W506-W511.

• Klee, Eric W., Carlson, Dan, Fahrenkrug, Scott C., Ekker, Stephen C., Ellis, Lynda B.M. (2004) Identifying Secretomes in People, Pufferfish and Pigs. Nucleic Acids Research, 32: 1414-1421.

• Hou, Bo Kyeng, Ellis, Lynda BM, Wackett, Lawrence P. (2004) Encoding microbial metabolic logic: predicting biodegradation. J Ind Microbiol Biotechnol., 31:261-72.

• Nadershanhi, A., Fahrenkrug, S.C., and Ellis, L.B.M. (2004) Comparison of Computational Methods for Identifying Translation Initiation Sites in EST Data. BMC Bioinformatics, 5:14.

• Wackett, L.P., Dodge, A.G., and Ellis, L.B.M. (2004) Microbial Genomics and the Periodic Table. (minireview) Applied and Environmental Microbiology, 70: 647-655.