Carl

Carl Kingsford

Assistant Professor
Department of Computer Science, UM Institute for Advanced Computer Studies, and Center for Bioinformatics and Computational Biology

Ph.D., Princeton University, 2005 (advisor: Mona Singh)
MA, Princeton University, 2002
BS, Duke University, 2000

carlk [at] umiacs.umd.edu

Center for Bioinformatics and Computational Biology
Biomolecular Sciences Bldg #296
College Park, MD 20742
301-405-7395

Classes

Office Hours: Tuesday 2:00-3:30 in AVW 3223.

Current Interests

Transcription termination Protein structure prediction Sequence motif discovery Influenza evolution Protein interaction networks Partial research schematic

In general, we are interested in designing graph algorithms to extract insight from biological data.

Protein interactions and networks:

Bacterial & viral genome analysis:

  • Overlapping genes in Bacteria.
  • Transcription termination in bacteria. See the TransTermHP program for predicting Rho-independent terminators.
  • Reassortment in the influenza genome.

This work is partially funded by NSF grant 0849899 and by NSF grant IIS-0812111.

Selected Publications

Click on the title of the paper to download a PDF version.
* indicates that the authors are alphabetized.
† indicates equal contribution.

Students

Current:
  • Guillaume Marçais (co-advised with Jim Yorke)
  • Saket Navlakha
Former Students:
  • Grecia Lapizco-Encinas (co-advised with Jim Reggia; now a postdoc in Dept. of Computer Science at the Universidad Carlos III de Madrid)