Curriculum Vitae (pdf).
Research
In a recent study, we examined the extent of conserved modularity in the interactomes for human and Drosophila. We found that current experimental protein interaction data provides evidence for conservation of multiprotein modularity that includes nearly 10 percent of interactome proteins. Nearly 60 percent of interactome proteins exhibit significant sequence homology across this same evolutionary distance.
- Hodgkinson, L., Karp, R.M.: Algorithms to detect multiprotein modularity conserved during evolution. IEEE/ACM Transactions on Computational Biology and Bioinformatics, Epub ahead of print, 2011 Sep. 27. (PubMed, full-text)
- Hodgkinson, L., Karp, R.M.: Algorithms to detect multiprotein modularity conserved during evolution. Proceedings of the 7th International Symposium on Bioinformatics Research and Applications, ISBRA 2011. (pdf)
Processing large data sets is challenging without a principled software architecture. We designed one to utilize the strengths of cloud computing.
- Hodgkinson, L., Rosa, J., Brewer, E.A.: Parallel software architecture for experimental workflows in computational biology on clouds. To appear in proceedings of the 9th International Conference on Parallel Processing and Applied Mathematics, PPAM 2011.
Visualization is important for interpreting results. We designed a dynamic tool, VieProt, to visualize multiprotein modularity and associated statistics.
- Hodgkinson, L., Kong, N.: Visualizing conserved multiprotein modularity with a dynamic force-directed layout. Manuscript in preparation.
Teaching
- Graduate Student Instructor, CS 270:
Combinatorial Algorithms and Data Structures,
University of California-Berkeley, Spring 2010.
- Graduate Student Instructor, CS 270:
Combinatorial Algorithms and Data Structures,
University of California-Berkeley, Fall 2008.
- Graduate Student Instructor, CS 70:
Discrete Mathematics and Probability Theory, University of
California-Berkeley, Spring 2008.
- Graduate Student Instructor, CS 70:
Discrete
Mathematics
and Probability Theory, University of California-Berkeley, Fall
2007.
- Teaching Assistant, COMS 4236: Computational
Complexity, Columbia University, Spring 2007.
- Teaching Assistant, COMS 3261: Computability and Models of
Computation, Columbia University, Spring 2007.
- Teaching Assistant, CSEE 4824: Computer Architecture, Columbia
University, Fall 2006.
- Teaching Assistant, COMS 3139: Honors Data Structures and
Algorithms, Columbia University, Spring 2006.
- Teaching Assistant, COMS
3261: Computability and Models of Computation, Columbia University,
Fall 2005.
- Instructor, CS
10051: Introduction to Computer Science, Kent State University,
Fall 2004.
- Lab Instructor, CS 10051: Introduction to Computer Science, Kent
State University, Spring 2004.
- Teaching Assistant, FRCL 174: Defining America: Family Values and
Culture Wars, Hiram College, Fall 2000.
- Teaching Assistant, CPSC 160: Computer Literacy, Hiram College,
Summer 2000.
Contact Information
Email: luqman at berkeley dot edu
Offices: 615 Soda Hall, University of California, Berkeley
Suite 619, International Computer Science Institute
