Frederick Roth

Departmentof Biological Chemistry and Molecular Pharmacology
Harvard Medical School
Seeley G. Mudd Building, Room 322
250 Longwood Ave
Boston, MA 02115
Tel: (617) 432-3551
Fax: (617) 432-3557
Email: fritz_roth@hms.harvard.edu
Web page: The Roth Lab Page

8 postdoctoral fellows, 2 graduate students

Current experimental interests:
• Exploiting parallel sequencing technology to phenotype all pairwise gene deletion combinations in S. cerevisiae, with initial application study transcription.
• Generation of S. cerevisiae strains carrying dozens of chosen targeted deletions, with initial application to delete all ABC transporters imparting multidrug resistance.
• Targeted insertion of gene sets encoding entire human pathways into S. cerevisiae, with initial application to drug metabolism pathways.

Current computational interests:
• Systematic analysis of genetic interacton to reveal redundant systems and order of action in genetic pathways.
-Using combinatorial perturbation experiments in S. cerevisiae, C. elegans or mouse.
-Using genome-scale genotyping of natural polymorphisms in S. cerevisiae and human populations.
• Integrating large-scale studies to quantitatively assign function to genes and guide experimentation and disease association studies.
• Alternative splicing and its relationship to protein interaction networks.

References:

• S Komili, N Gilks, FP Roth† & PA Silver†. Functional specificity among ribosomal proteins regulates gene expression. Cell 131:557-571 (2007).

• RP St.Onge, R Mani, J Oh, M Proctor,E Fung, R Davis, C Nislow, FP Roth† & G Giaever†. Systematic pathway analysis using high-resolution fitness profiling of combinatorial gene deletions. Nature Genetics. 39(2):199-206 (2007).

• L Peña-Castillo, M Tasan, CL Myers, H Lee, T Joshi, C Zhang, Y Guan, M Leone, A Pagnani, WK Kim, C Krumpelman, W Tian, G Obozinski, Y Qi, S Mostafavi, GN Lin, GF Berriz, FD Gibbons, G Lanckriet, J Qiu, C Grant, Z Barutcuoglu, DP Hill, D Warde-Farley, C Grouios, D Ray, JA Blake, M Deng, M Jordan, WS Noble, Q Morris, J Klein-Seetharaman, Z Bar-Joseph, T Chen, F Sun, OG Troyanskaya, EM Marcotte, D Xu, TR Hughes† & FP Roth†. A critical assessment of M. musculus gene function prediction using integrated genomic evidence. Genome Biology (2008).

• R Mani, RP St. Onge, J Hartman, G Giaever, FP Roth†. Defining genetic interaction. Proceedings of the National Academy of Sciences 105(9):3461-3466 (2008).