COG Teams Sample Data

This site contains sample data from a pairwise comparison between the genomes of E. coli K-12 and B. subtilis. The experiment was originally discussed in an extended abstract appearing as

Identifying Conserved Gene Clusters in the Presence of Orthologous Groups

Xin He and Michael H. Goldwasser

Proceedings of the Eighth Annual International Conferences on Research in Computational Molecular Biology (RECOMB), San Diego, California, Mar. 2004, pp. 272-280.

Please note, however, that the data has been updated during the preparation of a full version of the paper. This site contains these updated results. Namely, we have performed a manual analysis of COG teams which are identified at delta=1900bp.

Please see the COG teams web page for more details on the methodology.

Input Files:

• list of the textual descriptions for COGs from NCBI GenBank
• the sequence file E. coli downloaded from NCBI GenBank
• the sequence file B. subtilis downloaded from NCBI GenBank
• input file, formatted for cogteams software (created from two previous files)

Output Files:

• Original output for delta=1900bp
• Annotated version of output for delta=1900bp
• Manual analysis of non-ribosomal COG teams for delta=1900bp