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Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Aug 26 16:58:56 2005 UTC (14 years, 3 months ago) by fangfang
Branch: MAIN
CVS Tags: HEAD
Changes since 1.7: +10 -7 lines
Diff to previous 1.7
Added 'use strict;' and modified codes accordingly.

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Aug 23 04:30:13 2005 UTC (14 years, 3 months ago) by fangfang
Branch: MAIN
Changes since 1.6: +1 -1 lines
Diff to previous 1.6
Fixed a bug in Makefile

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Aug 23 03:32:58 2005 UTC (14 years, 3 months ago) by fangfang
Branch: MAIN
Changes since 1.5: +2 -3 lines
Diff to previous 1.5
Added new algorithm for computing degree of sequence conservation.

The algorithm looks for the homologs of one peg in 10 fixed organisms,
and uses clustalw to align the 10 sequences. Conservation value is then
calculated based on the aligned fasta file.

The algorithm decides which 10 organisms to compare based on whether
this peg belongs to a gram positive bacteria or not.

cons_orgs_list1.txt: Firmicutes
cons_orgs_list2.txt: Proteobacteria

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 22 06:58:01 2005 UTC (14 years, 3 months ago) by fangfang
Branch: MAIN
Changes since 1.4: +89 -77 lines
Diff to previous 1.4
Now support multiple hits for one gene search key.

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Aug 18 05:21:41 2005 UTC (14 years, 4 months ago) by fangfang
Branch: MAIN
Changes since 1.3: +7 -4 lines
Diff to previous 1.3
Changed the directory to save master tables on uchicago machines.

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Aug 18 03:35:55 2005 UTC (14 years, 4 months ago) by fangfang
Branch: MAIN
Changes since 1.2: +82 -51 lines
Diff to previous 1.2
Drug Targets Portal:

  View Existing Tables
  Work on New Tables

Five more columns of CLiBE energy information are added to the table.

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 15 17:03:29 2005 UTC (14 years, 4 months ago) by fangfang
Branch: MAIN
Changes since 1.1: +5 -2 lines
Diff to previous 1.1
Made drug_targets table downloadable as Excel files.

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Aug 10 21:24:19 2005 UTC (14 years, 4 months ago) by fangfang
Branch: MAIN
Pipeline for generating a DrugTargets table based on user input gene search keys.

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