Changes between Version 17 and Version 18 of DDBJ-KEGG-PDBj

Timestamp:

2009/03/19 10:05:30 (16 years ago)

Author:

akinjo

Comment:

--

DDBJ-KEGG-PDBj

@@ -31 +31 @@
  1. Group the blast results according to biological species (s''1'', s''2'', ..., s''n'').
  1. For each pathway component (c''i''), pick the top hit from each species.
-  *  At this step, you have (at most) an ''m'' compoents X ''n'' species array of protein sequences: '''Homologous Compoenents Matrix''' (HCM).
+  *  At this step, you have (at most) an ''m'' compoents X ''n'' species array of protein sequences: '''Homologous Compoenents Matrix''' (HCM) or more commonly called ''Phylogenetic profile''.
+
 === Part III ===
 Using Sequence Navigator API (PDBj): http://pdbjs3.protein.osaka-u.ac.jp/seqnavix/soap/index.html
@@ -71 +72 @@
 
 == For each species, select the top hit for each pathway component ==
-That is, filling the Homologous Components Matrix.
+That is, filling the phylogenetic profile.
 In doing so, just select the top hit for each component for each species.
 {{{
@@ -102 +103 @@
  * Sometimes, two or more genes may be merged in one sequence. In that case, they will match the same chain ID but with non-overlapping regions.
 
+= [[Timestamp]] =
+ * Part I is done. Part II is almost done. working on the routine for filling phylogenetic profile.
+ * Ogishima-san says he can draw the colored pictures of the final output.