/* Use cases */

draeger · andreasprlic · commit 30dc1f29343e · 2016-04-09T10:58:10.000-07:00
diff --git a/_wikis/BioJava_3_Use_Cases.md b/_wikis/BioJava_3_Use_Cases.md
@@ -146,4 +146,7 @@ clarification and more detail if we need to. --
     alignment for the found matches. derive a profile from this for this
     protein family and search for distant members in the sequences
     databases. (psi blast)
+-   Persist Sequences from various sources (including Ensemble) locally
+    and make use of source-specific annotations referencing gene
+    ontology annotations.
 
diff --git a/_wikis/BioJava_3_Use_Cases.mediawiki b/_wikis/BioJava_3_Use_Cases.mediawiki
@@ -47,4 +47,5 @@ Copied from the use case template found in [http://en.wikipedia.org/wiki/Use_cas
 * For the matches that I find I want to access the UniProt records to obtain all possible information. (Read UniProt)
 * Align the original protein sequence against the best hits in high quality and find regions of similarity.(Needleman Wunsch, Swith waterman)
 * If the protein structure is known for one of the homologues try to extend the search by finding similar protein structures in the PDB. (structure alignment)
-* Create a multiple sequences alignment and multiple structure alignment for the found matches. derive a profile from this for this protein family and search for distant members in the sequences databases. (psi blast)
+* Create a multiple sequences alignment and multiple structure alignment for the found matches. derive a profile from this for this protein family and search for distant members in the sequences databases. (psi blast)
+* Persist Sequences from various sources (including Ensemble) locally and make use of source-specific annotations referencing gene ontology annotations.
