Cbcb:Pop-Lab:Dan-Report: Difference between revisions

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== Feb 23, 2009 ==
== Feb 23, 2009 ==
*'''EST Read Annotation of the Coral Reef''' (more will come)   
*'''EST Read Annotation of the Coral Reef'''
*'''Antibiotic Resistance Genes in Metagenome.''' (more will come)
Performed a read analysis of EST sequences from soft corals.
*'''Short Read Assembly: Minimus-SR''' (more will come)
The analysis followed the methods from the paper [http://aem.asm.org/cgi/content/abstract/AEM.02181-07v1 Metagenomics: Read length matters].
 
'''Short description of the method'''
* Homology detection by blasting(blastx) EST reads against NR database
* Use CDD Search to find conserved domains in detected proteins
* Blast proteins against COG database to map proteins to COGs and functional groups
    
 
*'''Diva: Comparative analysis tool'''  
  Finishing the development of Google Gears version of the viewer.  Developed client side/javascript support of GFF relational database
 
 
*'''Grid Upgrade'''  
  Transitioned RunCmd software packaged to Condor version 7.
  Worked with IT to upgrade grid to latest Redhat 64-bit OS.

Latest revision as of 16:57, 23 February 2009

Feb 23, 2009

  • EST Read Annotation of the Coral Reef

Performed a read analysis of EST sequences from soft corals. The analysis followed the methods from the paper Metagenomics: Read length matters.

Short description of the method

  • Homology detection by blasting(blastx) EST reads against NR database
  • Use CDD Search to find conserved domains in detected proteins
  • Blast proteins against COG database to map proteins to COGs and functional groups


  • Diva: Comparative analysis tool
 Finishing the development of Google Gears version of the viewer.  Developed client side/javascript support of GFF relational database


  • Grid Upgrade
 Transitioned RunCmd software packaged to Condor version 7. 
 Worked with IT to upgrade grid to latest Redhat 64-bit OS.