Lena Project Notebook
From LMU BioDB 2013
Contents |
Week 12
Gabriel and I performed an import/export cycle on 11/14/2013.
Export Information
- Uniprot: 7.12 minutes
- Version: UniProt release 2013_10 - October 16, 2013
- File:UniprotXML Leishmania 05112013 Gabe Lena.xml
- GO OBO: 6.32 minutes
- Version: Monday, November 04, 2013, 2:03:38 AM
- File:Leishmania 05112013 Gabe Lena.obo-xml.gz
- GOA: 4.54 minutes
- Version: 14 November, 2013
- 12-Nov-2013 11:47 3.0M
- http://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/21780.L_major.goa
- File:LeishmaniaGOA 19112013 Lena Gabe.goa
- Name of .gdb file
- Leishmania_05112013_Lena_Gabe.gdb
Tally Engine
Using XMLPipeDB match to Validate the XML Results from the TallyEngine
Original Row Counts Comparison
- Uniprot has 8041 which is the same the tallycount.
- There were 0 ordered locus, which is the same as the tallycount.
- There were 8315 hits for RefSeq, which is 2 fewer than was seen in the tallycount.
- There were 8315 hits for GeneID, which is 2 fewer than was seen in the tallycount.
Note:Leishmania major does not have "ordered locus names," instead they are tagged as "ORF."
File Management
- To keep the names of our files consistent, we agreed to name files with 1.) an identifier of what the file contains (such as "Uniprot") 2.) Leishmania 3.) the date in format MMDDYYYY 4.) names of Team members.
- An example of our file titles is: UniprotXML Leishmania 05112013 Gabe Lena.xml
- All files are stored on the main page for Leishmania major for ease of access. On the computer, the files are stored in the Downloads file.
System IDs
- ID pattern Uniprot: LmjF##.#### or LmjF_##_#### or LmjF.##.####
- Taxon ID: 5664
