Difference between revisions of "Mpetredi Week 13"
From LMU BioDB 2013
(→Lab Progression: added version number of genmapp) |
(→Lab Progression: added note about files used) |
||
| Line 25: | Line 25: | ||
==Lab Progression== | ==Lab Progression== | ||
#Started a new export based on latest, custom build of gmbuilder (GenMAPP Builder 2.0b72). | #Started a new export based on latest, custom build of gmbuilder (GenMAPP Builder 2.0b72). | ||
| + | #* Except for gmbuilder, I used all files posted on [[[[Team Name]]]] under "Important Filez" section. | ||
{{Individual Assignment Categories}} | {{Individual Assignment Categories}} | ||
Revision as of 17:51, 21 November 2013
Mitchell Petredis
[[Team Name]]
11/19/2013
Lab Progression
- Attempting to find URL pattern of S. meliloti
- Navigated to model organism database (link: http://cmr.jcvi.org/tigr-scripts/CMR/GenomePage.cgi?org=ntsm01)
- Clicked on all 3 GenBank Accession.Versions and looked for locus ID formatting
- [Complete Chromosome]
- SMc#####
- [plasmid pSymB]
- SMb#####
- NOTE: in the XML file (from [[Team Name]]) appears as SM_b for gene ID; uses SMb for ORF name
- SMb#####
- [plasmid pSymA]
- SMa####
- [Complete Chromosome]
- Copy any locus ID that follows the format of the options above
- After many trials, the general link looks like this: http://cmr.jcvi.org/tigr-scripts/CMR/shared/GenePage.cgi?locus=~
- Copied link to Eclipse
- Opened the .gdb file (from [[Team Name]]) in Microsoft Access to determine how GeneIDs look like
- Open OrderedLocusNames and look at how IDs are named (R.####, where "." is either a letter or a number) and how many records are displayed
- 4712 records
- Open OrderedLocusNames and look at how IDs are named (R.####, where "." is either a letter or a number) and how many records are displayed
11/21/2013
Lab Progression
- Started a new export based on latest, custom build of gmbuilder (GenMAPP Builder 2.0b72).
- Except for gmbuilder, I used all files posted on [[Team Name]] under "Important Filez" section.
