Difference between revisions of "Mpetredi Week 13"
From LMU BioDB 2013
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{{User Page Link}} | {{User Page Link}} | ||
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| + | 11/19/2013 | ||
==Lab Progression== | ==Lab Progression== | ||
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##After many trials, the general link looks like this: http://cmr.jcvi.org/tigr-scripts/CMR/shared/GenePage.cgi?locus=~ | ##After many trials, the general link looks like this: http://cmr.jcvi.org/tigr-scripts/CMR/shared/GenePage.cgi?locus=~ | ||
#Copied link to Eclipse | #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 | ||
| + | |||
| + | 11/21/2013 | ||
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| + | ==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 Files" section. | ||
| + | #Name of export file is Sinorhizobium_meliloti_1021_GenMAPP_database_mpetredi_20131121.gdb | ||
| + | #*Settings used for export: [[Image:Export_Information_20131121.PNG]] | ||
{{Individual Assignment Categories}} | {{Individual Assignment Categories}} | ||
| + | [[Category: Sinorhizobium meliloti]] | ||
| + | [[Category: Group Projects]] | ||
Latest revision as of 18:33, 21 November 2013
[edit] Mitchell Petredis
[[Team Name]]
11/19/2013
[edit] 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
[edit] 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 Files" section.
- Name of export file is Sinorhizobium_meliloti_1021_GenMAPP_database_mpetredi_20131121.gdb
- Settings used for export:
- Settings used for export:
