Difference between revisions of "Team Name"
From LMU BioDB 2013
(→Important Files: added gdb file) |
(→Important Files: rearranged and added more files to import/export page) |
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Taxon ID: 266834 | Taxon ID: 266834 | ||
| − | Version of GenMAPP Builder: gmbuilder-2.0b71 | + | Version of GenMAPP Builder: [[Media: gmbuilder-2.0b71.zip | gmbuilder-2.0b71.zip]] |
| − | Computer on which export was run: Keck Lab Computer | + | Computer on which export was run: Keck Lab Computer, back computer (furthest from the whiteboard) |
Postgres Database name: Sinorhizobium meliloti | Postgres Database name: Sinorhizobium meliloti | ||
| − | UniProt XML filename:Sinorhizobium meliloti 1021 mpetredi 2013115 UniProt XML.xml | + | UniProt XML filename:[[Media:Sinorhizobium meliloti 1021 mpetredi 2013115 UniProt XML.xml|Sinorhizobium meliloti 1021 mpetredi 2013115 UniProt XML.xml]] |
* UniProt XML version (The version information can be found at [http://uniprot.org/news the UniProt News Page]): | * UniProt XML version (The version information can be found at [http://uniprot.org/news the UniProt News Page]): | ||
* Time taken to import:19.17 minutes | * Time taken to import:19.17 minutes | ||
| − | GO OBO-XML filename:Go daily-termdb.obo-xml mpetredi 2013116.gz | + | GO OBO-XML filename:[[Media:Go daily-termdb.obo-xml mpetredi 2013116.gz| Go daily-termdb.obo-xml mpetredi 2013116.gz]] |
* GO OBO-XML version (The version information can be found in the file properties after the file downloaded from the [http://beta.geneontology.org/page/download-ontology GO Download page] has been unzipped): | * GO OBO-XML version (The version information can be found in the file properties after the file downloaded from the [http://beta.geneontology.org/page/download-ontology GO Download page] has been unzipped): | ||
* Time taken to import: 17.81 minutes | * Time taken to import: 17.81 minutes | ||
* Time taken to process: 15.54 minutes | * Time taken to process: 15.54 minutes | ||
| − | GOA filename:R meliloti.goa | + | GOA filename:[[Media:R meliloti.goa|R meliloti.goa (from 11/7/2013)]] |
* GOA version (News on [http://www.ebi.ac.uk/GOA/ this page] records past releases; current information can be found in the Last modified field on the [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/ FTP site]): | * GOA version (News on [http://www.ebi.ac.uk/GOA/ this page] records past releases; current information can be found in the Last modified field on the [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/ FTP site]): | ||
* Time taken to import: 0.21 minutes | * Time taken to import: 0.21 minutes | ||
| + | *Note about GOA file | ||
| + | **From Running GenMAPP Builder page, clicked on the UniProt-GOA Downloads link. | ||
| + | **Was given an error message. Changed url from "ftp" to "http" at beginning. | ||
| + | **Was entered, was taken to Index of/pub/database/GO/goa | ||
| + | **Clicked on "proteomes" folder | ||
| + | **Directed to Index of /pub/databases/GO/goa/proteomes. Downloaded 58.R_meliloti.goa | ||
| + | ***Note: R. meliloti is an alternative name to S. Melitoti. | ||
Name of .gdb file: [[Media:Sinorhizobium_meliloti_1021_GenMAPP_database_mpetredi_2013117.gdb | Sinorhizobium_meliloti_1021_GenMAPP_database_mpetredi_2013117.gdb]] | Name of .gdb file: [[Media:Sinorhizobium_meliloti_1021_GenMAPP_database_mpetredi_2013117.gdb | Sinorhizobium_meliloti_1021_GenMAPP_database_mpetredi_2013117.gdb]] | ||
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==Wiki Navigation== | ==Wiki Navigation== | ||
{{Team Name}} | {{Team Name}} | ||
Revision as of 17:04, 19 November 2013
Species: Sinorhizobium Meliloti (Strain 1021)
Contents |
Group Project
Personnel
Stephen Louie
Project Manager, Quality Assurance
- slouie4 at lion.lmu.edu
- 1 LMU Drive MSB 5194
- Los Angeles, CA 90045
- Stephen Louie Project Notebook
Lauren Magee
GenMAPP Expert
- lmagee1 at lion.lmu.edu
- 1 LMU Drive MSB-5258,
- Los Angeles, CA 90045
Mitchell Petredis
Coding Supervisor
- mrpetredis at gmail dot com
- mpetredi at lion dot lmu dot edu
- Loyola Marymount University
- 1 LMU Drive MSB-5957
- Los Angeles, CA 90045-2659
Miles Malefyt
GenMAPP Coordinator
- milesm@malefyt.com
- mmalefyt@lion.lmu.edu
- 8416 Campion drive
- Westchester, CA 90045
cell: 831-236-5402
Mmalefyt (talk) 10:31, 31 October 2013 (PDT)
Micro Array paper
[Osmotic upshift elicited by salt and sucrose]
- [HTML version]
- [PDF version]
- Media:A-MEXP-230.adf.txt
- Media:E-MEXP-785.eSet.r
- Media:E-MEXP-785.processed.1.zip
- Media:E-MEXP-785.raw.2.zip
- Media:E-MEXP-785.idf.txt
- Media:E-MEXP-785.raw.1.zip
- Media:E-MEXP-785.sdrf.txt
Domínguez-Ferreras, A., Pérez-Arnedo, R., Becker, A., Olivares, J., Soto, M.J., Sanjuán, J. (2006) Transcriptome Profiling Reveals the Importance of Plasmid pSymB for Osmoadaptation of Sinorhizobium meliloti Journal of Bacteriology 188:7617-7625
Genome Paper
The composite genome of the legume symbiont Sinorhizobium meliloti. Science 293, 668–672.
Galibert, F., Finan, T.M., Long, S., Puhler, A., et al. (2001) The composite genome of the legume symbiont Sinorhizobium meliloti Science 293:668-672
Important Files
Taxon ID: 266834
Version of GenMAPP Builder: gmbuilder-2.0b71.zip
Computer on which export was run: Keck Lab Computer, back computer (furthest from the whiteboard)
Postgres Database name: Sinorhizobium meliloti
UniProt XML filename:Sinorhizobium meliloti 1021 mpetredi 2013115 UniProt XML.xml
- UniProt XML version (The version information can be found at the UniProt News Page):
- Time taken to import:19.17 minutes
GO OBO-XML filename: Go daily-termdb.obo-xml mpetredi 2013116.gz
- GO OBO-XML version (The version information can be found in the file properties after the file downloaded from the GO Download page has been unzipped):
- Time taken to import: 17.81 minutes
- Time taken to process: 15.54 minutes
GOA filename:R meliloti.goa (from 11/7/2013)
- GOA version (News on this page records past releases; current information can be found in the Last modified field on the FTP site):
- Time taken to import: 0.21 minutes
- Note about GOA file
- From Running GenMAPP Builder page, clicked on the UniProt-GOA Downloads link.
- Was given an error message. Changed url from "ftp" to "http" at beginning.
- Was entered, was taken to Index of/pub/database/GO/goa
- Clicked on "proteomes" folder
- Directed to Index of /pub/databases/GO/goa/proteomes. Downloaded 58.R_meliloti.goa
- Note: R. meliloti is an alternative name to S. Melitoti.
Name of .gdb file: Sinorhizobium_meliloti_1021_GenMAPP_database_mpetredi_2013117.gdb
- Time taken to export .gdb: Started at 2pm on 11-7-2013, finished at 9:47pm
- Upload your file and link to it here.
Note:
replace geneID with ~ when you find MOD link
