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Platform GPL8904 Query DataSets for GPL8904
Status Public on Jul 24, 2009
Title cGRASP Salmonid array, 32K cDNA, version 1, February 2009
Technology type spotted DNA/cDNA
Distribution non-commercial
Organisms Oncorhynchus mykiss; Salmo salar
Manufacturer Consortium for Genomic Research on All Salmon Project
Manufacture protocol Details on the manufacture and testing of the 32k v. 1.0 array may be found on the cGRASP website: http://web.uvic.ca/grasp/
 
Description 32k Salmonid cDNA microarray from cGRASP including features primarily from Atlantic salmon and rainbow trout.
 
Submission date Jul 22, 2009
Last update date Jul 24, 2009
Contact name Shaorong Li
E-mail(s) Shaorong.Li@dfo-mpo.gc.ca
Organization name Fisheries and Oceans Canada
Department Salmon and Freshwater Ecosystems Division
Lab Molecular Genetics Lab
Street address 3190 Hammond Bay Road
City Nanaimo
State/province British Columbia
ZIP/Postal code V9T 6N7
Country Canada
 
Samples (134) GSM489675, GSM489676, GSM489677, GSM489678, GSM489679, GSM489680 
Series (5)
GSE19630 Genetic markers of the immune response of Atlantic salmon (Salmo salar) to Infectious Salmon Anemia Virus (ISAV)
GSE22179 Pacific salmon gill samples
GSE22347 Pacific salmon gill samples: fate tracking at spawning grounds

Data table header descriptions
ID
%meta row Imagene meta row designation from cGRASP gene ID file
meta col Imagene meta column designation from cGRASP gene ID file
row Imagene row designation from cGRASP gene ID file
col Imagene column designation from cGRASP gene ID file
GB_ACC GenBank Accession Number
description Gene ID annotation (Detailed method for assigning putative IDs is on the cGRASP website: http://web.uvic.ca/grasp/)
sp significant Blast hit from Swiss-Prot (SP) (May 2008 version), the highest bit score was chosen. If there were multiple hits with the same best bit score, the lowest-numbered, i.e. earliest, hit was chosen.
go significant Blast hit from the Gene Ontology (GO) database (May 2008 version), the highest bit score was chosen. If there were multiple hits with the same best bit score, the lowest-numbered, i.e. earliest, hit was chosen.
nr significant Blast hit from Genbank's non-redundant protein (NR) database (May 2008 version), for the genes with no sp or go hit
cdd significant Blast hit from Genbank's conserved domain database (CDD) (May 2008 version), for the genes with no sp or go or nr hit
nt significant Blast hit form Genbank's non-redundant nucleotide (NT) database (May 2008 version) for the genes with no sp or go or NR or CDD hit
gene cGRASP gene's common name
molecular_function one of the three categories of biological information for Gene Ontology (GO) term
biological_process one of the three categories of biological information for Gene Ontology (GO) term
cellular_component one of the three categories of biological information for Gene Ontology (GO) term
org Organism on the array
SEQUENCE expressed sequence tags (ESTs) sequences from the clones
contig sequences for contigs which were assembled with a large set of expressed ESTs using Phrap
SPOT_ID

Data table
ID %meta row meta col row col GB_ACC description sp go nr cdd nt gene molecular_function biological_process cellular_component org SEQUENCE contig SPOT_ID
29487 11 3 1 3 AF159801 A. thaliana lipid transfer protein 4 (527 bp) (LTP4) control
29571 11 3 4 6 AF159801 A. thaliana lipid transfer protein 4 (527 bp) (LTP4) control
29589 11 3 4 24 AF159801 A. thaliana lipid transfer protein 4 (527 bp) (LTP4) control
29827 11 3 13 19 AF159801 A. thaliana lipid transfer protein 4 (527 bp) (LTP4) control
30071 11 3 22 20 AF159801 A. thaliana lipid transfer protein 4 (527 bp) (LTP4) control
26679 10 3 1 3 AF159803 A. thaliana lipid transfer protein 6 (477 bp) (LTP6) control
26763 10 3 4 6 AF159803 A. thaliana lipid transfer protein 6 (477 bp) (LTP6) control
26781 10 3 4 24 AF159803 A. thaliana lipid transfer protein 6 (477 bp) (LTP6) control
27019 10 3 13 19 AF159803 A. thaliana lipid transfer protein 6 (477 bp) (LTP6) control
27263 10 3 22 20 AF159803 A. thaliana lipid transfer protein 6 (477 bp) (LTP6) control
21063 8 3 1 3 AF168390 A. thaliana root cap 1 (533 bp) (RCP1) control
21147 8 3 4 6 AF168390 A. thaliana root cap 1 (533 bp) (RCP1) control
21165 8 3 4 24 AF168390 A. thaliana root cap 1 (533 bp) (RCP1) control
21403 8 3 13 19 AF168390 A. thaliana root cap 1 (533 bp) (RCP1) control
21647 8 3 22 20 AF168390 A. thaliana root cap 1 (533 bp) (RCP1) control
23871 9 3 1 3 AF191028 A. thaliana papain-type cysteine endopeptidase (507 bp) (XCP2) control
23955 9 3 4 6 AF191028 A. thaliana papain-type cysteine endopeptidase (507 bp) (XCP2) control
23973 9 3 4 24 AF191028 A. thaliana papain-type cysteine endopeptidase (507 bp) (XCP2) control
24211 9 3 13 19 AF191028 A. thaliana papain-type cysteine endopeptidase (507 bp) (XCP2) control
24455 9 3 22 20 AF191028 A. thaliana papain-type cysteine endopeptidase (507 bp) (XCP2) control

Total number of rows: 33696

Table truncated, full table size 71014 Kbytes.




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