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Platform GPL3648 Query DataSets for GPL3648
Status Public on Apr 13, 2006
Title AppChip1 (NRC-IBS Actinobacillus pleuropneumoniae L20)
Technology type spotted DNA/cDNA
Distribution non-commercial
Organism Actinobacillus pleuropneumoniae
Manufacturer NRC-IBS
Manufacture protocol Primers were synthesized at the Biotechnology Research Institute (BRI-NRC) in Montreal. ORF-specific amplicons were produced from 30 ng of genomic DNA template by standard PCR amplification methods. Amplicon quality was evaluated by agarose gel electrophoresis. Amplicons were purified, lyophilized, and sent to BRI-NRC for printing onto microarray slides.
 
Description PCR primers were designed for 2025 ORFs from a draft genomic sequence of Actinobacillus pleuropneumoniae L20 which comprised 2091 ORFs on 66 contigs. For AppChip1, all genes are spotted in duplicate on the microarray and sheared total genomic DNA from A. pleuropneumoniae L20 and porcine DNA were spotted in the top row of each subarray as controls.
 
Web link http://ibs-isb.nrc-cnrc.gc.ca/glycobiology/appchips_e.html
Contributor(s) Findlay WA, Agnew B, Foote SJ, Nash JH
Submission date Apr 11, 2006
Last update date Jan 22, 2008
Contact name John H Nash
E-mail(s) John.Nash@gmail.com
Organization name National Research Council
Department Institute for Biological Sciences
Street address 100 Sussex Drive
City Ottawa
State/province Ontario
ZIP/Postal code K1A0R6
Country Canada
 
Samples (21) GSM105435, GSM105436, GSM105437, GSM105438, GSM105439, GSM105440 
Series (3)
GSE4674 Transcript profiling in A. pleuropneumoniae under iron restriction
GSE6366 Complementation
GSE12009 Transcript profiling in Actinobacillus pleuropneumoniae after adherence to, or planktonic growth over, SJPL cells.

Data table header descriptions
ID
ReporterID unique ID for Reporter (used internally)
ReporterName name of Reporter (usually OrfID from genome)
Description description (usually predicted gene product)
ArrayX Array column on chip
ArrayY Array row on chip
SpotX Spot column in subarray
SpotY Spot row in subarray
SPOT_ID
ORF

Data table
ID ReporterID ReporterName Description ArrayX ArrayY SpotX SpotY SPOT_ID ORF
1 apc1_0001 BLANK - 1 1 1 1 BLANK
2 apc1_0001 BLANK - 1 1 2 1 BLANK
3 apc1_0002 App_gDNA - 1 1 3 1 --App_gDNA
4 apc1_0002 App_gDNA - 1 1 4 1 --App_gDNA
5 apc1_0003 BLANK - 1 1 5 1 BLANK
6 apc1_0003 BLANK - 1 1 6 1 BLANK
7 apc1_0004 pig_gDNA - 1 1 7 1 --pig_gDNA
8 apc1_0004 pig_gDNA - 1 1 8 1 --pig_gDNA
9 apc1_0005 BLANK - 1 1 9 1 BLANK
10 apc1_0005 BLANK - 1 1 10 1 BLANK
11 apc1_0006 BLANK - 1 1 11 1 BLANK
12 apc1_0006 BLANK - 1 1 12 1 BLANK
13 apc1_0007 api90418 mrp 1 1 1 2 mrp mrp
14 apc1_0007 api90418 mrp 1 1 2 2 mrp mrp
15 apc1_0008 api91026 visC 1 1 3 2 visC visC
16 apc1_0008 api91026 visC 1 1 4 2 visC visC
17 apc1_0009 api90799 sodC 1 1 5 2 sodC sodC
18 apc1_0009 api90799 sodC 1 1 6 2 sodC sodC
19 apc1_0010 api91475 glpR 1 1 7 2 glpR glpR
20 apc1_0010 api91475 glpR 1 1 8 2 glpR glpR

Total number of rows: 4608

Table truncated, full table size 214 Kbytes.




Download family Format
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Supplementary data files not provided
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