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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)
[email protected] 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
GSM105441 ,
GSM105442 ,
GSM105443 ,
GSM147095 ,
GSM147096 ,
GSM147097 ,
GSM147098 ,
GSM303562 ,
GSM303563 ,
GSM303564 ,
GSM303565 ,
GSM303566 ,
GSM303567 ,
GSM303568 ,
GSM303569 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
4608 214 Kbytes .Supplementary data files not provided
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