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GEO accession:
Sample GSM1003269
Query DataSets for GSM1003269
Status
Public on Oct 18, 2013
Title
2457T_broth
Sample type
RNA
Source name
broth growth
Organism
Shigella flexneri 2a str. 2457T
Characteristics
genotype/variation: wild type
Growth protocol
bacteria grown in LB
Extracted molecule
total RNA
Extraction protocol
phenol/chlorofom followed by LiCl precipitation
Label
biotin
Label protocol
All protocols were done according to manufacturer's specifications:
http://www.affymetrix.com/support/technical/manual/expression_manual.affx
Hybridization protocol
All protocols were done according to manufacturer's specifications:
http://www.affymetrix.com/support/technical/manual/expression_manual.affx
Scan protocol
All protocols were done according to manufacturer's specifications:
http://www.affymetrix.com/support/technical/manual/expression_manual.affx
Description
SAMPLE1
Data processing
Data has not been processed other than those protocols within GCOSv1.4
Submission date
Sep 13, 2012
Last update date
Oct 18, 2013
Contact name
David A Rasko
E-mail(s)
[email protected]
Phone
410 706 6774
Organization name
University of Maryland School of Medicine
Department
Istitute for Genome Sciences/Microbiology and Immunology
Street address
801 W. Baltimore Street, Room 619
City
Baltimore
State/province
MD
ZIP/Postal code
21201
Country
USA
Platform ID
GPL13175
Series (1)
GSE40851
Expression data from wild type and deltaS4473 Shigella flexneri 2457T
Data table header descriptions
ID_REF
VALUE
ExpressionStat 5.0
ABS_CALL
indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE
Data table
ID_REF
VALUE
ABS_CALL
DETECTION P-VALUE
AFFX-BioB-5_at
22.9464
P
0.00227496
AFFX-BioB-M_at
31.0203
P
5.16732e-05
AFFX-BioB-3_at
12.95
A
0.205732
AFFX-BioC-5_at
12.7777
P
0.0138105
AFFX-BioC-3_at
8.69042
P
0.0138105
AFFX-BioDn-5_at
3.89661
A
0.327079
AFFX-BioDn-3_at
23.9643
P
0.000340305
AFFX-CreX-5_at
0.489689
A
0.51489
AFFX-CreX-3_at
0.214098
A
0.995983
AFFX-DapX-5_at
1348.23
P
4.42873e-05
AFFX-DapX-M_at
1453.55
P
4.42873e-05
AFFX-DapX-3_at
880.354
P
4.42873e-05
AFFX-LysX-5_at
178.071
P
4.42873e-05
AFFX-LysX-M_at
135.717
P
4.42873e-05
AFFX-LysX-3_at
115.128
P
4.42873e-05
AFFX-PheX-5_at
322.745
P
4.42873e-05
AFFX-PheX-M_at
202.703
P
4.42873e-05
AFFX-PheX-3_at
203.057
P
4.42873e-05
AFFX-ThrX-5_at
473.51
P
4.42873e-05
AFFX-ThrX-M_at
363.243
P
4.42873e-05
Total number of rows:
23163
Table truncated, full table size
720 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM1003269_2457T_broth.CEL.gz
2.1 Mb
(ftp)
(http)
CEL
GSM1003269_2457T_broth.CHP.gz
130.4 Kb
(ftp)
(http)
CHP
Processed data included within Sample table
Processed data provided as supplementary file
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