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Sample GSM176629 Query DataSets for GSM176629
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate A307-3
Sample type genomic
 
Channel 1
Source name menA 307
Organism Neisseria meningitidis
Characteristics Neisseria meningitidis Serogroup A isolate
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted by using Wizard Genomic DNA Purification Kit (Promega)
Label Cy5
Label protocol Genomic DNA was fluorescently labeled by random priming with the Klenow fragment
 
Channel 2
Source name menC 053442
Organism Neisseria meningitidis
Characteristics Neisseria meningitidis Serogroup C isolate (ST4821)
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted by using Wizard Genomic DNA Purification Kit (Promega)
Label Cy3
Label protocol Genomic DNA was fluorescently labeled by random priming with the Klenow fragment
 
 
Hybridization protocol samples were hybridized overnight at 65°C
Scan protocol The processed slides were scanned with a GenePix 4000B
scanner (Axon). Fluorescent spots and the local background
intensities were quantified with GenePix Pro 5.0 software (Axon).
Description CGH
Data processing MIDAS (TIGR)
GACK (Genomotyping Analysis by Charlie Kim, Genome Biology 2002)
 
Submission date Mar 20, 2007
Last update date Oct 10, 2007
Contact name Junping Peng
E-mail(s) pengjp@gmail.com
Organization name Chinese center for disease control and prevention
Lab State key lab for molecular virology and genetic engineering
Street address No 6, Rongjing Eastern Street, BDA
City Beijing
ZIP/Postal code 100176
Country China
 
Platform ID GPL5011
Series (1)
GSE7331 CGH result of Neisseria meningitidis ST-7 isolates

Data table header descriptions
ID_REF
VALUE log2 of PRE_VALUE
BkgA B532 Median
BkgB B635 Median
IA F532 Median
IB F635 Median
PRE_VALUE Ratio of median (635/532)

Data table
ID_REF VALUE BkgA BkgB IA IB PRE_VALUE
1 42780 16100 0 0 0
2 0.263469713 36064 14896 7955640 9549649 1.200362133
3 -0.355116951 43240 17940 8886740 6947709 0.781806264
4 -0.456692715 44160 17940 10290200 7498003 0.728654739
5 -0.670371681 43240 17940 11749780 7382913 0.628344786
6 1.813521485 42780 18860 2100360 7382749 3.514992192
7 -0.098410493 49680 21600 5313060 4962725 0.934061539
8 0.185222707 43240 18860 7009020 7969203 1.136992475
9 -0.009530137 42780 18400 7049040 7002629 0.993415983
10 0.205417386 42780 18400 7711900 8891974 1.153019878
11 -0.150137577 42320 17940 6310740 5687015 0.901164523
12 41860 17480 0 0 0
13 0.211495527 41400 17480 6353060 7356131 1.157887852
14 0.287566224 41860 18860 5446400 6647764 1.220579465
15 0.22958926 42780 19320 8789220 10305370 1.172501087
16 -0.057624178 49680 22140 10891800 10465333 0.960845131
17 0.097372619 41860 18400 5307020 5677574 1.069823366
18 -0.245606052 49140 21060 10635300 8970465 0.843461397
325 0.243738188 35280 16072 6476232 7668226 1.184056717
326 0.938508268 49680 21600 6967080 13352726 1.916545526

Total number of rows: 2592

Table truncated, full table size 119 Kbytes.




Supplementary data files not provided

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