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Sample GSM176643 Query DataSets for GSM176643
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate A412-2
Sample type genomic
 
Channel 1
Source name menA 412
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 64860 19320 0 0 0
2 0.437272535 79380 23220 9153540 12394278 1.354042043
3 -0.04477486 91728 28080 12705264 12317005 0.969441092
4 -0.033809222 94848 29952 13208832 12902885 0.976837695
5 -0.434431859 108116 33652 18333896 13566810 0.739985107
6 1.547359767 69460 22540 1578260 4612966 2.922817533
7 0.089606119 83700 28080 8710740 9268921 1.06407963
8 0.124273047 74520 26220 6511300 7097046 1.08995838
9 0.147551891 78660 28980 4217740 4671941 1.107688241
10 0.297081357 77280 29900 7185200 8828141 1.228656266
11 0.034405951 78660 30360 5608320 5743677 1.024135035
12 80040 30820 0 0 0
13 0.209803772 158688 70224 9525840 11016928 1.156530868
14 0.32059457 160512 76608 9882432 12341627 1.248845122
15 0.222373504 153216 67488 17649936 20591322 1.166651369
16 0.05264178 132356 51968 16503088 17116382 1.037162378
17 0.122926549 96720 33696 12256608 13346730 1.088941573
18 -0.067705281 79380 26460 13116060 12514747 0.954154449
325 0.169955811 84780 30780 8761500 9856898 1.125024026
326 1.025519603 137712 49248 11830464 24083186 2.035692429

Total number of rows: 2592

Table truncated, full table size 121 Kbytes.




Supplementary data files not provided

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