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Sample GSM176653 Query DataSets for GSM176653
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate B004-3
Sample type genomic
 
Channel 1
Source name menB 004
Organism Neisseria meningitidis
Characteristics Neisseria meningitidis Serogroup B 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 42320 15180 0 0 0
2 0.042964199 49140 18360 7538940 7766830 1.030228388
3 -0.171440508 42320 15640 4593100 4078469 0.887955629
4 -0.212203263 50220 18360 6291000 5430504 0.86321793
5 -0.409789395 43240 15640 5785420 4354878 0.75273325
6 1.94870627 42780 16100 1045120 4034458 3.860282073
7 0.093664782 42320 16560 3468860 3701542 1.067077368
8 0.106527714 42320 16560 3859860 4155656 1.076633868
9 0.163239197 43240 16100 3321660 3719590 1.119798534
10 0.089690022 50760 19440 4451220 4736728 1.064141516
11 0.100002177 43240 16100 3421480 3667057 1.07177508
12 43240 16100 0 0 0
13 0.024757761 95604 37008 6591536 6705628 1.017308864
14 0.194148099 57408 22464 4343040 4968648 1.144048408
15 0.060108246 68020 25776 9082460 9468864 1.04254398
16 -0.063891502 44620 17480 5790480 5539637 0.956680103
17 0.040173467 52380 19440 5701860 5862866 1.028237452
18 -0.013932373 46000 16560 6023700 5965808 0.990389296
325 0.185865208 61152 23712 6825936 7764495 1.137498945
326 0.936733871 70168 27208 6325144 12107526 1.91418978

Total number of rows: 2592

Table truncated, full table size 120 Kbytes.




Supplementary data files not provided

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