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Sample GSM176639 Query DataSets for GSM176639
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate A362-1
Sample type genomic
 
Channel 1
Source name menA 362
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 67620 17480 0 0 0
2 -0.087565218 105252 29356 7749984 7293585 0.941109685
3 -0.228989235 103820 30072 5397924 4605684 0.853232465
4 -0.196374875 105968 30072 5948528 5191523 0.872740786
5 -0.359166504 106684 30072 5707236 4449446 0.779614861
6 1.669593433 64400 18860 1068120 3397956 3.181249298
7 0.40496627 72360 22140 2977560 3942462 1.324057953
8 0.597530579 63940 19320 2521720 3815676 1.513124375
9 0.629688068 63020 20240 1734200 2683207 1.547230423
10 0.513001367 61640 19320 2881900 4112517 1.427015858
11 0.49619936 71820 22140 2749680 3878404 1.410492857
12 61640 18860 0 0 0
13 0.324326326 138780 44204 3325580 4163891 1.252079637
14 0.093975739 140836 48316 5086544 5428906 1.06730739
15 -0.183545169 126768 47424 8186112 7208171 0.880536572
16 -0.132057302 129504 47424 7564128 6902488 0.912529243
17 0.198749704 87360 29952 6372912 7314212 1.147703279
18 -0.067042794 72360 24840 5307120 5066138 0.954592698
325 0.12186844 90216 30788 6937324 7548802 1.088143209
326 0.524890876 88784 32220 6470492 9309904 1.438824745

Total number of rows: 2592

Table truncated, full table size 121 Kbytes.




Supplementary data files not provided

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