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Sample GSM175760 Query DataSets for GSM175760
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate A263-3
Sample type genomic
 
Channel 1
Source name menA 263
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) software
GACK (Genomotyping Analysis by Charlie Kim, Genome Biology 2002)
 
Submission date Mar 19, 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 59800 17940 0 0 0
2 0.303648687 84864 30576 12483744 15408211 1.234262013
3 -0.167171143 87984 31200 12085008 10762754 0.890587247
4 -0.643396225 100956 35084 16425756 10515836 0.640204079
5 -0.47510869 97376 32220 18797864 13523420 0.719412589
6 -1.913590252 80496 25584 5712720 1516334 0.265431178
7 -0.017385429 108808 37352 11955076 11811874 0.988021657
8 0.21558413 98092 35800 13331204 15479847 1.161173964
9 0.230841288 82368 30576 6703632 7866840 1.173519071
10 0.065665138 94224 34320 9615216 10062971 1.046567337
11 0.411706236 83160 28080 6292620 8370809 1.330258144
12 58420 20240 0 0 0
13 0.097405651 103124 38164 7778148 8321435 1.069847861
14 0.055458689 114000 44688 8183376 8504078 1.039189449
15 0.229586 115824 44688 16890240 19803780 1.172498437
16 -0.121038053 128592 51072 18452496 16967546 0.919525792
17 0.027078055 111244 43848 12160512 12390909 1.018946324
18 -0.026801363 124032 44688 17381808 17061882 0.981594205
325 0.191827847 128500 46260 15584480 17800748 1.142209942
326 0.937405792 102312 36540 9565360 18318444 1.915081502

Total number of rows: 2592

Table truncated, full table size 122 Kbytes.




Supplementary data files not provided

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