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Sample GSM176650 Query DataSets for GSM176650
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate A472-3
Sample type genomic
 
Channel 1
Source name menA 472
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 31740 16100 0 0 0
2 -0.176078289 43056 22464 6827808 6043332 0.885105732
3 0.056985408 28616 14504 2014880 2096059 1.040289744
4 -0.102532723 28224 14896 3573080 3327954 0.931396442
5 -0.303342367 25480 14112 3179512 2576590 0.810372787
6 1.722055474 28060 17480 726340 2396240 3.299061046
7 0.130591783 30780 19980 2494800 2731164 1.094742665
8 0.202090083 25760 17020 2972060 3418950 1.150363721
9 0.163956416 31860 20520 2599560 2912431 1.120355368
10 0.229817177 27140 17480 2751260 3226365 1.172686333
11 0.319534781 27140 17480 2108180 2630857 1.247928071
12 25760 16560 0 0 0
13 0.221745242 50160 31920 4418640 5152768 1.166143429
14 0.309431778 29700 19980 2637360 3268268 1.239219523
15 0.171791919 29700 19980 5397300 6079825 1.126456747
16 0.07088877 30780 20520 5608440 5890901 1.050363559
17 0.125681092 26220 17480 3550280 3873436 1.09102268
18 -0.007796764 26220 17020 3984060 3962587 0.994610272
325 -0.163990165 40096 26492 6139700 5480008 0.892553056
326 0.523302896 40096 26492 5425132 7797227 1.437241896

Total number of rows: 2592

Table truncated, full table size 119 Kbytes.




Supplementary data files not provided

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