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Sample GSM176632 Query DataSets for GSM176632
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate A315-3
Sample type genomic
 
Channel 1
Source name menA 315
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 46000 20240 0 0 0
2 0.068748902 47380 23000 11771400 12345924 1.048806769
3 -0.302208646 40376 20384 7203000 5841704 0.811009857
4 -0.168742894 48300 23000 10072160 8960370 0.88961752
5 -0.39188142 41160 19600 9289616 7079942 0.762135055
6 1.945626171 48300 24380 1131600 4358979 3.852049311
7 0.043291718 48300 24380 5488260 5655445 1.030462296
8 0.056449767 50600 26680 7971340 8289425 1.03990358
9 0.078714009 43120 22736 5043864 5326705 1.056076254
10 0.125313302 50140 24840 7519160 8201483 1.090744578
11 0.112330475 41552 21168 4735752 5119220 1.08097299
12 48300 23460 0 0 0
13 0.159900428 48760 23460 4975820 5559036 1.117210028
14 0.281653421 50140 25300 4434400 5390400 1.215587227
15 0.076049969 48300 24380 7435440 7837905 1.054127933
16 -0.202884908 46000 23460 7838400 6810092 0.868811492
17 -0.073492968 46460 22540 5291380 5028580 0.950334317
18 -0.381552085 46460 22080 6258300 4803942 0.767611332
325 0.379622542 88508 34916 12725664 16556107 1.301001425
326 1.116541334 63024 28080 8022768 17395490 2.168265367

Total number of rows: 2592

Table truncated, full table size 119 Kbytes.




Supplementary data files not provided

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