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Sample GSM176631 Query DataSets for GSM176631
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate A315-2
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 51060 19780 0 0 0
2 0.029536437 50600 20700 12995000 13263790 1.020684109
3 -0.353941173 43904 17640 7601664 5947874 0.782443686
4 -0.286901279 43904 18032 8953672 7338973 0.819660693
5 -0.539200325 44688 19208 9992472 6876342 0.688152241
6 1.918662684 44296 20776 1373176 5191600 3.780724394
7 -0.14567062 52900 24380 7575740 6848159 0.903959085
8 -0.053550373 52900 24380 9462660 9117861 0.963562148
9 -0.117274791 51980 22080 7580800 6988948 0.921927501
10 0.074078821 50600 21620 8485620 8932716 1.052688666
11 -0.109410394 50140 22080 6272560 5814455 0.926966821
12 50140 20700 0 0 0
13 0.024945629 58860 24840 8020080 8159961 1.017441347
14 0.166257234 50600 21620 5551280 6229333 1.122143542
15 0.10090837 50140 21160 9584560 10278947 1.072448501
16 -0.163334846 59400 25920 11530620 10296366 0.892958575
17 0.125049349 50140 21620 7257880 7915045 1.090545035
18 -0.102175654 50140 21620 9952100 9271645 0.931626993
325 0.266461922 99408 43776 17150160 20629144 1.202854317
326 0.813248536 59400 25920 8166960 14350685 1.75716362

Total number of rows: 2592

Table truncated, full table size 121 Kbytes.




Supplementary data files not provided

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