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Sample GSM175740 Query DataSets for GSM175740
Status Public on Oct 11, 2007
Title Neisseria meningitidis isolate 510603-2
Sample type genomic
 
Channel 1
Source name menC 510603
Organism Neisseria meningitidis
Characteristics Neisseria meningitidis Serogroup C 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 Ration of median (635/532)

Data table
ID_REF VALUE BkgA BkgB IA IB PRE_VALUE
1 47840 20240 0 0 0
2 0.495014009 77328 34368 10929740 15403659 1.40933444
3 -0.033121465 73008 33696 12566112 12280905 0.977303481
4 -0.093752065 100956 51552 17173260 16092761 0.937082476
5 -0.420655169 87360 43056 16917888 12639105 0.747085274
6 0.899853749 93796 46540 5092908 9502739 1.865876823
7 0.102373245 112056 61712 7502068 8053755 1.07353799
8 0.369822126 87360 50544 12332112 15935475 1.292193503
9 0.211530286 107184 60900 12862080 14893205 1.157915749
10 0.268651044 107616 57456 18431520 22204100 1.204680894
11 0.172338647 102144 51984 12384048 13955382 1.126883714
12 50140 23460 0 0 0
13 0.315438735 99408 48336 10296480 12812837 1.244390025
14 0.44020244 91756 47096 8206072 11133955 1.3567947
15 0.2828021 103968 53808 19036176 23158564 1.216555468
16 0.071426378 103968 53808 18436080 19371804 1.050755041
17 0.019137032 133168 70028 20498688 20772410 1.013353147
18 -0.032678398 105792 53808 22370448 21869432 0.977603667
19 0.375248362 90132 41412 14860412 19274888 1.297062827
20 -0.110405681 92568 47096 18743396 17362524 0.926327545

Total number of rows: 2592

Table truncated, full table size 122 Kbytes.




Supplementary data files not provided

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