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Sample GSM1399365 Query DataSets for GSM1399365
Status Public on May 28, 2014
Title case-4_Germline DNA
Sample type genomic
 
Channel 1
Source name peripheral blood
Organism Homo sapiens
Characteristics tissue: peripheral blood
gender: F
age: 33
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was obtained using proteinase K/RNAse treatment and phenol-chloroform extraction according to standard procedures.
Label Cy3
Label protocol Patient’s DNA and reference DNA samples were labeled by random priming with either, Cy3-dUTP or Cy5-dUTP using the Agilent Genomic DNA Labeling Kit PLUS
 
Channel 2
Source name pooled healthy donor
Organism Homo sapiens
Characteristics gender: M
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was obtained using proteinase K/RNAse treatment and phenol-chloroform extraction according to standard procedures.
Label Cy5
Label protocol Patient’s DNA and reference DNA samples were labeled by random priming with either, Cy3-dUTP or Cy5-dUTP using the Agilent Genomic DNA Labeling Kit PLUS
 
 
Hybridization protocol Microarrays were hybridized using the Sure Hyb chamber in a rotisserie oven at 65°C for 40 h.
Scan protocol Scanned on an Agilent G2565AA scanner. Images were quantified using Agilent Feature Extraction Software (version11.0.1.1).
Data processing Analysis and visualization were performed with DNA Analytics software (version 4.081, Agilent)
 
Submission date May 27, 2014
Last update date May 28, 2014
Contact name Akinobu Ota
E-mail(s) aota@aichi-med-u.ac.jp
Organization name Aichi Medical University School of Medicine
Department Biochemistry
Street address 1-1 Yazakokarimata
City nagakute
State/province Aichi
ZIP/Postal code 4801195
Country Japan
 
Platform ID GPL9777
Series (1)
GSE58000 Array CGH of cutaneous neurofibromas (cNFs) from NF1 patients

Data table header descriptions
ID_REF
VALUE normalized log2 ratio (Cy3/Cy5) representing sample/reference.

Data table
ID_REF VALUE
1 0.0341569
2 -0.21399328
3 0.17200246
4 -0.39378044
5 0.08802086
6 -0.28790626
7 -0.3723388
8 -0.51223516
9 -0.33879822
10 -0.056023624
11 -0.06978794
12 -0.12165375
13 0.22783023
14 0.029975584
15 0.29792568
16 -0.5534951
17 -2.1942227
18 0.21555187
19 0.22482304
20 -0.17317313

Total number of rows: 409881

Table truncated, full table size 7307 Kbytes.




Supplementary file Size Download File type/resource
GSM1399365_germ-4.txt.gz 116.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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