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Sample GSM1399354 Query DataSets for GSM1399354
Status Public on May 28, 2014
Title case-2_cNF DNA
Sample type genomic
 
Channel 1
Source name cutaneous neurofibroma
Organism Homo sapiens
Characteristics tissue: cutaneous neurofibroma
gender: F
age: 46
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 0.001215746
2 -0.36314505
3 -0.23840004
4 -0.18873224
5 -0.37445977
6 0.436477
7 0.420456
8 -0.03400624
9 -0.023767615
10 -0.05418598
11 0.016585568
12 -0.30634478
13 -0.38361558
14 0.07358054
15 -0.42239153
16 0.68241423
17 0.64722306
18 -0.27829662
19 -0.1945864
20 -0.21898042

Total number of rows: 409881

Table truncated, full table size 7277 Kbytes.




Supplementary file Size Download File type/resource
GSM1399354_cNF-2.txt.gz 117.6 Mb (ftp)(http) TXT
Processed data included within Sample table

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