|
Status |
Public on Aug 31, 2012 |
Title |
Human Colon Tumor Tissue 58 |
Sample type |
genomic |
|
|
Channel 1 |
Source name |
Human Colon Tumor Tissue 58
|
Organism |
Homo sapiens |
Characteristics |
gender: M age (y): 79 braf/kras mutation: KRAS tumor location: rectum tissue: colon tumor pathology: TV-ad potion cimp: CIMP-H
|
Growth protocol |
A total of 84 colorectal tumor specimens were obtained from endoscopic biopsy.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA was extracted from fresh frozen tissue specimens using the standard phenol-chloroform procedure.
|
Label |
Cy5
|
Label protocol |
Five hundred nanograms of genomic DNA was labeled using a Genomic DNA Enzymatic Labeling Kit (Agilent technologies) according to manufacturer's instruction. Tumor DNA was labeled with Cy5 and gender-matched reference DNA (Promega) was labeled with Cy3.
|
|
|
Channel 2 |
Source name |
Human Genomic DNA (Promega)
|
Organism |
Homo sapiens |
Characteristics |
sample type: Human Genomic DNA (Promega)
|
Growth protocol |
A total of 84 colorectal tumor specimens were obtained from endoscopic biopsy.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA was extracted from fresh frozen tissue specimens using the standard phenol-chloroform procedure.
|
Label |
Cy3
|
Label protocol |
Five hundred nanograms of genomic DNA was labeled using a Genomic DNA Enzymatic Labeling Kit (Agilent technologies) according to manufacturer's instruction. Tumor DNA was labeled with Cy5 and gender-matched reference DNA (Promega) was labeled with Cy3.
|
|
|
|
Hybridization protocol |
Hybridization was performed using an aCGH/ChIP-on-chip Hybridization Kit (Agilent technologies) according to manufacturer's instruction.
|
Scan protocol |
Array was scanned with an Agilent G2565BA Microarray Scanner.
|
Data processing |
Agilent Feature Extraction Software (v 9.5) was used for background subtraction and LOWESS normalization.
|
|
|
Submission date |
Feb 01, 2012 |
Last update date |
Aug 31, 2012 |
Contact name |
Eiichiro Yamamoto |
E-mail(s) |
eiichiro@xa3.so-net.ne.jp
|
Phone |
+81-11-611-2111
|
Organization name |
Sapporo medical university
|
Street address |
South-1, West-16, Chuo-ku
|
City |
Sapporo |
ZIP/Postal code |
060-8543 |
Country |
Japan |
|
|
Platform ID |
GPL10123 |
Series (2) |
GSE35476 |
Array CGH analysis of human colorectal tumors |
GSE35534 |
Genome-wide copy number aberrations and methylation profiles in human colorectal lesions |
|