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Sample GSM2186832 Query DataSets for GSM2186832
Status Public on Aug 21, 2018
Title CRC02_A
Sample type genomic
 
Source name Colorectal cancer
Organism Homo sapiens
Characteristics group: colorectal cancer
group: A
tnm: T3N0M0
Treatment protocol -
Growth protocol -
Extracted molecule genomic DNA
Extraction protocol 10 tissue sections of 10 μm were cut, scraped, and processed according to manufacturers’ protocol (DNA mini kit, QIAgen cat.no. 51304).
Label C-Bio and A-DNP
Label protocol processed according to manufacturer's protocol (Infinium Assay, Illumina)
 
Hybridization protocol hybridized to Illumina Human 610-quad bead-chip, containing 610,000 probes covering the whole genome
Scan protocol Spot intensities were measured using the Illumina Bead Array Reader
Description CRC02
Data processing Log transformed intensity measurements were processed by circular binary segmentation (CBS) algorithm (Matlab R2015a, The MathWorks) to identify chromosomal aberrations
Calling of copy number levels was performed as described in Joosse et al (2009, 2012)
 
Submission date Jun 03, 2016
Last update date Aug 21, 2018
Contact name Simon A Joosse
E-mail(s) s.joosse@in-silico.net
Organization name University Medical Center Hamburg-Eppendorf
Department Institute of Tumor Biology
Street address Martinistrasse 52
City Hamburg
ZIP/Postal code 20246
Country Germany
 
Platform ID GPL8887
Series (1)
GSE82228 Chromosomal aberrations associated with sequential steps of the metastatic cascade in colorectal cancer patients

Supplementary file Size Download File type/resource
GSM2186832_4552371039_R02C01_Grn.idat.gz 3.6 Mb (ftp)(http) IDAT
GSM2186832_4552371039_R02C01_Red.idat.gz 3.6 Mb (ftp)(http) IDAT
GSM2186832_CRC02.txt.gz 12.3 Mb (ftp)(http) TXT
Processed data provided as supplementary file

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