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Series GSE82228 Query DataSets for GSE82228
Status Public on Aug 21, 2018
Title Chromosomal aberrations associated with sequential steps of the metastatic cascade in colorectal cancer patients
Organism Homo sapiens
Experiment type Genome variation profiling by SNP array
SNP genotyping by SNP array
Summary Genomic profiling of primary colorectal carcinomas was performed in relation to the spread of CTCs in peripheral and hepatic venous blood,
liver metastases, and distant metastases beyond the liver, with the intent to identify specific patterns for the different stages of metastatic spread.
 
Overall design DNA from primary colorectal tumors was processed according to manufacturers’ protocol (Infinium Assay, Illumina) and hybridized to Illumina Human 610-quad bead-chip, containing 610,000 probes covering the whole genome. Spot intensities were measured using the Illumina Bead Array Reader. Log transformed intensity measurements were processed by circular binary segmentation (CBS) algorithm (Matlab R2015a, The MathWorks) to identify chromosomal aberrations.
 
Contributor(s) Joosse SA
Citation(s) 30030273
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
 
Platforms (1)
GPL8887 Illumina Human610-Quad v1.0 BeadChip
Samples (53)
GSM2186832 CRC02_A
GSM2186833 CRC03_A
GSM2186834 CRC06_A
Relations
BioProject PRJNA324404

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE82228_RAW.tar 1.0 Gb (http)(custom) TAR (of IDAT, TXT)
Processed data provided as supplementary file

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