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Sample GSM2891568 Query DataSets for GSM2891568
Status Public on Dec 20, 2019
Title CRC ≥ 70 years. Sample 46
Sample type genomic
 
Channel 1
Source name Left colon
Organism Homo sapiens
Characteristics Sex: Male
age: 76
molecular classification: MSS y CIMP-Low/0
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using proteinase K digestion, phenol/chloroform extraction, Phase Lock Gel Light (Eppendorf AG, Hamburg, Germany), and ethanol precipitation.
Label Cy3
Label protocol One microgram of genomic DNA(gDNA) from each test and reference sample(Human Genomic DNA [Male G1471/FemaleG1521] from Promega Corporation, Madison, WI) was labeled using the NimbleGen Dual-C olor DNALabeling Kit.
 
Channel 2
Source name Human Genomic DNA [Male G1471/FemaleG1521] from Promega Corporation
Organism Homo sapiens
Characteristics sample type: reference
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using proteinase K digestion, phenol/chloroform extraction, Phase Lock Gel Light (Eppendorf AG, Hamburg, Germany), and ethanol precipitation.
Label Cy5
Label protocol One microgram of genomic DNA(gDNA) from each test and reference sample(Human Genomic DNA [Male G1471/FemaleG1521] from Promega Corporation, Madison, WI) was labeled using the NimbleGen Dual-C olor DNALabeling Kit.
 
 
Hybridization protocol Hybridization was carried out in a Roche NimbleGen Hybridisation Chamber (Roche NimbleGen, Inc.) for 48 h.
Scan protocol Slides were washed and scanned using a NimbleGenMS 200 Microarray Scanner (Roche NimbleGen, Inc.).
Data processing Array image files produced by the MS 200 Data Collection Software were imported into DEVA v1.2.1(Roche NimbleGen Inc.) for analysis. In addition,segmentation analysis was performed in all cases byusing circular binary segmentation (CBS) available in waviCGH software (http://wavi.bioinfo.cnio.es/).
 
Submission date Dec 15, 2017
Last update date Dec 20, 2019
Contact name Juan Luis Garcia
E-mail(s) [email protected]
Phone +34923294812
Organization name Centro de Investigación del Cáncer IBMCC-CIC
Lab Laboratorio 12
Street address Campus Miguel de Unamuno
City Salamanca
State/province Salamanca
ZIP/Postal code 37007
Country Spain
 
Platform ID GPL10197
Series (1)
GSE108166 Differential clinicopathological and molecular features within late-onset colorectal cancer according to tumor location

Data table header descriptions
ID_REF
VALUE Log2 Ratios

Data table
ID_REF VALUE
CHR01FS000037196 -0.023
CHR01FS000052308 -0.001
CHR01FS000357503 0.361
CHR01FS000443361 -0.023
CHR01FS000530358 -0.129
CHR01FS000547649 0.095
CHR01FS000560348 -0.589
CHR01FS000580411 0.128
CHR01FS000614850 -0.005
CHR01FS000722938 0.174
CHR01FS000750232 -0.063
CHR01FS000782679 -0.033
CHR01FS001018317 0.171
CHR01FS001069258 -0.107
CHR01FS001099612 -0.017
CHR01FS001314689 0.504
CHR01FS001315417 0.233
CHR01FS001400200 0.01
CHR01FS001457534 0.342
CHR01FS001489998 -0.911

Total number of rows: 134937

Table truncated, full table size 3069 Kbytes.




Supplementary file Size Download File type/resource
GSM2891568_532811A07_2012-05-15_09-34_Area1_532.alineada.pair.gz 2.6 Mb (ftp)(http) PAIR
GSM2891568_532811A07_2012-05-15_09-34_Area1_635.alineada.pair.gz 2.6 Mb (ftp)(http) PAIR
Processed data included within Sample table

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