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Sample GSM1869449 Query DataSets for GSM1869449
Status Public on Sep 08, 2015
Title 557
Sample type genomic
 
Channel 1
Source name Normal colon from donnor 557
Organism Homo sapiens
Characteristics cell type: Normal colon
Growth protocol Three colorectal tumors and their paired non-adjacent normal colonic mucosa were used in this analysis. Samples were obtained from the Hospital Universitari de Bellvitge (Barcelona, Spain) following a protocol approved by the Ethics Committee. Human colon cancer cell lines were obtained from the American Type Culture Collection (ATCC, Manassas, VA), except DKO, generously provided by B. Vogelstein. All cell lines were grown in DMEM:F12 medium plus 10% heat-inactivated FBS, L-glutamine and pyruvate (Invitrogen)
Extracted molecule genomic DNA
Extraction protocol Genomic DNA
Label Cy5
Label protocol Manufacturer's instructions
 
Channel 2
Source name Matched colon primary tumor
Organism Homo sapiens
Characteristics sample type: Matched colon primary tumor
tissue: Matched colon primary tumor
Growth protocol Three colorectal tumors and their paired non-adjacent normal colonic mucosa were used in this analysis. Samples were obtained from the Hospital Universitari de Bellvitge (Barcelona, Spain) following a protocol approved by the Ethics Committee. Human colon cancer cell lines were obtained from the American Type Culture Collection (ATCC, Manassas, VA), except DKO, generously provided by B. Vogelstein. All cell lines were grown in DMEM:F12 medium plus 10% heat-inactivated FBS, L-glutamine and pyruvate (Invitrogen)
Extracted molecule genomic DNA
Extraction protocol Genomic DNA
Label Cy3
Label protocol Manufacturer's instructions
 
 
Hybridization protocol Manufacturer's instructions
Scan protocol Manufacturer's instructions
Data processing Manufacturer's instructions. Nsuma_cgh.txt: Agilent SurePrint G3 Custom CGH+SNP 2x400K (G4883A) results.
 
Submission date Sep 04, 2015
Last update date Sep 08, 2015
Contact name Miguel A. Peinado
E-mail(s) mpeinado@igtp.cat
Organization name IGTP
Street address Can Ruti Campus
City Badalona
ZIP/Postal code 08916
Country Spain
 
Platform ID GPL9777
Series (2)
GSE72750 The methylome of Alu repeats in colon cancer (CGH)
GSE72751 The methylome of Alu repeats in colon cancer

Data table header descriptions
ID_REF
VALUE Agilent default log2 ratio treatment/reference

Data table
ID_REF VALUE
4 -0.034868212
5 0.292543835
6 -0.10948353
7 -0.034600621
8 0.399811706
9 -0.39093455
10 -0.195839973
11 -0.313222057
12 0.620368123
13 -1.077600133
14 0.309494655
15 0.286460286
16 0.504410205
17 -0.301665198
18 -0.024305913
19 0.347991271
20 0.114712031
21 1.140316301
22 -0.271522283
23 0.019937248

Total number of rows: 420285

Table truncated, full table size 7812 Kbytes.




Supplementary file Size Download File type/resource
GSM1869449_03_IG_1100252185016872_Cy5_557N_Cy3_557T_1_1.txt.gz 116.9 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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