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| Status |
Public on Dec 31, 2016 |
| Title |
Human Transcriptome Array 2.0 (HTA) in matched colorectal cancer and normal colonic mucosa |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
We analyzed, by HTA 2.0, colorectal adenocarcinoma samples and matched normal colonic tissues in order to determine the whole transcriptome expression levels. Three widely used colorectal cancer cell lines were also analyzed. Results provided insights into the regulation, at transcript level, of genes involved in copper homeostasis.
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| Overall design |
37 tumoral bioptic samples, deriving from 27 patients, were collected directly after surgical resection. The mean age was 66.61 years (SD 16.31) for 18 male patients and 68.67 (SD 15.63) for 9 female patients. In 9 patients, two samples were taken at arbitrary positions in the tumor area, separated by at least 1 cm (double-sampling pairs, indicated as tumoral sample 1 or 2). In one patient a sample from a synchronous colorectal adenocarcinoma was also collected (tumoral sample 3). In 19 cases biopsies of adjacent normal mucosa (at distance of 3-6 cm from the tumor) were also collected (matched tumor/mucosa pairs). 18 tumoral samples and 12 normal colonic mucosa samples were analyzed in duplicate arrays (indicated as array 1 or 2).
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| Contributor(s) |
Condorelli DF, Barresi V, Trovato A, Spampinato G, Valenti G, Musso N |
| Citation(s) |
30287863, 30563495, 30129075, 27516958, 31652751 |
| Submission date |
Sep 23, 2015 |
| Last update date |
Dec 09, 2019 |
| Contact name |
Daniele F Condorelli |
| E-mail(s) |
daniele.condorelli@unict.it
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| Organization name |
University of Catania
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| Department |
Biomedical and Biotechnological Sciences
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| Lab |
Medical Biochemistry
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| Street address |
Via S. Sofia 64
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| City |
Catania |
| State/province |
Italy |
| ZIP/Postal code |
95125 |
| Country |
Italy |
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| Platforms (1) |
| GPL17586 |
[HTA-2_0] Affymetrix Human Transcriptome Array 2.0 [transcript (gene) version] |
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| Samples (92)
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| GSM1891682 |
patient AA1, tumoral sample1, single array |
| GSM1891683 |
patient 11, tumoral sample1, single array |
| GSM1891684 |
patient 13, tumoral sample1, array 1 |
| GSM1891685 |
patient 13, tumoral sample1, array 2 |
| GSM1891686 |
patient 15, tumoral sample1, array 1 |
| GSM1891687 |
patient 15, tumoral sample1, array 2 |
| GSM1891688 |
patient 17, tumoral sample1, single array |
| GSM1891689 |
patient 19, tumoral sample1, single array |
| GSM1891690 |
patient 23, tumoral sample1, array 1 |
| GSM1891691 |
patient 23, tumoral sample1, array 2 |
| GSM1891692 |
patient 29, tumoral sample1, array 1 |
| GSM1891693 |
patient 29, tumoral sample1, array 2 |
| GSM1891694 |
patient 31, tumoral sample1, single array |
| GSM1891695 |
patient 37, tumoral sample1, single array |
| GSM1891696 |
patient 37, tumoral sample2, array 1 |
| GSM1891697 |
patient 37, tumoral sample2, array 2 |
| GSM1891698 |
patient 37, tumoral sample3, array 1 |
| GSM1891699 |
patient 37, tumoral sample3, array 2 |
| GSM1891700 |
patient 41, tumoral sample1, array 1 |
| GSM1891701 |
patient 41, tumoral sample1, array 2 |
| GSM1891702 |
patient 43, tumoral sample1, single array |
| GSM1891703 |
patient 47, tumoral sample1, array 1 |
| GSM1891704 |
patient 47, tumoral sample1, array 2 |
| GSM1891705 |
patient 49, tumoral sample1, array 1 |
| GSM1891706 |
patient 49, tumoral sample1, array 2 |
| GSM1891707 |
patient 59, tumoral sample2, array 1 |
| GSM1891708 |
patient 59, tumoral sample2, array 2 |
| GSM1891709 |
patient 63, tumoral sample1, array 1 |
| GSM1891710 |
patient 63, tumoral sample1, array 2 |
| GSM1891711 |
patient 65, tumoral sample1, array 1 |
| GSM1891712 |
patient 65, tumoral sample1, array 2 |
| GSM1891713 |
patient 65, tumoral sample2, array 1 |
| GSM1891714 |
patient 65, tumoral sample2, array 2 |
| GSM1891715 |
patient 69, tumoral sample1, single array 1 |
| GSM1891716 |
patient 69, tumoral sample2, single array 2 |
| GSM1891717 |
patient 71, tumoral sample1, single array |
| GSM1891718 |
patient 71, tumoral sample2, single array |
| GSM1891719 |
patient 73, tumoral sample1, single array |
| GSM1891720 |
patient 75, tumoral sample1, array 1 |
| GSM1891721 |
patient 75, tumoral sample1, array 2 |
| GSM1891722 |
patient 75, tumoral sample2, array 1 |
| GSM1891723 |
patient 75, tumoral sample2, array 2 |
| GSM1891724 |
patient 77, tumoral sample1, single array |
| GSM1891725 |
patient 77, tumoral sample2, single array |
| GSM1891726 |
patient 79, tumoral sample1, single array |
| GSM1891727 |
patient 79, tumoral sample2, single array |
| GSM1891728 |
patient 85, tumoral sample1, array 1 |
| GSM1891729 |
patient 85, tumoral sample1, array 2 |
| GSM1891730 |
patient 85, tumoral sample2, array 1 |
| GSM1891731 |
patient 85, tumoral sample2, array 2 |
| GSM1891732 |
patient 91, tumoral sample1, single array |
| GSM1891733 |
patient 93, tumoral sample1, single array |
| GSM1891734 |
patient 93, tumoral sample2, single array |
| GSM1891735 |
patient 97, tumoral sample2, array 1 |
| GSM1891736 |
patient 97, tumoral sample2, array 2 |
| GSM1891737 |
patient AA1, normal colonic mucosa, single array |
| GSM1891738 |
patient 13, normal colonic mucosa, array 1 |
| GSM1891739 |
patient 13, normal colonic mucosa, array 2 |
| GSM1891740 |
patient 19, normal colonic mucosa, array 1 |
| GSM1891741 |
patient 19, normal colonic mucosa, array 2 |
| GSM1891742 |
patient 31, normal colonic mucosa, single array |
| GSM1891743 |
patient 37, normal colonic mucosa, array 1 |
| GSM1891744 |
patient 37, normal colonic mucosa, array 2 |
| GSM1891745 |
patient 43, normal colonic mucosa, single array |
| GSM1891746 |
patient 47, normal colonic mucosa, array 1 |
| GSM1891747 |
patient 47, normal colonic mucosa, array 2 |
| GSM1891748 |
patient 49, normal colonic mucosa, array 1 |
| GSM1891749 |
patient 49, normal colonic mucosa, array 2 |
| GSM1891750 |
patient 59, normal colonic mucosa, array 1 |
| GSM1891751 |
patient 59, normal colonic mucosa, array 2 |
| GSM1891752 |
patient 63, normal colonic mucosa, array 1 |
| GSM1891753 |
patient 63, normal colonic mucosa, array 2 |
| GSM1891754 |
patient 65, normal colonic mucosa, array 1 |
| GSM1891755 |
patient 65,normal colonic mucosa, array 2 |
| GSM1891756 |
patient 71, normal sample, single array |
| GSM1891757 |
patient 73, normal sample, array 1 |
| GSM1891758 |
patient 73, normal sample, array 2 |
| GSM1891759 |
patient 75, normal sample, array 1 |
| GSM1891760 |
patient 75, normal sample, array 2 |
| GSM1891761 |
patient 77, normal sample, single array |
| GSM1891762 |
patient 79, normal sample, single array |
| GSM1891763 |
patient 91, normal sample, single array |
| GSM1891764 |
patient 93, normal sample, array 1 |
| GSM1891765 |
patient 93, normal sample, array 2 |
| GSM1891766 |
patient 97, normal sample, array 1 |
| GSM1891767 |
patient 97, normal sample, array 2 |
| GSM1891768 |
Caco-2 colorectal adenocarcinoma cell line, array 1 |
| GSM1891769 |
Caco-2 colorectal adenocarcinoma cell line, array 2 |
| GSM1891770 |
HT29 colorectal adenocarcinoma cell line, array 1 |
| GSM1891771 |
HT29 colorectal adenocarcinoma cell line, array 2 |
| GSM1891772 |
HCT116 colorectal adenocarcinoma cell line, array 1 |
| GSM1891773 |
HCT116 colorectal adenocarcinoma cell line, array 2 |
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| Relations |
| BioProject |
PRJNA296793 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE73360_RAW.tar |
2.0 Gb |
(http)(custom) |
TAR (of CEL, CHP) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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