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| Status |
Public on Jan 11, 2013 |
| Title |
Whole genome scanning of lung tumors and mucosal biopsies on Affymetrix NspI-250K platform |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by SNP array
SNP genotyping by SNP array
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| Summary |
Matched normal lymph node, tumors and corresponding mucosal biopsies from 4 lung cancer patients were scrutinized on Affymetrix 250K-NspI array platform. Frequently deleted regions genes were identified based on the LOH call as per manufacturer's guidelines and normalization.
Frequently deleted genes in the tumors and mucosa were identified though this approach
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| Overall design |
Affymetrix 250K-NspI- SNP arrays were performed according to the manufacturer's directions on DNA extracted from lung cancer and corresponding mucosal biopsy specimens. LOH analysis was done to identify genes that are frequently deleted.
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| Contributor(s) |
Dasgupta S, Sidransky D |
| Citation(s) |
22968441, 37310411 |
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| Submission date |
May 18, 2011 |
| Last update date |
Jun 22, 2023 |
| Contact name |
Santanu Dasgupta |
| E-mail(s) |
sdasgupta@vcu.edu
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| Organization name |
Virginia Commonwealth University
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| Street address |
1220 E Broad Street
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| City |
Richmond |
| State/province |
VA |
| ZIP/Postal code |
23298 |
| Country |
USA |
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| Platforms (1) |
| GPL3718 |
[Mapping250K_Nsp] Affymetrix Mapping 250K Nsp SNP Array |
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| Samples (25)
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| GSM725908 |
Patient 1, Mucosa 1 |
| GSM725909 |
Patient 1, Mucosa 2 |
| GSM725910 |
Patient 1, Mucosa 3 |
| GSM725911 |
Patient 1, Mucosa 4 |
| GSM725912 |
Patient 1, Mucosa 5 |
| GSM725913 |
Patient 2, Normal lymph node |
| GSM725914 |
Patient 2, Carcinoma_1 |
| GSM725915 |
Patient 2, Mucosa 1 |
| GSM725916 |
Patient 2, Mucosa 2 |
| GSM725917 |
Patient 2, Mucosa 3 |
| GSM725918 |
Patient 2, Mucosa 4 |
| GSM725919 |
Patient 2, Mucosa 5 |
| GSM725920 |
Patient 3, Normal lymph node |
| GSM725921 |
Patient 3, Carcinoma_1 |
| GSM725922 |
Patient 3, Mucosa 1 |
| GSM725923 |
Patient 3, Mucosa 2 |
| GSM725924 |
Patient 3, Mucosa 3 |
| GSM725925 |
Patient 4, Normal lymph node |
| GSM725926 |
Patient 4, Carcinoma_1 |
| GSM725927 |
Patient 4, Mucosa 1 |
| GSM725928 |
Patient 4, Mucosa 2 |
| GSM725929 |
Patient 4, Mucosa 3 |
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| Relations |
| BioProject |
PRJNA140199 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE29365_RAW.tar |
651.0 Mb |
(http)(custom) |
TAR (of CEL, CHP, CNT) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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