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| Status |
Public on Sep 01, 2012 |
| Title |
Genome-wide copy number analysis for occult lymph node metastasis in oral squamous cell carcinoma |
| Organism |
Homo sapiens |
| Experiment type |
SNP genotyping by SNP array
Genome variation profiling by SNP array
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| Summary |
Using Affymetrix Mapping 250K array, we studied copy number aberrations in oral squamous cell carcinoma (OSCC) to identified biomarkers associated with occult lymph node metastasis. We used frozen specimens from 60 OSCC patients.
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| Overall design |
Copy number analysis was performed using homogenized samples of 60 oral squamous cell carcinoma patients by GeneChip Human Mapping 250k Sty arrays. As a reference, SNP array data set of 50 normal Asians (Japanese & Chinese) from HapMap database was used.
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| Contributor(s) |
Miyaguchi K, Uzawa N, Mogushi K, Takahashi K, Michikawa C, Nakata Y, Sumino J, Okada N, Mizushima H, Fukuoka Y, Tanaka H |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Sep 08, 2011 |
| Last update date |
Aug 21, 2013 |
| Contact name |
Ken Miyaguchi |
| E-mail(s) |
[email protected]
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| Phone |
81-3-5803-4696
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| Organization name |
Tokyo Medical and Dental University
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| Lab |
Bioinformatics
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| Street address |
5-45, Yushima 1, Bunkyo-ku
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| City |
Tokyo |
| ZIP/Postal code |
113-8510 |
| Country |
Japan |
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| Platforms (1) |
| GPL3720 |
[Mapping250K_Sty] Affymetrix Mapping 250K Sty2 SNP Array |
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| Samples (60)
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| GSM792236 |
lymph node metastasis patient 001, cancer, Homogenized |
| GSM792237 |
lymph node metastasis patient 002, cancer, Homogenized |
| GSM792238 |
no lymph node metastasis patient 003, cancer, Homogenized |
| GSM792239 |
no lymph node metastasis patient 005, cancer, Homogenized |
| GSM792240 |
lymph node metastasis patient 006, cancer, Homogenized |
| GSM792241 |
no lymph node metastasis patient 007, cancer, Homogenized |
| GSM792242 |
lymph node metastasis patient 008, cancer, Homogenized |
| GSM792243 |
no lymph node metastasis patient 009, cancer, Homogenized |
| GSM792244 |
no lymph node metastasis patient 010, cancer, Homogenized |
| GSM792245 |
no lymph node metastasis patient 011, cancer, Homogenized |
| GSM792246 |
no lymph node metastasis patient 013, cancer, Homogenized |
| GSM792247 |
no lymph node metastasis patient 014, cancer, Homogenized |
| GSM792248 |
lymph node metastasis patient 015, cancer, Homogenized |
| GSM792249 |
no lymph node metastasis patient 016, cancer, Homogenized |
| GSM792250 |
no lymph node metastasis patient 017, cancer, Homogenized |
| GSM792251 |
no lymph node metastasis patient 018, cancer, Homogenized |
| GSM792252 |
no lymph node metastasis patient 019, cancer, Homogenized |
| GSM792253 |
no lymph node metastasis patient 020, cancer, Homogenized |
| GSM792254 |
no lymph node metastasis patient 021, cancer, Homogenized |
| GSM792255 |
no lymph node metastasis patient 022, cancer, Homogenized |
| GSM792256 |
no lymph node metastasis patient 023, cancer, Homogenized |
| GSM792257 |
no lymph node metastasis patient 024, cancer, Homogenized |
| GSM792258 |
lymph node metastasis patient 025, cancer, Homogenized |
| GSM792259 |
no lymph node metastasis patient 026, cancer, Homogenized |
| GSM792260 |
no lymph node metastasis patient 027, cancer, Homogenized |
| GSM792261 |
no lymph node metastasis patient 028, cancer, Homogenized |
| GSM792262 |
no lymph node metastasis patient 029, cancer, Homogenized |
| GSM792263 |
no lymph node metastasis patient 030, cancer, Homogenized |
| GSM792264 |
no lymph node metastasis patient 031, cancer, Homogenized |
| GSM792265 |
lymph node metastasis patient 032, cancer, Homogenized |
| GSM792266 |
no lymph node metastasis patient 033, cancer, Homogenized |
| GSM792267 |
no lymph node metastasis patient 034, cancer, Homogenized |
| GSM792268 |
no lymph node metastasis patient 035, cancer, Homogenized |
| GSM792269 |
no lymph node metastasis patient 036, cancer, Homogenized |
| GSM792270 |
lymph node metastasis patient 038, cancer, Homogenized |
| GSM792271 |
no lymph node metastasis patient 039, cancer, Homogenized |
| GSM792272 |
no lymph node metastasis patient 040, cancer, Homogenized |
| GSM792273 |
no lymph node metastasis patient 041, cancer, Homogenized |
| GSM792274 |
no lymph node metastasis patient 043, cancer, Homogenized |
| GSM792275 |
no lymph node metastasis patient 045, cancer, Homogenized |
| GSM792276 |
no lymph node metastasis patient 046, cancer, Homogenized |
| GSM792277 |
no lymph node metastasis patient 047, cancer, Homogenized |
| GSM792278 |
no lymph node metastasis patient 048, cancer, Homogenized |
| GSM792279 |
no lymph node metastasis patient 049, cancer, Homogenized |
| GSM792280 |
no lymph node metastasis patient 051, cancer, Homogenized |
| GSM792281 |
no lymph node metastasis patient 052, cancer, Homogenized |
| GSM792282 |
no lymph node metastasis patient 053, cancer, Homogenized |
| GSM792283 |
no lymph node metastasis patient 054, cancer, Homogenized |
| GSM792284 |
lymph node metastasis patient 055, cancer, Homogenized |
| GSM792285 |
no lymph node metastasis patient 056, cancer, Homogenized |
| GSM792286 |
no lymph node metastasis patient 057, cancer, Homogenized |
| GSM792287 |
no lymph node metastasis patient 058, cancer, Homogenized |
| GSM792288 |
no lymph node metastasis patient 059, cancer, Homogenized |
| GSM792289 |
no lymph node metastasis patient 060, cancer, Homogenized |
| GSM792290 |
no lymph node metastasis patient 061, cancer, Homogenized |
| GSM792291 |
no lymph node metastasis patient 062, cancer, Homogenized |
| GSM792292 |
no lymph node metastasis patient 063, cancer, Homogenized |
| GSM792293 |
no lymph node metastasis patient 064, cancer, Homogenized |
| GSM792294 |
lymph node metastasis patient 065, cancer, Homogenized |
| GSM792295 |
no lymph node metastasis patient 066, cancer, Homogenized |
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| Relations |
| BioProject |
PRJNA145175 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE31984_RAW.tar |
1.5 Gb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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