|
| Status |
Public on Nov 30, 2016 |
| Title |
T1 [THJ-11T] |
| Sample type |
RNA |
| |
|
| Source name |
Anaplastic Thyroid Carcinoma
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Anaplastic Thyroid Carcinoma (ATC)
cell subtype: Squamoid
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from cell lines (Anaplastic Thyroid Cancer cell line, Normal Thyroid cell line) using TRIzol (Invitrogen) and chloroform (Sigma). RNA extracts were purified on Spin Chroma column (BD biosciences K1332-2). The 18S/28S bands were verified on a 1% agarose gel. RNA samples were shipped to Advanced Genomic Technology Center Gene Expression Core at the Mayo Clinic in Rochester, MN for further analysis. RNA quality was assessed by Agilent Bioanalyzer (Santa Clara, CA). Reverse transcription to second strand cDNA was generated from 100 ng of good quality total RNA.
|
| Label |
Biotin
|
| Label protocol |
The RNA products were column-purified (Affymetrix) and then in vitro transcribed to generate biotin-labeled cRNA
|
| |
|
| Hybridization protocol |
The IVT productswere column-purified, fragmented, and hybridized onto Affymetrix U133 Plus 2.0 GeneChips® at 45º C FOR 16 h
|
| Scan protocol |
Subsequent to hybridization, the arrays were washed and stained with streptavidin-phycoerythrin, then scanned in an Affymetrix GeneChip® Scanner 3000 (Santa Clara, CA). All control parameters were confirmed to be within normal ranges before normalization and data reduction was initiated.
|
| Description |
cop010068
|
| Data processing |
Raw data was processed by MAS.5 (Affymetrix) and analyzed using GeneSpring GX10
|
| |
|
| Submission date |
Aug 10, 2016 |
| Last update date |
Dec 01, 2016 |
| Contact name |
John A Copland |
| E-mail(s) |
Copland.John@mayo.edu
|
| Organization name |
Mayo Clinic College of Medicine
|
| Department |
Biochemistry & Molecular Biology
|
| Street address |
4500 San Pablo Road
|
| City |
Jacksonville |
| State/province |
FL |
| ZIP/Postal code |
32224 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE85457 |
Gene array analysis of anaplastic thyroid carcinoma cell lines versus normal thyroid cell lines |
|
