|
| Status |
Public on Nov 30, 2014 |
| Title |
S_474 |
| Sample type |
RNA |
| |
|
| Source name |
Vestibular Schwannoma
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Vestibular Schwannoma
tissue type: Tumor
batch: 1
|
| Treatment protocol |
Samples were frozen in liquid Nitrogen immediately after surgical resection, and then conserved at -80ºC until extraction
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using RNeasy® Mini Kit (QIAGEN) following instructions. Rnase-Free Dnase Set (QIAGEN) was used to eliminate DNA contamitations.
|
| Label |
biotin
|
| Label protocol |
library preparation and amplification were performed following the distributor’s (Sigma-Aldrich) recommendations for whole transcriptome amplification (WTA2). Amplification was performed for 17 cycles, and amplified cDNA was purified and quantified on a NanoDrop ND-1000 spectrophotometer (Thermo-Fischer). Some 8 µg cDNA was subsequently fragmented by DNAseI and biotinylated by terminal transferase obtained from a GeneChip Mapping 10Kv2 Assay Kit (Affymetrix).
|
| |
|
| Hybridization protocol |
Hybridization, washing, staining and scanning of Affymetrix Human Gene ST 1.0 arrays were performed following the manufacturer's recommendations
|
| Scan protocol |
GeneChip® Scanner 3000 7G
|
| Description |
Previously analysed Vestibular Schwannoma 11
re-analysis of GSM973640
|
| Data processing |
Scanned images (DAT files) were transformed into intensities (CEL files) by GCOS (Affymetrix).
HuGene-1_0-st-v1.r4.pgf
HuGene-1_0-st-v1.r4.mps
|
| |
|
| Submission date |
Apr 08, 2014 |
| Last update date |
Nov 30, 2014 |
| Contact name |
Miguel Torres-Martin |
| E-mail(s) |
migtorres.martin@gmail.com
|
| Organization name |
Hospital Universitari Germans Trias i Pujol
|
| Department |
Clinical Genomics Unit
|
| Street address |
Carretera de Canyet, s/n
|
| City |
Badalona |
| State/province |
Barcelona |
| ZIP/Postal code |
08916 |
| Country |
Spain |
| |
|
| Platform ID |
GPL10739 |
| Series (2) |
| GSE56597 |
Wide methylation analysis in vestibular schwannoma [Affymetrix exon level analysis] |
| GSE56598 |
Wide methylation analysis in vestibular schwannoma |
|
| Relations |
| Reanalysis of |
GSM973640 |
