|
| Status |
Public on Apr 01, 2013 |
| Title |
cartilage knee 10SE219 |
| Sample type |
RNA |
| |
|
| Source name |
cartilage knee
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: osteoarthritis
age: 80
Sex: Male
haplogroup: U
tissue: knee cartilage
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from crushed tissue using the Rneasy Mini kit (Qiagen) following manufacturer instructions, with the addition of a DNAse digestion step.
|
| Label |
biotin
|
| Label protocol |
Fragmented cDNA was labelled using the WT Terminal Labelling kit (Affymetrix)
|
| |
|
| Hybridization protocol |
Washing and staining using kit for WT array plates, following Affymetrix protocol, Hybridization was carried out using GeneTitan Hybridization
|
| Scan protocol |
Scan was performed on GeneTitan instrument
|
| Data processing |
CEL files were read with oligo package and subsequently analyzed with the same package. RMA algorithm was applied and a filter step based on annotation was also included in the analysis.
pd.hugene.1.1.st.v1
hugene11sttranscriptcluster.db
|
| |
|
| Submission date |
Dec 28, 2012 |
| Last update date |
Apr 01, 2013 |
| Contact name |
Juan Fernandez Tajes |
| E-mail(s) |
jfernandezt@udc.es
|
| Organization name |
INIBIC
|
| Department |
Genomics Area
|
| Street address |
As Xubias
|
| City |
A Coruña |
| ZIP/Postal code |
15006 |
| Country |
Spain |
| |
|
| Platform ID |
GPL11532 |
| Series (2) |
| GSE43191 |
Genome wide-DNA methylation analysis of articular chondrocytes reveals a cluster of osteoarthritic patients (gene expression) |
| GSE43270 |
Genome wide-DNA methylation analysis of articular chondrocytes reveals a cluster of osteoarthritic patients |
|
