|
| Status |
Public on May 14, 2014 |
| Title |
patient11 periimplantitis tissue |
| Sample type |
RNA |
| |
|
| Source name |
peri implant bone (main part) and soft tissue
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: periimplantitis tissue
tissue: peri implant bone (main part) and soft tissue
|
| Treatment protocol |
After explantation the implants with the adherent tissue were instantly frozen in liquid nitrogen and after that in an -80 °C freezer.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction of total RNA was performed according to the manufacturer's instructions with the help of the RNAeasy Kit (Quiagen).
|
| Label |
biotin
|
| Label protocol |
GeneChip Whole Transcript (WT) sense target labeling assay manual, version 4 - starting with 300ng RNA and following the Total RNA labeling protocol to prepare targets for GeneChip gene 1.0 ST Arrays (omitting RiboMinus procedure).
|
| |
|
| Hybridization protocol |
Genechip hybridisation, wash and stain kit.
|
| Scan protocol |
Array washing and staining as described in chp 6 of above manual using the GeneChip Fluidics station 450 (fluidics script FS450-007). Arrays were scanned on a GeneChip scanner 3000 7G using default scanner settings. Affymetrix GeneChip® Command Console® (AGCC) was used to process all Affymetrix arrays through fluidics and scanning.
|
| Data processing |
Microarray data were analyzed with Affymetrix GeneChip Command Console Software (Affymetrix). The advanced analysis was done with R (version 2.9) with package limma.
|
| |
|
| Submission date |
May 13, 2014 |
| Last update date |
May 14, 2014 |
| Contact name |
Nicolai Miosge |
| E-mail(s) |
nmiosge@gwdg.de
|
| Organization name |
University Göttingen
|
| Department |
Prothetik, Oral biology and Tissue regeneration
|
| Street address |
Robert-Koch-Str. 40
|
| City |
Göttingen |
| ZIP/Postal code |
37075 |
| Country |
Germany |
| |
|
| Platform ID |
GPL15034 |
| Series (1) |
| GSE57631 |
Comparison of the gene expression of periimplantitis affected peri-implant tissue and healthy peri-implant tissue in vivo in human. |
|
