|
| Status |
Public on May 22, 2015 |
| Title |
PD12_pre |
| Sample type |
RNA |
| |
|
| Source name |
Blood leukocytes, PD patient, pre-DBS
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: blood leukocytes
gender: male
disease status: Parkinson’s disease (PD)
treatment stage: pre-DBS
individual identifier: PD12
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction conducted from LeukoLock filters (Ambion, Applied Biosystems, Inc., Foster City, CA) following de-freezing. The extraction followed the manufacturers' alternative protocol instructions. Briefly, cells were flushed (TRI-ReagentTM, Ambion) into 1-bromo-3-chloropropane-containing 15ml tubes and centrifuged. 0.5 and 1.25 volume water and ethanol were added to the aqueous phase. Samples were filtered through spin cartridges, and stored in pre-heated 150 µl EDTA. RNA was quantified and examined on Bioanalyzer 2100 (Agilent, Santa Clara, CA, USA) and frozen in -80⁰C.
|
| Label |
biotin
|
| Label protocol |
HJAY profiling of blood leukocytes conducted using exon array pre- prepared labeled samples using the GeneChip Whole Transcript Sense Target Labeling assay kit (Affymetrix), as per manufacturer's instructions.
|
| |
|
| Hybridization protocol |
HJAY profiling of blood leukocytes conducted using exon array pre- prepared hybridization samples using the GeneChip Whole Transcript Sense Target Labeling assay kit (Affymetrix), as per manufacturer's instructions.
|
| Scan protocol |
The microarrays were scanned on an Affymetrix GeneChip Scanner 3000 7G scanner, according to the Affymetrix GeneChip Whole Transcript Sense Target Labeling Assay protocol.
|
| Description |
J97=J69_pd12S1_restain.CEL
DBS: deep brain stimulation neurosurgery conducted to target the subthalamic nucleous (STN) brain region.
|
| Data processing |
Affymetrix Power Tools (APT version-1.10.1 ) using the RMA algorithm.
Probe group file: HJAY_r2.pgf
|
| |
|
| Submission date |
Apr 25, 2012 |
| Last update date |
May 22, 2015 |
| Contact name |
Lilach Soreq |
| E-mail(s) |
l.soreq@ucl.ac.uk
|
| Phone |
+44 07938689793
|
| Organization name |
UCL
|
| Department |
Molecular Neuroscience
|
| Lab |
Prof. John Hardy
|
| Street address |
Queen Square
|
| City |
London |
| ZIP/Postal code |
WC1N 3BG |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL15106 |
| Series (1) |
| GSE37591 |
Human Splice Junction Arrays of Parkinson's Patients Leukocytes mRNA Pre- and Post-Deep Brain Stimulation |
|
