|
| Status |
Public on Nov 17, 2009 |
| Title |
Substantia Nigra right animal 10 |
| Sample type |
other |
| |
|
| Channel 1 |
| Source name |
Substantia Nigra right hand side
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague-Dawley
gender: male
developmental stage: Adult
tissue: substantia Nigra
hemisphere: Right
molecule: microRNA
|
| Growth protocol |
Animals were kept under normal day/night and dairy conditions with unlimited access to food and water.
|
| Extracted molecule |
other |
| Extraction protocol |
RNeasy Lipid Tissue Mini Kit (Qiagen) following manufacturer's instructions
|
| Label |
Alexa Fluor® 5 fluorophor
|
| Label protocol |
600 ng microRNA sample were poly-A tailed and tagged with the sequence tag for the Alexa Fluor® 5 fluorophor using the NCode™ miRNA Labeling System (Invitrogen). Universal reference were labeled with Alexa Fluor® 3.
|
| |
|
| Channel 2 |
| Source name |
universal brain reference
|
| Organism |
Rattus norvegicus |
| Characteristics |
sample type: Invitrogen universal brain reference small RNA (>200 nt in length)
|
| Extracted molecule |
other |
| Extraction protocol |
RNeasy Lipid Tissue Mini Kit (Qiagen) following manufacturer's instructions
|
| Label |
Alexa Fluor® 5 fluorophor
|
| Label protocol |
600 ng microRNA sample were poly-A tailed and tagged with the sequence tag for the Alexa Fluor® 5 fluorophor using the NCode™ miRNA Labeling System (Invitrogen). Universal reference were labeled with Alexa Fluor® 3.
|
| |
|
| |
| Hybridization protocol |
Samples were hybridized against the reference overnight to NCode™ Multi-Species miRNA Microarrays (Invitrogen, Carlsbad, CA, USA) using the NCode™ Multi-Species miRNA Microarrays Kit (Invitrogen, Carlsbad, CA, USA) following the instructions given by the manufacturer. Arrays were then hybridized on a MAUI hybridization station (BioMicro Systems, Inc, Salt Lake City, UT, USA) with Alexa Fluor® 3 and Alexa Fluor® 5 capture reagents and washed.
|
| Scan protocol |
Scanned using an Agilent DNA microarray scanner.
Images were processed using GenePix Pro software (Molecular Devices, Sunnyvale, CA, USA).
|
| Description |
Biological replicate 3 of 4
|
| Data processing |
Background adjusted using “normexp” with an offset of 50. Print-tip-loess normalization was used to adjust data within each array and subsequent Gquantile normalization to allow comparisons between arrays. Thelimma package from BioConductor was used in R.
|
| |
|
| Submission date |
Jun 19, 2009 |
| Last update date |
Nov 17, 2009 |
| Contact name |
Thomas Werge |
| Phone |
+45 4633 4968
|
| Organization name |
Psychiatric Center, Sct. Hans Hospital
|
| Department |
Institute of biological Psychiatry
|
| Street address |
Boserupvej 2
|
| City |
Roskilde |
| ZIP/Postal code |
Dk-4000 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL8745 |
| Series (1) |
| GSE16725 |
Regional brain expression maps for microRNAs in rats |
|
