|
| Status |
Public on Aug 31, 2016 |
| Title |
KET13 Post |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
KET Post Tx Non-Responder
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: MDD
individual: KET13
treatment: KET
time: post-treatment
response: non-responder
tissue: blood
|
| Treatment protocol |
Patients were either treated with electroconvulsive therapy or ketamine infusions.
|
| Growth protocol |
Not applicable.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extracted using manufacturer's intstruction.
|
| Label |
Hy3
|
| Label protocol |
400 ng total RNA from both sample and reference was labeled with Hy3™ and Hy5™ fluorescent label, respectively, using the miRCURY LNA™ microRNA Hi-Power Labeling Kit (Exiqon, Denmark) following the procedure described by the manufacturer. This project was run with a dual colour setup and LOWES normalization so the reference RNA comprised a pool of RNA containing all samples in equal amounts.
|
| |
|
| Channel 2 |
| Source name |
Reference
|
| Organism |
Homo sapiens |
| Characteristics |
reference composition: a pool of RNA containing all samples in equal amounts
|
| Treatment protocol |
Patients were either treated with electroconvulsive therapy or ketamine infusions.
|
| Growth protocol |
Not applicable.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extracted using manufacturer's intstruction.
|
| Label |
Hy5
|
| Label protocol |
400 ng total RNA from both sample and reference was labeled with Hy3™ and Hy5™ fluorescent label, respectively, using the miRCURY LNA™ microRNA Hi-Power Labeling Kit (Exiqon, Denmark) following the procedure described by the manufacturer. This project was run with a dual colour setup and LOWES normalization so the reference RNA comprised a pool of RNA containing all samples in equal amounts.
|
| |
|
| |
| Hybridization protocol |
The hybridization was performed according to the miRCURY LNA™ microRNA Array Instruction manual using a Tecan HS4800™ hybridization station (Tecan, Austria).
|
| Scan protocol |
The miRCURY LNA™ microRNA Array slides were scanned using the Agilent G2565BA Microarray Scanner System (Agilent Technologies, Inc., USA) and the image analysis was carried out using the ImaGene® 9 (miRCURY LNA™ microRNA Array Analysis Software, Exiqon, Denmark).
|
| Description |
Hy3: 1_Exiqon_K13POST.txt
Hy5: 0_Exiqon_K13POST.txt
Non-Responder
|
| Data processing |
The quantified signals were background corrected (Normexp with offset value 10) and normalized using the global Lowess (LOcally WEighted Scatterplot Smoothing) regression algorithm.
|
| |
|
| Submission date |
May 05, 2016 |
| Last update date |
Aug 31, 2016 |
| Contact name |
Anand Gururajan |
| Organization name |
University College Cork
|
| Department |
Anatomy & Neuroscience
|
| Street address |
Western Road
|
| City |
Cork |
| ZIP/Postal code |
NA |
| Country |
Ireland |
| |
|
| Platform ID |
GPL21814 |
| Series (1) |
| GSE81152 |
MicroRNAs as diagnostic biomarkers for major depression |
|
