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Sample GSM2143733 Query DataSets for GSM2143733
Status Public on Aug 31, 2016
Title ECT20 Pre
Sample type RNA
 
Channel 1
Source name ECT Pre Tx Responder
Organism Homo sapiens
Characteristics disease state: MDD
individual: ECT20
treatment: ECT
time: pre-treatment
response: 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_E20PRE.txt
Hy5: 0_Exiqon_E20PRE.txt
Baseline 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

Data table header descriptions
ID_REF
VALUE normalized log2 ratio (Cy5/Cy3)

Data table
ID_REF VALUE
42638 -0.515
17519 -0.108
46507 -0.640
17928 -0.400
11134 -0.378
42812 -0.295
42918 0.260
42516 0.404
46752 0.488
46427 1.184
11052 -0.155
42696 1.054
42754 0.354
42818 -0.040
42810 0.778
42591 0.073
17585 -0.041
42848 0.616
17506 -0.282
42795 -0.273

Total number of rows: 2087

Table truncated, full table size 26 Kbytes.




Supplementary file Size Download File type/resource
GSM2143733_0_Exiqon_E20PRE.txt.gz 1.3 Mb (ftp)(http) TXT
GSM2143733_1_Exiqon_E20PRE.txt.gz 1.4 Mb (ftp)(http) TXT
Processed data included within Sample table

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