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Sample GSM2143753 Query DataSets for GSM2143753
Status Public on Aug 31, 2016
Title ECT20 Post
Sample type RNA
 
Channel 1
Source name ECT Post Tx Responder
Organism Homo sapiens
Characteristics disease state: MDD
individual: ECT20
treatment: ECT
time: post-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_E20POST.txt
Hy5: 0_Exiqon_E20POST.txt
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 -0.174
17519 -0.079
46507 -0.846
17928 0.004
11134 -0.242
42812 -0.598
42918 0.202
42516 0.352
46752 0.493
46427 0.287
11052 -0.049
42696 0.645
42754 0.100
42818 -0.361
42810 0.603
42591 0.201
17585 -0.116
42848 0.275
17506 -0.059
42795 -0.596

Total number of rows: 2087

Table truncated, full table size 26 Kbytes.




Supplementary file Size Download File type/resource
GSM2143753_0_Exiqon_E20POST.txt.gz 1.3 Mb (ftp)(http) TXT
GSM2143753_1_Exiqon_E20POST.txt.gz 1.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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