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Sample GSM399631 Query DataSets for GSM399631
Status Public on Jul 01, 2009
Title T 2
Sample type RNA
 
Channel 1
Source name T 2
Organism Mus musculus
Characteristics cell type: T cell
strain: C57BL/6
age: 4 weeks
tissue: 18 pooled thymi
Treatment protocol Enrichment of HSA low mature thymocytes by anti-HSA mAb and rabbit complement; sorting of mature NKT and T cells
Extracted molecule total RNA
Extraction protocol miRVana kit (Ambion)
Label Hy3
Label protocol miRCURY LNA Array power labeling kit (Exiqon, Denmark)
 
Channel 2
Source name Total thymocytes
Organism Mus musculus
Characteristics strain: C57BL/6
age: 4 weeks
tissue: 18 pooled thymi X 3 replicates; pool of all the thymi used in the sortings; used as a common reference
Extracted molecule total RNA
Extraction protocol miRVana kit (Ambion)
Label Hy5
Label protocol miRCURY LNA Array power labeling kit (Exiqon, Denmark)
 
 
Hybridization protocol The Hy3™-labeled samples and a Hy5™-labeled reference RNA sample were mixed pair-wise and hybridized to the miRCURY™ LNA array version 11.0 (Exiqon, Denmark), which contains capture probes targeting all miRNAs for human, mouse or rat registered in the miRBASE version 12.0 at the Sanger Institute. The hybridization was performed according to the miRCURY™ LNA array manual using a Tecan HS4800 hybridization station (Tecan, Austria).
Scan protocol Agilent G2565BA Microarray Scanner System (Agilent Technologies, Inc., USA) and the image analysis was carried out using the ImaGene 8.0 software (BioDiscovery, Inc., USA).
Description microRNA expression
Data processing The quantified signals were background corrected (Normexp with offset value 10 – Ritchie et al., 2007) and normalized using the global Lowess (LOcally WEighted Scatterplot Smoothing) regression algorithm.
 
Submission date May 01, 2009
Last update date Nov 19, 2010
Contact name Maya Fedeli
E-mail(s) fedeli.maya@hsr.it
Phone 00390226434735
Organization name San Raffaele Scientific Institute
Department DIBIT
Lab Experimental Immunology Unit
Street address via Olgettina 58
City Milan
State/province MI
ZIP/Postal code 20132
Country Italy
 
Platform ID GPL7723
Series (1)
GSE15925 Mature thymic NKT and T cells

Data table header descriptions
ID_REF
RATIO normalized ratio (test/reference)
VALUE normalized log2 ratio (test/reference)

Data table
ID_REF RATIO VALUE
13138 null null
4610 0.939893811 -0.089430324
11013 0.75410917 -0.407154702
11102 1.024674612 0.035165852
19604 1.255108644 0.327812252
17306 1.180441476 0.239326518
17529 1.026780356 0.038127601
17660 0.93212389 -0.101406376
17940 0.929606662 -0.105307687
5740 3.507454034 1.810424197
11020 1.606649671 0.684055384
11111 0.866128369 -0.207347233
11222 1.125952671 0.171146186
17327 1.164358814 0.219535715
17536 1.132121686 0.179029035
14257 0.136140115 -2.876835861
17732 1.129696988 0.175935858
17953 0.761431931 -0.393213023
10306 1.790867319 0.840658455
11024 0.980902967 -0.027817665

Total number of rows: 1997

Table truncated, full table size 58 Kbytes.




Supplementary file Size Download File type/resource
GSM399631_0_Exiqon_13973761_S01_Cropped.txt.gz 719.8 Kb (ftp)(http) TXT
GSM399631_1_Exiqon_13973761_S01_Cropped.txt.gz 867.8 Kb (ftp)(http) TXT
Processed data included within Sample table

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