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Sample GSM1232681 Query DataSets for GSM1232681
Status Public on Nov 19, 2013
Title Id3KO at Stage 1, biological rep 1
Sample type RNA
 
Source name Sorted Tet+CD24-CD44-NK1.1- iNKT cells from Id3KO thymus
Organism Mus musculus
Characteristics genotype: Id3KO
cell type: Sorted Tet+CD24-CD44-NK1.1- iNKT cells from Id3KO thymus
tissue: Thymus
strain: C57BL/6
age: 6 weeks old
Treatment protocol Thymocyte single cell suspensions were surface stained and FACS sorted into RLT-containing (Qiagen) eppendorf tubes, before freezing in dry ice. Cells were stored in -80oC until RNA extraction was performed.
Growth protocol Mice were housed at the Univeristy of Chicago Animal Resource Center, following the guidelines of The University of Chicago Institutional Animal Care and Use Committee.
Extracted molecule total RNA
Extraction protocol RNA was prepared using RNeasy Micro (Qiagen) according to manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA was prepared according to the Affymetrix two-cycle cDNA sunthesis.
 
Hybridization protocol 10 ug of fragmented cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome Array 430.2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol Chips were scanned using an Affymetrix GeneChip Scanner 3000. Chip target intensity was arbitrarily scaled to 100 before rendering CHP files.
Description Gene expression data from mouse Id3KO Stage 1 iNKT cells
Data processing Expression values were calculated by RMA express (http://rmaexpress.bmbolstad.com/) using background adjustment and quantile normalization.
 
Submission date Sep 17, 2013
Last update date Nov 19, 2013
Contact name Barbara L Kee
Organization name The University of Chicago
Department Pathology
Street address 924 E57th st
City Chicago
State/province Illinois
ZIP/Postal code 60637
Country USA
 
Platform ID GPL1261
Series (1)
GSE50933 Essential functions for ID proteins at multiple checkpoints in natural killer T cell development

Data table header descriptions
ID_REF
VALUE RMA adjusted natural log signal intensity

Data table
ID_REF VALUE
1415670_at 225.21
1415671_at 307.81
1415672_at 726.7
1415673_at 248.23
1415674_a_at 270.17
1415675_at 263.51
1415676_a_at 1720.68
1415677_at 105.4
1415678_at 438.78
1415679_at 1621.61
1415680_at 481.94
1415681_at 492.24
1415682_at 81.38
1415683_at 895.8
1415684_at 93.41
1415685_at 181.5
1415686_at 109.84
1415687_a_at 439.94
1415688_at 333.68
1415689_s_at 157.98

Total number of rows: 45037

Table truncated, full table size 772 Kbytes.




Supplementary file Size Download File type/resource
GSM1232681_Id3KO_ST1-1.CEL.gz 3.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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