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Sample GSM1075059 Query DataSets for GSM1075059
Status Public on Feb 20, 2013
Title LSK+CD34- HSCs from 12 mo old female Xist homozygous (-/-) mutant
Sample type RNA
 
Source name FACS sorted LKS+CD34- hematopoietic stem cells (HSC)
Organism Mus musculus
Characteristics genotype: Xist homozygous (-/-) mutant mouse
age: 12 months old
gender: female
genetic background: 129Sv/Jae x B6.Cg-Tg (Vav1-cre)A2Kio/J
cell type: LKS+CD34- hematopoietic stem cells (HSC)
Extracted molecule total RNA
Extraction protocol Total RNA from cells was isolated using Trizol reagent (Invitrogen).
Label Biotin
Label protocol RNA was labeled using NuGen Ovation Pico WTA v2 System paired with the Encore Biotin Module (NuGEN).
 
Hybridization protocol Following fragmentation, 5ug of cDNA were hybridized for 16 hrs at 45C on Affymetrix Mouse Gene 1.0ST microarrays. GeneChps were washed and stained in the Affymetric Fluidics Station 450.
Scan protocol GeneChips were scanned using Affymetrix Genechip Scanner 3000 7G. The data was collected using the Command Console Version 3.2.
Description Gene expression data from LSK+CD34- HSCs from 12 months old female Xist homozygous (-/-) mutant mouse.
Hematopoietic cells were isolated from bone or spleen of mouse, indicated cell lineages were FACS sorted and used to isolate RNA as described under Methods in Yildirim et al. Cell 2013.
Data processing The data were analyzed using R Bioconductor Affy package, with RMA applied as summarization and normalization method (Irizarry et al., 2003).
 
Submission date Jan 31, 2013
Last update date Jul 22, 2022
Contact name Ruslan Sadreyev
E-mail(s) [email protected]
Phone 6176435697
Organization name Harvard Medical School/ Mass General Hospital
Street address 185 Cambridge St
City Boston
State/province MA
ZIP/Postal code 02114
Country USA
 
Platform ID GPL6246
Series (1)
GSE43961 Xist RNA is a potent suppressor of hematologic cancer in mice.

Data table header descriptions
ID_REF
VALUE RMA expression values

Data table
ID_REF VALUE
10344614 7.142245
10344616 4.206513
10344620 5.393135
10344622 7.213328
10344624 8.644609
10344633 8.777591
10344637 6.787748
10344653 4.228571
10344658 7.208756
10344674 3.220766
10344679 4.733606
10344707 7.090837
10344713 9.238991
10344715 4.331381
10344717 3.737352
10344719 6.104213
10344721 2.914448
10344723 7.449228
10344725 5.50492
10344741 10.92741

Total number of rows: 35556

Table truncated, full table size 621 Kbytes.




Supplementary file Size Download File type/resource
GSM1075059_4-2-3_KLS-CD34_1790S.CEL.gz 3.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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