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Sample GSM1969234 Query DataSets for GSM1969234
Status Public on Aug 25, 2016
Title HSPC_control rep1
Sample type RNA
 
Source name Total RNA control HSPCs 4 days after pI:pC
Organism Mus musculus
Characteristics background strain: B6/129
Treatment protocol Cells were FACS sorted from control and Med12Flox;MxCre mice 4 days after induction of Med12 deltion via pI:pC injection
Growth protocol Cells were directly isolated by FACS from mice
Extracted molecule total RNA
Extraction protocol Qiagen RNEasy Plus Kit was used to extract total cellular RNA according to the manufacturer's protocol, and the RNA was amplified and converted into cDNA using the Ovation Amplification v2 and Biotin cDNA Biotin systems
Label biotin
Label protocol 5 ng total RNA was amplified by Nugen Ovation RNA amplification system V2 and the resulting cDNA biotin-labeled using the FL-Ovation, cDNA Biotin Module V2
 
Hybridization protocol 3.75 mcg of biotin-labeled cDNA were hybridized for 16 hrs onto the GeneChip Mouse Genome 430 2.0 Arrays (Affymetrix)
Scan protocol Affymetrix 7G GeneArray scanner
Description Gene expression data from Control Lineage negative, c-Kit and Sca1 (HSPCs) positive expressing bone marrow progenitors-repeat1
Data processing Feature intensity was extracted by GeneChip Operating System as CEL files. The probe-level analysis of the CEL files was performed by the RMA algorithm using geneChip program. No further adjustments were made to the data in the table.
 
Submission date Dec 10, 2015
Last update date Aug 25, 2016
Contact name Beatriz Aranda-Orgilles
Organization name NYU School of Medicine
Street address 522 First Avenue
City New York
ZIP/Postal code 10016
Country USA
 
Platform ID GPL1261
Series (2)
GSE75879 Expression data from control and Med12-deficient hematopoietic stem cells and progenitors
GSE76055 Regulation of enhancer dynamics by MED12

Data table header descriptions
ID_REF
VALUE RMA Signal Intensity

Data table
ID_REF VALUE
AFFX-BioB-5_at 440.4
AFFX-BioB-M_at 799.4
AFFX-BioB-3_at 631.2
AFFX-BioC-5_at 1257.9
AFFX-BioC-3_at 1128.2
AFFX-BioDn-5_at 2197.8
AFFX-BioDn-3_at 2881.8
AFFX-CreX-5_at 5454.6
AFFX-CreX-3_at 5675.7
AFFX-DapX-5_at 3.9
AFFX-DapX-M_at 0.9
AFFX-DapX-3_at 2.5
AFFX-LysX-5_at 5.3
AFFX-LysX-M_at 4.2
AFFX-LysX-3_at 0.6
AFFX-PheX-5_at 0.6
AFFX-PheX-M_at 2.4
AFFX-PheX-3_at 1.6
AFFX-ThrX-5_at 4.4
AFFX-ThrX-M_at 1.2

Total number of rows: 45101

Table truncated, full table size 715 Kbytes.




Supplementary file Size Download File type/resource
GSM1969234_Control_HSPC_1.CEL.gz 4.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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