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Sample GSM1834192 Query DataSets for GSM1834192
Status Public on Jun 23, 2016
Title EV_RAS_day12_2
Sample type RNA
 
Source name HSPCs in vitro, EV;RAS transduced, day 12
Organism Mus musculus
Characteristics genotype: EV;NRASG12D
time point: day 12 post-transduction
cell type: Lin- enriched hematopoietic stem/progenitor cells
Treatment protocol Primary HSPC Cells were retrovirally infected with NRAS G12D alone (EV-RAS), DNMT3A R882H with NRAS G12D (RH-RAS) or DNMT3A WT with NRAS G12D (WT-RAS)
Growth protocol Lin- enriched murine hematopoietic stem/progenitor cells leukemia progenitor cell lines were cultured in Opti-MEM base medium supplemented with 10% FBS, 1% antibiotics, 50 μM mercaptoethanol and stem cell factor
Extracted molecule total RNA
Extraction protocol Total RNA was isolated with the Rneasy Plus Miniprep Kit (Qiagen).
Label biotin
Label protocol The cDNA was fragmented and terminally labeled with biotin, using the Affymetrix GeneChip WT Terminal Labeling kit (Affymetrix, Santa Clara, CA)
 
Hybridization protocol Samples were hybridized with Affymetrix Mouse Gene 2.1 ST Array Strip (Affymetrix) according to the manifacture's instruction.
Scan protocol Standard Affymetrix protocol
Data processing Hybridization signals were retrieved and normalized, followed by differential expression analysis and statistical analysis using GeneSpring Analysis Platform GX 12.6 (Agilent Technologies).
MoGene-2_1-st.pgf
MoGene-2_1-st.mps
 
Submission date Jul 28, 2015
Last update date Jun 23, 2016
Contact name Rui Lu
E-mail(s) ruilu1@uabmc.edu
Organization name Univ of Alabama at Birmingham
Street address 1824 6th Ave S
City Birmingham
State/province AL
ZIP/Postal code 35294
Country USA
 
Platform ID GPL17400
Series (2)
GSE71437 Effect of DNMT3A R882H mutation or WT on gene expression in hematopoietic stem/progenitor cells with NRAS G12D co-transduction (Microarray)
GSE71475 Epigenetic perturbations by Arg882-mutated DNMT3A potentiate aberrant stem cell gene expression program and acute leukemia development

Data table header descriptions
ID_REF
VALUE RMA normalized expression, log2 transformed

Data table
ID_REF VALUE
17210850 2.011054
17210852 2.156409
17210855 11.00825
17210869 10.24529
17210883 2.792971
17210887 10.22518
17210904 3.623033
17210912 9.163769
17210947 3.765499
17210953 6.490289
17210984 9.102654
17210994 3.52273
17210996 2.980776
17210998 2.105019
17211000 8.258471
17211004 6.076191
17211023 3.704964
17211033 3.306209
17211043 11.26813
17211066 3.487884

Total number of rows: 41345

Table truncated, full table size 722 Kbytes.




Supplementary file Size Download File type/resource
GSM1834192_EV_RAS_day12_2.CEL.gz 4.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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