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Sample GSM636714 Query DataSets for GSM636714
Status Public on Sep 13, 2011
Title MIY_day_5-3
Sample type RNA
 
Source name Dot1l flox/flox day 5 after transduction with control
Organism Mus musculus
Characteristics strain: B6129
cell type: MLL-AF9 leukemia cells
genotype: Dot1l flox/flox
days after transduction: 5
Treatment protocol Sorted GFP-positive Dot1l flox/flox MLL-AF9 leukemia cells were transduced with retroviral Cre-YFP or YFP control vector. GFP/YFP positive cells were sorted on days 3, 5, and 7.
Growth protocol Leukemias were generated by injecting 100 000 MLL-AF9-GFP transduced Dot1l flox/flox 4 days after transduction into B6129 recipients. Bulk leukemia cells were isolated from leukemic mice.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Trizol. RNA was prepared using the Nugen Ovation Pico WTA system.
Label Biotin
Label protocol Amplified cDNA was labeled using the Nugene Encore TM Biotin Module.
 
Hybridization protocol 5 μg of labeled cDNA was hybridized to the Affymetrix 430 2.0 microarray using standard conditions.
Scan protocol GeneChip Scanner 3000, 7G. Standard Affymetrix protocol.
Description Loss of Dot1l in MLL-AF9 murine leukemia.
Data processing RMA background correction and quantile normalization was done with the GenePattern ExpressionFileCreator module (http://www.broad.mit.edu/cancer/software/genepattern/), which uses the Bioconductor implementation of RMA (http://www.bioconductor.org/). This function computes the Robust Multichip Average expression measure described in Irizarry et al. Biostatistics (2003).
 
Submission date Dec 07, 2010
Last update date Sep 13, 2011
Contact name Amit Sinha
E-mail(s) amit.sinha@childrens.harvard.edu
Phone 617-582-7579
Organization name Dana-Farber Cancer Institute
Department Pediatric Oncology
Lab Armstrong Lab
Street address 44 Binney St
City Boston
State/province MA
ZIP/Postal code 02135
Country USA
 
Platform ID GPL1261
Series (1)
GSE25911 Expression changes after loss of Dot1l in murine MLL-AF9 leukemia cells

Data table header descriptions
ID_REF
VALUE RMA-normalized intensity

Data table
ID_REF VALUE
1415670_at 4473.41027
1415671_at 1990.273369
1415672_at 1670.941508
1415673_at 604.4684823
1415674_a_at 644.3199388
1415675_at 384.7260578
1415676_a_at 1646.758771
1415677_at 698.0134092
1415678_at 1017.757442
1415679_at 1595.701817
1415680_at 716.6378333
1415681_at 663.9882099
1415682_at 913.797969
1415683_at 1164.936655
1415684_at 160.7156027
1415685_at 722.7335455
1415686_at 2717.09309
1415687_a_at 1471.513586
1415688_at 211.4389106
1415689_s_at 141.0904043

Total number of rows: 45101

Table truncated, full table size 1026 Kbytes.




Supplementary file Size Download File type/resource
GSM636714.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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