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Sample GSM1545151 Query DataSets for GSM1545151
Status Public on Mar 21, 2016
Title Empty Vector Rep 2
Sample type RNA
 
Source name Negative Control
Organism Mus musculus
Characteristics cell type: ESC
genotype/variation: Empty Vector
Treatment protocol Adherent cells were infected with lentivirus for 48 hrs in the presence of polybrene 10 mcg/mL. Media was then changed to ES cell media with LIF and puromycin (4 mcg/mL). Cells were then cultured for 48hrs post infection.
Growth protocol CJ9 (129svj derived ESCs) were grown under standard conditions prior to infection
Extracted molecule total RNA
Extraction protocol Cells were lysed with Trizol and total RNA collected. Total RNA was further purified by the Qiagen RNA isolation system per manufacturer's protocol.
Label Biotin
Label protocol The cDNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual
 
Hybridization protocol Per affymetrix manual
Scan protocol After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner LR15
Data processing .gct and .res files were created by RMA normalization using GenePattern (https://www.broad.harvard.edu/cancer/software/genepattern/). These files (specifically the .gct) was used for downstream analysis by GSEA
 
Submission date Nov 14, 2014
Last update date Mar 22, 2016
Contact name Sridhar Rao
E-mail(s) sridhar.rao@bcw.edu
Phone 4149373841
Organization name BloodCenter of Wisconsin
Department Blood Research Institute
Street address 8727 Watertown Plank Road
City Milwaukee
State/province WI
ZIP/Postal code 53226
Country USA
 
Platform ID GPL1261
Series (2)
GSE63291 The cohesin offloading factor Wapal is required for proper polycomb-mediated gene silencing [array]
GSE63325 The cohesin associated factor Wapal is required for proper polycomb-mediated gene silencing

Data table header descriptions
ID_REF
VALUE RMA normalized intensities

Data table
ID_REF VALUE
1415670_at 335.4027776
1415671_at 1276.607074
1415672_at 2752.969467
1415673_at 897.7095983
1415674_a_at 781.9384401
1415675_at 483.5886114
1415676_a_at 4691.322048
1415677_at 241.9868334
1415678_at 1276.724726
1415679_at 1671.079999
1415680_at 768.0276046
1415681_at 1438.923083
1415682_at 236.6018643
1415683_at 3342.877017
1415684_at 451.2641348
1415685_at 959.5330559
1415686_at 429.7929505
1415687_a_at 651.8106766
1415688_at 2161.836449
1415689_s_at 326.5886114

Total number of rows: 45101

Table truncated, full table size 1026 Kbytes.




Supplementary file Size Download File type/resource
GSM1545151_Empty_Vector_2.CEL.gz 3.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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