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Sample GSM2345158 Query DataSets for GSM2345158
Status Public on Oct 15, 2016
Title 1123 2014 Lgr5 Ep+ MIXED
Sample type RNA
 
Source name FACS sorted tumor cells
Organism Mus musculus
Characteristics genotype/variation: Lgr5CreER/KrasG12D/p53KO/Rosa-YFP
treatment: 10mg TAM
isolation: FACS
staining: Epcam+/Lin-/DAPI-
Extracted molecule total RNA
Extraction protocol qiagen kit
Label Biotin
Label protocol 25 ng total RNA was amplified using the TransPlex® Complete Whole Transcriptome Amplification Kit (Sigma; reference WTA2) and 8 µg of cDNA were subsequently fragmented and labeled using GeneChip Human Mapping 250K Nsp Assay Kit (Affymetrix; catalog # 900766), according to manufacturer's instructions.
 
Hybridization protocol cDNA was hybridized to Affymetrix Mouse Genome 430PM strip arrays for 16 hours at 45ºC.Washing and staining of microarrays was performed using the GeneAtlas Fluidics Station (Affymetrix, Santa Clara, CA)
Scan protocol GeneChips were scanned in a GeneAtlas Imaging Station (Affymetrix, Santa Clara, CA)
Data processing RMA normalization method and batch effect removal with ComBat
 
Submission date Oct 14, 2016
Last update date Oct 17, 2016
Contact name Cédric Blanpain
E-mail(s) cedric.blanpain@ulb.ac.be
Organization name ULB
Street address Route de Lennik 808
City Brussels
ZIP/Postal code 1070
Country Belgium
 
Platform ID GPL11180
Series (2)
GSE71621 Cell type-specific chromatin states differentially prime squamous cell carcinoma tumor-initiating cells for epithelial to mesenchymal transition
GSE88762 Cell type-specific chromatin states differentially prime squamous cell carcinoma tumor-initiating cells for epithelial to mesenchymal transition [expression 2]

Data table header descriptions
ID_REF
VALUE log2 RMA expression estimate corrected for batch effect

Data table
ID_REF VALUE
1415670_PM_at 10.62255294
1415671_PM_at 10.20710944
1415672_PM_at 8.090473279
1415673_PM_at 8.710568789
1415674_PM_a_at 8.313779609
1415675_PM_at 8.902378768
1415676_PM_a_at 10.86733724
1415677_PM_at 10.03741458
1415678_PM_at 9.67768008
1415679_PM_at 11.06381376
1415680_PM_at 8.643193683
1415681_PM_at 9.323994615
1415682_PM_at 7.355588368
1415683_PM_at 8.617808156
1415684_PM_at 4.486773524
1415685_PM_at 6.104838192
1415686_PM_at 9.025461234
1415687_PM_a_at 10.13639745
1415688_PM_at 7.770076277
1415689_PM_s_at 6.245662794

Total number of rows: 45141

Table truncated, full table size 1159 Kbytes.




Supplementary file Size Download File type/resource
GSM2345158_1123_2014.ga_Lgr5_EP+_MIXED.cel.gz 2.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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