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Sample GSM2345159 Query DataSets for GSM2345159
Status Public on Oct 15, 2016
Title 605 2015 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 10.36229753
1415671_PM_at 10.18361562
1415672_PM_at 8.175815301
1415673_PM_at 8.737361055
1415674_PM_a_at 8.199463363
1415675_PM_at 8.982505378
1415676_PM_a_at 11.11348233
1415677_PM_at 10.16885918
1415678_PM_at 9.328899205
1415679_PM_at 10.88948377
1415680_PM_at 8.922675082
1415681_PM_at 9.309970019
1415682_PM_at 7.631543745
1415683_PM_at 8.858474375
1415684_PM_at 4.382919732
1415685_PM_at 6.298116836
1415686_PM_at 9.146054805
1415687_PM_a_at 9.989353819
1415688_PM_at 7.558467511
1415689_PM_s_at 5.571435059

Total number of rows: 45141

Table truncated, full table size 1159 Kbytes.




Supplementary file Size Download File type/resource
GSM2345159_605_2015_Lgr5_Ep+_MIXED.cel.gz 2.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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