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Sample GSM869035 Query DataSets for GSM869035
Status Public on Feb 02, 2012
Title d6_kc_diff_1
Sample type SRA
Source name Primary human keratinocytes
Organism Homo sapiens
Characteristics cell type: primary keratinocytes
day of differentiation: d6
Treatment protocol See above for differentiation induction cell culture conditions
Growth protocol Keratinocytes were grown in Gibco SFM medium in sub-confluent conditions for the d0, progenitor state, and induced to differentiate by plating the cells at confluency and treating the cells with SFM medium + 1.2 mM Ca2+ for 3 or 6 days to induce differentiation.
Extracted molecule polyA RNA
Extraction protocol Illumina PE RNA seq library prep protocol
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Description Paired end RNAseq
d6_kc_diff_1: Day 6 differentiated keratinocytes RNA sequencing paired end 1
d6_kc_diff_2: Day 6 differentiated keratinocytes RNA sequencing paired end 2
Day 6 differentiated keratinocytes BigWig file aligned to hg18
Data processing Reads in each sample were aligned to hg18 using TopHat and reference annotation based transcriptome assembly was performed with Cufflinks. Differential expression analysis was performed with the Cuffdiff module of Cufflinks.
Genome Build: hg18
Submission date Feb 01, 2012
Last update date Oct 11, 2022
Contact name Douglas Porter
Organization name Stanford
Department Dermatology
Lab Khavari
Street address 269 Campus Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platform ID GPL11154
Series (2)
GSE35468 Transcriptome profiling of epidermal differentiation
GSE58161 Suppression of progenitor differentiation requires the long noncoding RNA ANCR
SRA SRX118283
BioSample SAMN00779916

Supplementary file Size Download File type/resource 105.2 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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