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Sample GSM5493818 Query DataSets for GSM5493818
Status Public on Nov 10, 2021
Title shRACK1 A2
Sample type SRA
Source name epidermal progenitor cells
Organism Homo sapiens
Characteristics tissue: neonatal foreskin
cell type: primary keratinocytes
genotype: shRACK1-A knockdown
Treatment protocol shCTR (non-targeting), shRACK1-A, shRACK1-J knockdown
Growth protocol Epidermal progenitor cells were grown on culture dishes and maintained in keratinocyte Epilife medium plus HKGS (Life technologies)
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using GeneJET RNA purification kit (Thermo Scientific)
RNA-seq libraries were prepared with TruSeq RNA Library Prep Kit (Illumina) then multiplexed
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model NextSeq 2000
Data processing Illumina Nextseq2000 reads were trimmed and filtered using Partek Flow. High quality reads were aligned using STAR.
Aligned reads were mapped to RefSeq and normalized using Partek Flow. Genes with reads less than 10 were excluded in every sample.
Statistics were calculated by ANOVA and differential genes was selected based on p-values <0.05 and with a >2 fold change (+/-).
Genome_build: hg19
Supplementary_files_format_and_content: txt file with normalized gene read counts
Submission date Aug 01, 2021
Last update date Nov 10, 2021
Contact name George Sen
Organization name University of Californai San diego
Department Dermatology
Lab George Sen
Street address 9452 Medical Center Dr
City La Jolla
State/province California
ZIP/Postal code 92037
Country USA
Platform ID GPL30173
Series (1)
GSE181265 RACK1 prevents premature differentiation of epidermal progenitors by inhibiting IRF6 expression
BioSample SAMN20514843
SRA SRX11623465

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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