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Sample GSM2752133 Query DataSets for GSM2752133
Status Public on Aug 20, 2018
Title D5(39Y)-1
Sample type SRA
 
Source name fibroblast induced D5
Organism Homo sapiens
Characteristics cell type: fibroblast induced D5
Treatment protocol Fibroblasts were treated by small molecule cocktail for 12 days,and treated for 5 days were denoted as fibroblast induced D5, for 12 days denoted as fibroblast induced D12, and on day 15 denoted as mesenchymal stem cell-LC D15.
Growth protocol Human fibroblast cells and fibroblast-derived cells till 15 days were routinely maintained in DMEM (Hyclone) with 10% fetal bovine serum(BI), bone mesenchymal stem cell and MSC-LC were cultured in MSC medium(MSC medium (Cyagen, HUXMA-90011) for expansion.
Extracted molecule total RNA
Extraction protocol A total amount of 2 μg RNA per sample was used as input material for the RNA sample preparations.mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.
Sequencing libraries were generated using NEBNext® Ultra™ RNA Library Prep Kit for Illumina® (#E7530L, NEB, USA) according to the instruction manual.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model HiSeq X Ten
 
Description P52
Data processing Bowtie2 v2.2.3 was used for building the genome index, and Clean Data was mapped to the reference genome (hg19) using TopHat v2.0.12.
Reads Count for each gene in each sample was counted by HTSeq v0.6.0.Fragment per kilobases per million mapped reads were calculated by Cufflinks(v2.2.1).
Genome_build: hg19
Supplementary_files_format_and_content: "counts.csv" containes gene counts;"fpkm.csv" contains gene fpkm values.
 
Submission date Aug 23, 2017
Last update date May 15, 2019
Contact name Kunshan Zhang
E-mail(s) mart555@163.com
Organization name Tongji Hospital, Tongji University
Department Stem cell Translational Research center
Street address 389 Xincun Road
City Shanghai
ZIP/Postal code 200092
Country China
 
Platform ID GPL20795
Series (1)
GSE102983 Rejuvenation and conversion of skin fibroblasts for immune modulation and bone and cartilage repair in vivo
Relations
BioSample SAMN07545956
SRA SRX3118416

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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