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Sample GSM2074747 Query DataSets for GSM2074747
Status Public on Apr 04, 2016
Title RNA-seq of human keratinocyte progenitors (KP) rep2
Sample type SRA
 
Source name KP
Organism Homo sapiens
Characteristics cell type: Keratinocyte Progenitors
Treatment protocol None
Growth protocol KP cells were obtained from foreskin biopsies of healthy neonatal donors and expanded by cultivation onto lethally irradiated 3T3-J2 cells in growth FAD medium, a DMEM and Ham’s F12 media mixture (2:1) containing FCS (10%), penicillin-streptomycin (1%), glutamine (2%), insulin(5ug/ml), adenine (24.3ug/ml), hydrocortisone (0.4ug/ml), cholera toxin (50ug/ml), triiodotyronine (2nM). DKs were cultivated in KGM serum-free medium (Invitrogen), penicillin-streptomycin (1%) and glutamine (2%).
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using Trizol (Invitrogen, Grand Island, NY) and treated sequentially with the RNeasy Mini Kit (Qiagen, Valencia, CA) and Turbo DNA Free (Ambion, Grand Island, NY).
RNA-seq libraries were prepared from 300 ng RNA using the TruSeq RNA Sample Preparation kit (Illumina) and 75-bp single-end sequences were obtained on a NextSeq 500 Instrument (Illumina)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Data processing Sequence tags were mapped to reference genome Hg19 using TopHat v2.0.6 and transcript levels in triplicate samples were calculated as fragments per kb per 106 mapped reads (FPKM) using Cufflinks v2.0.2.
Genome_build: hg19
Supplementary_files_format_and_content: RPKM were obtained using Cufflinks
 
Submission date Feb 26, 2016
Last update date May 15, 2019
Contact name Luca Petiti
E-mail(s) luca.petiti@itb.cnr.it
Organization name ITB-CNR
Street address Via Fratelli Cervi, 93
City Segrate
State/province Milan
ZIP/Postal code 20090
Country Italy
 
Platform ID GPL18573
Series (2)
GSE64328 Transcriptional Regulationand Chromatin Dynamics inHuman Epithelial Cell Differentiation
GSE78725 Transcriptional Regulationand Chromatin Dynamics inHuman Epithelial Cell Differentiation (RNA-seq)
Relations
BioSample SAMN04519514
SRA SRX1603681

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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