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Sample GSM2866504 Query DataSets for GSM2866504
Status Public on Nov 28, 2019
Title Ind-HGM-1
Sample type SRA
 
Source name induced nephron progenitor
Organism Homo sapiens
Characteristics tissue: induced nephron progenitor
culture media: HGM
induced: doxycycline
clone: CRL1502 clone C32
Extracted molecule total RNA
Extraction protocol RNA were extracted using a Bioline Isolate II Mini kit
TruSeq stranded total RNA with RiboZero rRNA depletion
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Data processing Fastq files were generated using the bcl to fastQ converter 2.17.
The raw reads were quality and adapter trimmed using trimmomatic (v0.35)
The trimmed reads were mapped to the human genome (hg38) using the STAR aligner version 2.5.2a in the two pass mapping mode
The mapped reads were quantified at the gene level using featureCounts version 1.5.0-p3 using GENCODE Release 20 comprehensive annotation
Genome_build: hg38
Supplementary_files_format_and_content: Tab delimited text file with Gene id and Gene length in the first two columns, followed by 9 columns containing counts for each sample
 
Submission date Nov 28, 2017
Last update date Nov 28, 2019
Contact name Andrew Lonsdale
E-mail(s) andrew.lonsdale@mcri.edu.au
Organization name Murdoch Children's Research Institute
Street address 50 Flemington Rd
City Parkville
State/province VIC
ZIP/Postal code 3052
Country Australia
 
Platform ID GPL18573
Series (1)
GSE107410 Inducible three-factor direct reprogramming to nephron progenitors using piggyBac transposons
Relations
BioSample SAMN08103795
SRA SRX3425797

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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