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Sample GSM6199131 Query DataSets for GSM6199131
Status Public on Mar 03, 2023
Title PDhigh iHDF-T_2
Sample type SRA
 
Source name iHDF-T
Organism Homo sapiens
Characteristics cell type: human dermal fibroblast
cell line: iHDF-T
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using MicroElute Total RNA Kit (Omega Bio-Tek R6831). Bioanalyzer’s RQN values were at least 9.9 for all RNAs
TruSeq Stranded mRNA Sample Preparation Guide, Part #15031047 Rev. E
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description 110_F3
Data processing RNA expression levels were extracted from the RNA-seq data using featureCounts function available in Bioconductor R package Rsubread (Liao et al., 2014), after alignment on GRCh38 with STAR (Dobin et al., 2013) of trimmed reads by Trim Galore! (Krueger F, 2012).
Previously, these trimmed reads had been processed to remove ribosomal RNA contamination sequences using BWA (Li and Durbin, 2009). The last GENCODE database that contains RNA information of was used with featureCounts function.
Assembly: GRCh38
Supplementary files format and content: Excel (.xlsx) file containing total counts per sample for each gene as obtained after featureCounts function.
 
Submission date May 26, 2022
Last update date Mar 03, 2023
Contact name Roque Bort
Organization name IIS La Fe
Department Unidad Hepatologia Experimental
Street address Campanar 21
City Valencia
ZIP/Postal code 46009
Country Spain
 
Platform ID GPL11154
Series (1)
GSE204867 Transcriptomic analysis of hepatocyte-like cells generated by doxycycline inducible expression of HNF4A, HNF1A and FOXA3
Relations
BioSample SAMN28679696
SRA SRX15470250

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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