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Sample GSM5670276 Query DataSets for GSM5670276
Status Public on Jun 30, 2023
Title PERK_KO_Day1_rep3
Sample type SRA
Source name PERK_KO_Day1
Organism Homo sapiens
Characteristics cell line: H1
cell type: human embryonic stem cells (hESCs)
genotype/variation: PERK KO
differentiation time: Day1
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the NucleoZol reagent and quantified by NanoDrop spectrophotometer.
mRNA libraries were prepared using the VAHTS® mRNA-seq V2 Library Prep Kit for Illumina from Vazyme protocols
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Data processing Illumina Casava software used for basecalling.
Raw RNA-seq sequenced reads were quality tested using FASTQC
Data were aligned to GRCh38/hg38 Homo sapiens reference genome using STAR aligner with ENCODE standard options for long RNA-seq pipeline
RSEM was used to estimate gene expression abundance and calculate TPM values
Genome_build: hg38
Supplementary_files_format_and_content: tab-delimited text files include counts values for each Sample
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
Submission date Nov 04, 2021
Last update date Jun 30, 2023
Contact name Weisheng Cheng
Organization name Sun yat-sen University
Street address 2nd Zhongshan Road
City Guangzhou
ZIP/Postal code 510080
Country China
Platform ID GPL11154
Series (2)
GSE188111 Genome-wide transcriptomic profiling of cardiomyocyte differentiation from Wild-type and PERK-KO H1 hESCs [RNA-seq]
GSE188123 RNA-seq and ChIP-seq studies of cardiomyocyte differentiation from H1 hESCs
BioSample SAMN22876529
SRA SRX12968589

Supplementary file Size Download File type/resource
GSM5670276_PERK_KO_Day1_rep3_rsem.genes.results.txt.gz 2.4 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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