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Sample GSM5670275 Query DataSets for GSM5670275
Status Public on Jun 30, 2023
Title PERK_KO_Day1_rep2
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
E-mail(s) chengwsh@outlook.com
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
Relations
BioSample SAMN22876528
SRA SRX12968588

Supplementary file Size Download File type/resource
GSM5670275_PERK_KO_Day1_rep2_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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