|
Status |
Public on Jun 30, 2023 |
Title |
H1_Day10_rep1 |
Sample type |
SRA |
|
|
Source name |
H1_Day10
|
Organism |
Homo sapiens |
Characteristics |
cell line: H1 cell type: human embryonic stem cells (hESCs) genotype/variation: Wild type differentiation time: Day10
|
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 |
SAMN22876523 |
SRA |
SRX12968581 |