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Sample GSM8162640 Query DataSets for GSM8162640
Status Public on Mar 29, 2024
Title longissimus dorsi, jm3
Sample type SRA
Source name longissimus dorsi
Organism Bos taurus
Characteristics tissue: longissimus dorsi
breed: Jiaxian Red
Extracted molecule total RNA
Extraction protocol RNA was harvested using TRNzol Universal Reagent+small(DP424+RK177-A).A total amount of 3 µg RNA per sample was used as input material for the RNA sample preparations.
RNA libraries for RNA-seq were prepared using NEBNext® UltraTM RNA Library Prep Kit following manufacturer’s protocols.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
Description JM3-FPKM
Data processing Quality control.Raw data (raw reads) of fastq format were firstly processed through in-house perl scripts.
Reads mapping to the reference genome.Reads mapping to the reference genome.
Quantification of gene expression level.HTSeq v0.6.0 was used to count the reads numbers mapped to each gene.
Differential expression analysis.(For DESeq2 with biological replicates) Differential expression analysis of two conditions/groups (two biological replicates per condition) was performed using the DESeq2 R package (1.10.1).
Assembly: Bos taurus UMD3.1.1
Supplementary files format and content: 1ab-delimited text file includes FPKM values for each Sample
Submission date Mar 22, 2024
Last update date Mar 29, 2024
Contact name Geyang Zhang
Organization name Henan Academy of Agricultural Sciences
Department Animal husbandry institute
Street address 116 Huayuan Road, Jinshui District
City Zhengzhou
State/province Henan
ZIP/Postal code 450002
Country China
Platform ID GPL26012
Series (1)
GSE262289 POLB regulates proliferation and apoptosis of bovine primary myocytes
BioSample SAMN40583869
SRA SRX24028063

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA

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