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Sample GSM5456758 Query DataSets for GSM5456758
Status Public on Jul 17, 2021
Title OE-ES-2
Sample type SRA
 
Source name overexpressionES
Organism Mus musculus
Characteristics cell type: Embryonic stem cells
strain: 129Sv
genotype: Dcaf11 overexpression
Extracted molecule total RNA
Extraction protocol The RNA samples were subjected to mRNA fragmentation, cDNA synthesis, and library preparation using a KAPA Stranded mRNA-Seq Kit Illumina platform (KK8440; Kapa, Wilmington, USA), following the manufacturer’s instructions.
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy ssRNA-seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description Gene Abundance
Data processing RNA-seq raw reads were processed by BBDuk(version 38.34) to removed adapters and trim low-quality reads. Reads( >35bp) were aligned to the mouse genome (mm9) using STAR(version 0.6.0).
Refseq genes were quantified to FPKM using Stringtie.
Deseq2 was used to perform differential analysis.
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample
 
Submission date Jul 16, 2021
Last update date Jul 19, 2021
Contact name Yixin Huang
E-mail(s) 1710944@tongji.edu.cn
Organization name Tongji University
Street address Siping Road
City Shanghai
ZIP/Postal code 200092
Country China
 
Platform ID GPL24247
Series (2)
GSE132746 Dcaf11 facilitates telomere elongation in early embryos and embryonic stem cells (ESCs) through activating the Zscan4-mediated alternative lengthening telomere (ALT) mechanism
GSE180259 RNA-seq Analysis of Wild Type(WT) and Dcaf11 overexpression (OE) ESCs
Relations
BioSample SAMN20284371
SRA SRX11484785

Supplementary file Size Download File type/resource
GSM5456758_OE-ES-2.fpkm.txt.gz 555.1 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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