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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
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
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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