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Sample GSM3891221 Query DataSets for GSM3891221
Status Public on Jan 01, 2021
Title KOEmbryo.1
Sample type SRA
 
Source name Embryos
Organism Mus musculus
Characteristics strain: C57BL/6
genotype: Dcaf11 knock out
tissue: Embryo
Extracted molecule total RNA
Extraction protocol RNAs in embryos lysis with a polyadenylated tail were captured, reverse transcripted and preamplified following the protocol for Smart-seq2 sequence library generation
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
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 Jun 14, 2019
Last update date Jan 02, 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)
GSE132745 Single cell RNA-seq Analysis of Wild Type(WT), Dcaf11 knockout(KO) and Dcaf11 knockdown(KD) embryos
GSE132746 Dcaf11 facilitates telomere elongation in early embryos and embryonic stem cells (ESCs) through activating the Zscan4-mediated alternative lengthening telomere (ALT) mechanism
Relations
BioSample SAMN12058425
SRA SRX6071683

Supplementary file Size Download File type/resource
GSM3891221_KOEmbryo.1.fpkm.txt.gz 528.6 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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