GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM3891222 Query DataSets for GSM3891222
Status Public on Jan 01, 2021
Title KOEmbryo.2
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
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
BioSample SAMN12058424
SRA SRX6071684

Supplementary file Size Download File type/resource
GSM3891222_KOEmbryo.2.fpkm.txt.gz 528.8 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap