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Series GSE132589 Query DataSets for GSE132589
Status Public on Jun 04, 2020
Title Allele-specific mRNA expression analysis in 129/CAST hybrid mESCs by single-cell full-length total RNA-sequencing
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Cell-to-cell heterogeneity in gene expression can even be observed in the same type of cells, present in a similar environment. Transcriptional bursting is thought to be one of contributing factors to the heterogeneity, but it remains elusive how the kinetic properties of transcriptional bursting (e.g. burst size, burst frequency, and noise induced by transcriptional bursting) are regulated in mammalian cells. Here, by using single-cell, full-length total RNA-sequencing, we performed genome-wide analysis of transcriptional bursting in mouse embryonic stem cells (mESCs). We found that the kinetics of transcriptional bursting is gene-specific and is determined by a combination of promoter and gene body binding proteins, including polycomb repressive complex 2 and transcription elongation-related factors.
Overall design To study kinetic properties of transcriptional bursting genome-wide, we analyzed allele-specific mRNA levels in 129/CAST hybrid mESCs (grown on Laminin-511 (LN511) without feeder cells in G1 phase) by RamDA-Seq - a highly sensitive RNA-Seq method capable of determining the full-length of transcript at single cell level (Hayashi et al., 2018).
Web link
Contributor(s) Hayashi T, Nikaido I, Ochiai H
Citation(s) 32596448
Submission date Jun 12, 2019
Last update date Jul 15, 2020
Contact name Itoshi NIKAIDO
Organization name RIKEN
Department Center for Biosystems Dynamics Research
Lab Laboratory for Bioinformatics Research
Street address 2-1 Hirosawa
City Wako
State/province Saitama
ZIP/Postal code 351-0198
Country Japan
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (419)
GSM3878141 PDIS9063-002
GSM3878142 PDIS9063-003
GSM3878143 PDIS9063-004
This SubSeries is part of SuperSeries:
GSE132593 Genome-wide kinetic properties of transcriptional bursting in mouse embryonic stem cells
BioProject PRJNA548635
SRA SRP201374

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE132589_ASEcount_G1_129.txt.gz 11.8 Mb (ftp)(http) TXT
GSE132589_ASEcount_G1_CAST.txt.gz 12.4 Mb (ftp)(http) TXT
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