Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Serum response factor reduces gene expression noise and confers cell state stability

ABSTRACT: Serum response factor reduces gene expression noise and confers cell state stability

PROVIDER: PRJNA863612 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR20710502_1.fastq.gz	Fastqsanger.gz
	SRR20710502_2.fastq.gz	Fastqsanger.gz
	SRR20710503_1.fastq.gz	Fastqsanger.gz
	SRR20710503_2.fastq.gz	Fastqsanger.gz
	SRR20710504_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 14

Similar Datasets

Serum response factor reduces gene expression noise and confers cell state stability (scRNA-Seq)

Project description:Serum response factor reduces gene expression noise and confers cell state stability (scRNA-Seq)

| PRJNA863617 | ENA

Serum response factor reduces gene expression noise and confers cell state stability (Bulk RNA-Seq)

Project description:Serum response factor reduces gene expression noise and confers cell state stability (Bulk RNA-Seq)

| PRJNA863618 | ENA

Serum response factor reduces gene expression noise and confers cell state stability (scRNA-Seq)

Project description:To explore whether SRF controls cell state heterogeneity, SRF KO or wild type (WT) iPSCs cultured in serum containing medium.

2023-01-01 | GSE210073 | GEO

Serum response factor reduces gene expression noise and confers cell state stability (Bulk RNA-Seq)

Project description:To explore whether SRF controls cell state heterogeneity, SRF KO or wild type (WT) iPSCs cultured in serum containing medium.

2023-01-01 | GSE210072 | GEO

Serum response factor reduces gene expression noise and confers cell state stability

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-01-01 | GSE210074 | GEO

Serum Response Factor Reduces Gene Expression Noise and Confers Cell State Stability.

Project description:The role of serum response factor (Srf), a central mediator of actin dynamics and mechanical signaling, in cell identity regulation is debated to be either a stabilizer or a destabilizer. We investigated the role of Srf in cell fate stability using mouse pluripotent stem cells. Despite the fact that serum-containing cultures yield heterogeneous gene expression, deletion of Srf in mouse pluripotent stem cells leads to further exacerbated cell state heterogeneity. The exaggerated heterogeneity is detectible not only as increased lineage priming but also as the developmentally earlier 2C-like cell state. Thus, pluripotent cells explore more variety of cellular states in both directions of development surrounding naïve pluripotency, a behavior that is constrained by Srf. These results support that Srf functions as a cell state stabilizer, providing rationale for its functional modulation in cell fate intervention and engineering.

| S-EPMC11009695 | biostudies-literature

Validation of noise models for single-cell transcriptomics

2014-04-20 | GSE54695 | GEO

Validation of noise models for single-cell transcriptomics

Project description:Single-cell transcriptomics has recently emerged as a powerful technology to explore gene expression heterogeneity amongst single cells. Here we identify two major sources of technical variability, sampling noise and global cell-to-cell variation in sequencing efficiency. We propose noise models to correct for this and after validation by single-molecule FISH experiments, we apply these models to demonstrate that growing mES cells in 2i instead of serum/LIF globally reduces gene expression variability. J1 mouse embryonic stem cells (mESCs) were cutured in 2i or in serum medium. Cells were dissociated into a single cell suspension and picked under a stereomicroscope using a 30Î¼m glass capillary and mouth pipette. Picked cells were deposited in the lid of an 0.5ml LoBind eppendorf tube and snap frozen in liquid nitrogen. For the pool and split controls, approximately 1 million cells were lysed, the amount of RNA was quantified on a bioanalyzer (Agilent) using the Eukaryote Total RNA pico kit. 20pg aliquots of total RNA were used for each pool and split control. Single cells and controls were processed using the previously described CEL-seq technique, with a few alterations. A 4bp random barcode as unique molecular identifier (UMI) was added to the primer in between the cell specific barcode and the poly T stretch. Libraries were sequenced on an Illumina HighSeq 2500 using 50bp paired end sequencing. For cells and controls, two libraries were sequenced on two lanes in total for each condition.

2014-04-20 | E-GEOD-54695 | biostudies-arrayexpress

Cooperative assembly confers regulatory specificity and long-term genetic circuit stability

Project description:Cooperative assembly confers regulatory specificity and long-term genetic circuit stability

| PRJNA838831 | ENA

Nucleosome noise

Project description:Fuzziness and noise in nucleosomal architecture

| PRJEB4709 | ENA