Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Step-wise differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells (mESCs) using developmental logic [bulk RNA-seq]

ABSTRACT: Step-wise differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells (mESCs) using developmental logic [bulk RNA-seq]

PROVIDER: PRJNA771123 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR16323955.fastq.gz	Fastqsanger.gz
	SRR16323956.fastq.gz	Fastqsanger.gz
	SRR16323957.fastq.gz	Fastqsanger.gz
	SRR16323958.fastq.gz	Fastqsanger.gz
	SRR16323959.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 45

Similar Datasets

Step-wise differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells (mESCs) using developmental logic [bulk RNA-seq]

Project description:We directed mESCs towards the neuromesodermal progenitor state (NMPs) that contribute to the spinal cord cells in the embryo. We then tested if ESC-derived NMPs can be directed to generate diverse sensory neuronal subtypes by testing different combinations of growth factors RA and BMP4 which are crucial for providing patterning information during spinal cord development. By bulk-RNA seq analysis of the entire timeline of the mESC differentiation under various conditions, we identified differentiation trajectories that lead to sensory neurons or completely different cardiac cell types under RA/+BMP4 conditions. We also characterized the gene expression changes that occur when cells transition from different states while differentiating into sensory neurons and identified Wnt signaling being a regulator of proliferation working directly downstream of BMP4 signaling in the mESC cultures.

2022-07-09 | GSE185889 | GEO

Differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells

Project description:Differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells

| PRJNA771110 | ENA

Differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells (mESCs) [10X]

Project description:Differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells (mESCs) [10X]

| PRJNA771124 | ENA

Differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells

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

2022-07-08 | GSE185891 | GEO

miRNA profiling of biliary intraepithelial neoplasia reveals step-wise tumorigenesis in cholangiocarcinoma

Project description:miRNA profiling of biliary intraepithelial neoplasia reveals step-wise tumorigenesis in cholangiocarcinoma

| PRJNA587995 | ENA

Chronic stress causes striatal disinhibition mediated by SOM-interneurons

Project description:Chronic stress is a major triggering factor for neuropsychiatric disorders including obsessive-compulsive disorder (OCD), a mental health condition characterized by motor stereotypies and striatal overactivation. However, the mechanisms at the cell- and microcircuit-level through which stress triggers motor symptoms is currently unknown. Here, we report that chronic stress (CS) in mice alters dorsomedial striatum (DMS) function, by affecting GABAergic interneuron populations and somatostatin-positive (SOM) interneurons in particular. Specifically, we show that CS impairs communication between SOM interneurons and medium spiny neurons, promoting striatal overactivation / disinhibition and increased motor output. Using probabilistic machine learning for analyzing animal behavior we further demonstrate that in vivo chemogenetic manipulation of SOM interneurons in DMS modulates motor phenotypes in stressed mice. Altogether, we propose a causal link between dysfunction of striatal SOM interneurons and motor symptoms in stress-related neuropsychiatric disorders.

2022-12-13 | PXD031193 | Pride

Differentiation of entire complement of spinal sensory interneurons from mouse embryonic stem cells (mESCs) [10X]

Project description:By utilizing single-cell analysis of neurons that are produced at day 9 of mESC differentiation period (day 9) under the developmentally relevent signals- Retinoic acid and BMP4, we identified that our protocol can generate all major sensory neuron subtypes that are required for relaying sensation like pain, itch, heat and proprioception in the spinal cord. This analysis also identified functional features in each neuronal subtypes, confirming the bonafide status of the in vitro derived sensory neurons.

2022-07-09 | GSE185890 | GEO

Magnetic Gold Nanoshells: Step-wise Changing of Magnetism through Step-wise Biofunctionalization.

Project description:We report step-wise changing of magnetic behavior of iron oxide core gold shell nanoparticles from super paramagnetic to permanent magnetism at room temperature, on step-wise bio-functionalization with leutenizing hormone and releasing hormone (LHRH) through cysteamine linker. The observed permanent magnetism at room temperature in LHRH-capped gold nanoshells provides opportunities to extend fundamental investigations of permanent magnetism to other novel nanostructures and biofunctionalized nano gold architectures, simultaneously opening the way to newer applications, especially to those in biomedicine.

| S-EPMC3641784 | biostudies-literature

Transcriptional alterations in Nucleus Accumbens somatostatin interneurons following exposure to cocaine

Project description:Total RNA-sequencing of FACs isolated nucleus accumbens somatostatin interneuron nuclei Somatostatin interneuron loss in multiple cortical brain regions has been observed postmortem in humans with several neuropsychiatric disorders and their loss is proposed to underlie some common pathological changes in circuit function across numerous syndromes. However, somatostatin interneurons in the nucleus accumbens (NAc), a key brain reward region, remain poorly understood due to the fact that these cells account for <1% of NAc neurons. Here, we used Flouresence activated cell sorting to isolate nuclei of somatostatin-expressing interneurons in the Nucleus Accumbens from individual SST-TLG498 reporter mice that express membrane bound EGFP-F specifically in somatostatin-expressing neurons. We then performed cell-type specific Total RNA-sequencing to characterize the entire transcriptome of NAc somatostatin interneurons after repeated exposure (7 days) to either saline or cocaine. We identified a wide variety of coding and non-coding transcripts that were expressed at high levels and were differentially expressed between saline and cocaine treated mice. Repeated cocaine administration induces transcriptome-wide changes in gene expression within NAc somatostatin interneurons, with particular regulation of transcripts related to neural plasticity. Our results identify alterations in NAc induced by cocaine in a sparse population of somatostatin interneurons, and illustrate the value of studying brain diseases using cell type-specific whole transcriptome RNA-sequencing to identify novel neurpathophysiology.

2018-07-03 | GSE116484 | GEO

The landscape of RNA Pol II binding reveals a step-wise transition during ZGA

Project description:Zygotic genome activation (ZGA) is the first transcription event in life. However, it is unclear how RNA polymerase is engaged in initiating ZGA in mammals. Here, by developing small-scale Tn5-assisted chromatin cleavage with sequencing (Stacc–seq), we investigated the landscapes of RNA polymerase II (Pol II) binding in mouse embryos. We found that Pol II undergoes ‘loading’, ‘pre-configuration’, and ‘production’ during the transition from minor ZGA to major ZGA. After fertilization, Pol II is preferentially loaded to CG-rich promoters and accessible distal regions in one-cell embryos (loading), in part shaped by the inherited parental epigenome. Pol II then initiates relocation to future gene targets before genome activation (pre-configuration), where it later engages in full transcription elongation upon major ZGA (production). Pol II also maintains low poising at inactive promoters after major ZGA until the blastocyst stage, coinciding with the loss of promoter epigenetic silencing factors. Notably, inhibition of minor ZGA impairs the Pol II pre-configuration and embryonic development, accompanied by aberrant retention of Pol II and ectopic expression of one-cell targets upon major ZGA. Hence, step-wise transition of Pol II occurs when mammalian life begins, and minor ZGA has a key role in the pre-configuration of transcription machinery and chromatin for genome activation.

2020-10-28 | GSE135457 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data