Similar studies for GEO DataSets (Select 200241379) - GEO DataSets

Select item 2002413791.

Alternative splicing of a chromatin modifier alters the transcriptional regulatory programs of embryonic stem cell maintenance and neuronal differentiation [ChIP-seq]

(Submitter supplied) Maintenance of embryonic stem cells (ESCs) and their differentiation to neuronal lineages requires complex genetic regulation of transcription, splicing, and translation, but the interconnections of these processes is not well understood. We found that the splicing regulator polypyrimidine tract binding protein 1 (PTBP1) alters the neuronal transcriptional program. Transcripts for DPF2, a subunit of the BRG1/BRM-associated factor (BAF) chromatin remodeling complex, contain an additional exon (exon 7) in brain. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL21493
20 Samples

Download data: BW

Series

Accession:: GSE241379

ID:: 200241379

PubMed Similar studies

Select item 2002413782.

Alternative splicing of a chromatin modifier alters the transcriptional regulatory programs of embryonic stem cell maintenance and neuronal differentiation.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:: GPL24247 GPL21493
36 Samples

Download data

Series

Accession:: GSE241378

ID:: 200241378

PubMed Similar studies

Select item 2002413773.

Alternative splicing of a chromatin modifier alters the transcriptional regulatory programs of embryonic stem cell maintenance and neuronal differentiation [RNA-seq]

(Submitter supplied) Maintenance of embryonic stem cells (ESCs) and their differentiation to neuronal lineages requires complex genetic regulation of transcription, splicing, and translation, but the interconnections of these processes is not well understood. We found that the splicing regulator polypyrimidine tract binding protein 1 (PTBP1) alters the neuronal transcriptional program. Transcripts for DPF2, a subunit of the BRG1/BRM-associated factor (BAF) chromatin remodeling complex, contain an additional exon (exon 7) in brain. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
18 Samples

Download data: TXT

Series

Accession:: GSE241377

ID:: 200241377

PubMed Similar studies

Select item 2002413764.

Alternative splicing of a chromatin modifier alters the transcriptional regulatory programs of embryonic stem cell maintenance and neuronal differentiation[ATAC-seq]

(Submitter supplied) Maintenance of embryonic stem cells (ESCs) and their differentiation to neuronal lineages requires complex genetic regulation of transcription, splicing, and translation, but the interconnections of these processes is not well understood. We found that the splicing regulator polypyrimidine tract binding protein 1 (PTBP1) alters the neuronal transcriptional program. Transcripts for DPF2, a subunit of the BRG1/BRM-associated factor (BAF) chromatin remodeling complex, contain an additional exon (exon 7) in brain. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL21493
18 Samples

Download data: BW

Series

Accession:: GSE241376

ID:: 200241376

PubMed Similar studies

Select item 2000711795.

The splicing regulator PTBP1 controls the activity of the transcription factor Pbx1 during neuronal differentiation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL13112
30 Samples

Download data: BED, TXT

Series

Accession:: GSE71179

ID:: 200071179

PubMed Full text in PMC Similar studies

Select item 2000711786.

Ptpb1 iCLIP in 46C mESCs and mNPCs

(Submitter supplied) PTBP1 and PTBP2 control alternative splicing programs during neuronal development, but the cellular functions of most PTBP1/2-regulated isoforms remain unknown. We show that PTBP1 guides developmental gene expression by regulating the transcription factor Pbx1. We identify exons that are differentially spliced when mouse embryonic stem cells (ESCs) differentiate into neuronal progenitor cells (NPCs) and neurons, and transition from PTBP1 to PTBP2 expression. more...

Organism:: Mus musculus

Type:: Other

Platform:: GPL13112
2 Samples

Download data: BED

Series

Accession:: GSE71178

ID:: 200071178

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000710797.

Splicing analyses of mESCs, mNPCs, and mMNs

(Submitter supplied) PTBP1 and PTBP2 control alternative splicing programs during neuronal development, but the cellular functions of most PTBP1/2-regulated isoforms remain unknown. We show that PTBP1 guides developmental gene expression by regulating the transcription factor Pbx1. We identify exons that are differentially spliced when mouse embryonic stem cells (ESCs) differentiate into neuronal progenitor cells (NPCs) and neurons, and transition from PTBP1 to PTBP2 expression. more...

Organism:: Mus musculus

Type:: Other

Platform:: GPL13112
3 Samples

Download data: TXT

Series

Accession:: GSE71079

ID:: 200071079

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000709858.

Splicing analyses of 46C mNPCs following PTBP depletion

(Submitter supplied) PTBP1 and PTBP2 control alternative splicing programs during neuronal development, but the cellular functions of most PTBP1/2-regulated isoforms remain unknown. We show that PTBP1 guides developmental gene expression by regulating the transcription factor Pbx1. We identify exons that are differentially spliced when mouse embryonic stem cells (ESCs) differentiate into neuronal progenitor cells (NPCs) and neurons, and transition from PTBP1 to PTBP2 expression. more...

Organism:: Mus musculus

Type:: Other

Platform:: GPL13112
8 Samples

Download data: TXT

Series

Accession:: GSE70985

ID:: 200070985

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000708839.

Gene expression analyses of HB9-GFP D2 mMN cultures following Pbx1 exon 7 inclusion

(Submitter supplied) PTBP1 and PTBP2 control alternative splicing programs during neuronal development, but the cellular functions of most PTBP1/2-regulated isoforms remain unknown. We show that PTBP1 guides developmental gene expression by regulating the transcription factor Pbx1. We identify exons that are differentially spliced when mouse embryonic stem cells (ESCs) differentiate into neuronal progenitor cells (NPCs) and neurons, and transition from PTBP1 to PTBP2 expression. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
8 Samples

Download data: FPKM_TRACKING

Series

Accession:: GSE70883

ID:: 200070883

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20000849810.

The MicroRNA miR-124 Promotes Neuronal Differentiation by Triggering Brain-Specific Alternative Pre-mRNA Splicing

(Submitter supplied) Both microRNAs and alternative pre-mRNA splicing have been implicated in the development of the nervous system (NS), but functional interactions between these two pathways are poorly understood. We demonstrate that the neuron-specific microRNA miR-124a directly targets PTBP1/PTB/hnRNPI mRNA, which encodes a global repressor of alternative pre-mRNA splicing in non-neuronal cells. Among the targets of PTBP1 is a critical cassette exon in the pre-mRNA of PTBP2/nPTB/brPTB, an NS-enriched PTBP1 homolog. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Dataset:: GDS2846
Platform:: GPL1261
6 Samples

Download data: CEL

Series

Accession:: GSE8498

ID:: 200008498

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 284611.

MicroRNA miR-124 expression effect on neuronal cell line

Analysis of neuroblastoma CAD cells expressing neuron-specific microRNA miR-124. MicroRNAs have been implicated in the development of the nervous system (NS). Results provide insight into the function of miR-124 in neuronal cells.

Organism:: Mus musculus

Type:: Expression profiling by array, transformed count, 2 protocol sets

Platform:: GPL1261
Series:: GSE8498
6 Samples

Download data: CEL

DataSet

Accession:: GDS2846

ID:: 2846

PubMed Full text in PMC Similar studies GEO Profiles Analyze DataSet

Select item 20019277912.

The SWI/SNF subunit Dpf2 licenses Nrf2-dependent gene expression to enforce multilineage control of inflammation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens; Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

4 related Platforms
108 Samples

Download data: BIGWIG, BW, TXT

Series

Accession:: GSE192779

ID:: 200192779

PubMed Full text in PMC Similar studies

Select item 20019277813.

The SWI/SNF subunit Dpf2 licenses Nrf2-dependent gene expression to enforce multilineage control of inflammation [ChIP-seq]

(Submitter supplied) Purpose: Multi-omics characterization of the consequences of deleting the SWI/SNF subunit Dpf2 in the transcriptome (RNAseq), accessibility of the genome (ATACseq) and binding of SWI/SNF subunits (CUT&RUN) in hematopoietic stem/progenitor cells, resting and polarized bone-marrow derived macrophages and resting and activated CD4+ T cells obtained from Dpf2f/f and Dpf2D/D mice. Methods: Lin- cKit+ cells were sorted from bone marrow of 28-days old Dpf2f/f and Dpf2D/D mice. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL18573
4 Samples

Download data: BW

Series

Accession:: GSE192778

ID:: 200192778

PubMed Full text in PMC Similar studies

Select item 20019277714.

The SWI/SNF subunit Dpf2 licenses Nrf2-dependent gene expression to enforce multilineage control of inflammation [CUT&RUN]

(Submitter supplied) Purpose: Multi-omics characterization of the consequences of deleting the SWI/SNF subunit Dpf2 in the transcriptome (RNAseq), accessibility of the genome (ATACseq) and binding of SWI/SNF subunits (CUT&RUN) in hematopoietic stem/progenitor cells, resting and polarized bone-marrow derived macrophages and resting and activated CD4+ T cells obtained from Dpf2f/f and Dpf2D/D mice. Methods: Lin- cKit+ cells were sorted from bone marrow of 28-days old Dpf2f/f and Dpf2D/D mice. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL24247
12 Samples

Download data: BIGWIG

Series

Accession:: GSE192777

ID:: 200192777

PubMed Full text in PMC Similar studies

Select item 20019277615.

The SWI/SNF subunit Dpf2 licenses Nrf2-dependent gene expression to enforce multilineage control of inflammation [ATAC-seq]

(Submitter supplied) Purpose: Multi-omics characterization of the consequences of deleting the SWI/SNF subunit Dpf2 in the transcriptome (RNAseq), accessibility of the genome (ATACseq) and binding of SWI/SNF subunits (CUT&RUN) in hematopoietic stem/progenitor cells, resting and polarized bone-marrow derived macrophages and resting and activated CD4+ T cells obtained from Dpf2f/f and Dpf2D/D mice. Methods: Lin- cKit+ cells were sorted from bone marrow of 28-days old Dpf2f/f and Dpf2D/D mice. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19057
7 Samples

Download data: BIGWIG

Series

Accession:: GSE192776

ID:: 200192776

PubMed Full text in PMC Similar studies

Select item 20019277516.

The SWI/SNF subunit Dpf2 licenses Nrf2-dependent gene expression to enforce multilineage control of inflammation [RNA-seq]

(Submitter supplied) Purpose: Multi-omics characterization of the consequences of deleting the SWI/SNF subunit Dpf2 in the transcriptome (RNAseq), accessibility of the genome (ATACseq) and binding of SWI/SNF subunits (CUT&RUN) in hematopoietic stem/progenitor cells, resting and polarized bone-marrow derived macrophages and resting and activated CD4+ T cells obtained from Dpf2f/f and Dpf2D/D mice. Methods: Lin- cKit+ cells were sorted from bone marrow of 28-days old Dpf2f/f and Dpf2D/D mice. more...

Organism:: Homo sapiens; Mus musculus

Type:: Expression profiling by high throughput sequencing

4 related Platforms
85 Samples

Download data: TXT

Series

Accession:: GSE192775

ID:: 200192775

PubMed Full text in PMC Similar studies

Select item 20007619817.

Cell type-specific alternative splicing of cytoskeletal domains governs cell fate in the developing cerebral cortex

(Submitter supplied) Alternative splicing regulates over 90% of multiexon mammlian genes, but its role in specifying neural progenitor cell (NPC) fates has not been explored. Our analyses of purified mouse NPCs and neurons from developing cerebral cortices revealed hundreds of conserved and differentially spliced exons that add or remove key protein domains, especially in genes regulating the cytoskeleton.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
4 Samples

Download data: FPKM_TRACKING

Series

Accession:: GSE76198

ID:: 200076198

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20006965618.

An Alternative Splicing Event Amplifies Evolutionary Differences Between Vertebrates

(Submitter supplied) Alternative splicing (AS) generates extensive transcriptomic and proteomic complexity. However, the functions of species- and lineage-specific splice variants are largely unknown. Here, we show that mammalian-specific skipping of exon 9 of PTBP1 alters its splicing regulatory activities and affects the inclusion levels of numerous exons. During neurogenesis, skipping of exon 9 reduces PTBP1 repressive activity so as to facilitate activation of a brain-specific AS program. more...

Organism:: Gallus gallus; Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL16791 GPL19005
14 Samples

Download data: TAB

Series

Accession:: GSE69656

ID:: 200069656

PubMed Similar studies SRA Run Selector

Select item 20008516519.

Identification of PTBPs RNA binding sites in mouse brain

(Submitter supplied) PTBP1 and PTBP2 are RNA-binding proteins that control RNA processings, including alternative pre-mRNA splicing. The sequential down-regulation of the two proteins is necessary for neuronal maturation. However, their binding substrates in neural tissues have not been examined.