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Activity-induced gene expression and long-range enhancer-promoter contacts in cohesin-deficient neurons (NexCre)

ABSTRACT: RNA-seq of total RNA from Rad21lox/lox;NexCre/+ and Rad21+/+;NexCre/+ dissociated cortical neurons at Day In Vitro (DIV10) without stimulation or after treatment with TTX/D-AP5 and 1h or 6h of KCl depolarization.

ORGANISM(S): Mus musculus

PROVIDER: GSE172427 | GEO | 2022/04/26

REPOSITORIES: GEO

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Reliance of neuronal gene expression on cohesin scales with chromatin loop length (5C)

Project description:5C-seq from Rad21lox/lox;NexCre/+ and Rad21+/+;NexCre/+ dissociated cortical neurons at Day In Vitro (DIV10) without stimulation or after treatment with TTX/D-AP5 and 1h of KCl depolarization. And, 5C of and doxycycline treated Rad21-TEV primary neurons transduced with NLS-TEV

2024-04-16 | GSE194197 | GEO

Activity-induced gene expression and long-range enhancer-promoter contacts in cohesin-deficient neurons (Ribo Tag)

Project description:RNA-seq of ribosome associated mRNA from Rad21lox/lox;NexCre/+;RiboTag+ and Rad21+/+;NexCre/+;RiboTag+ dissociated cortical neurons at Day In Vitro (DIV10)

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Project description:KCl depolarization-regulated genes in mouse cortical neurons

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Enhancer RNAs make multivalent interactions with NELF to stimulate Pol II pause release [Exo-seq]

Project description:5’ ExoSeq of total RNA (rRNA & signal recognition particle RNA depleted) from mouse cortical neurons before and after membrane depolarization by potassium chloride (KCl).

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Activity-induced gene expression and long-range enhancer-promoter contacts in cohesin-deficient neurons with BDNF

Project description:RNA-seq of total RNA from RAD21-TEV depleted and expressing cortical neurons at day in vitro (DIV11) without stimulation or after treatment with BDNF (10ng/ml) for 30 or 120 minutes. Minimum of three replicates were used in each condition

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Transcription profiling of mouse primary cultured neurons to identify activity related gene expression

Project description:This SuperSeries is composed of the following subset Series:; GSE11256: KCl depolarization-regulated genes in mouse cortical neurons; GSE11258: Npas4-regulated genes in mouse hippocampal neurons Experiment Overall Design: Refer to individual Series

2008-10-26 | E-GEOD-11261 | biostudies-arrayexpress

Identification of activity-induced genes in cortical inhibitory neurons (RNA-Seq)

Project description:To identify the activity-induced gene expression programs in inhibitory neurons, we analyzed RNA extracted from cultured E14 mouse MGE-derived neurons (DIV 10) after these cultures were membrane-depolarized for 0, 1 and 6 hrs with 55mM extracellular KCl. Mouse E14 MGE-derived neurons were cultured for 9 days, quieted overnight with TTX and AP-5 and then membrane-depolarized for 0, 1 or 6 hours by raising the extracellular KCl-concentration to 55mM. RNA was then extracted and WT RNA-Seq was performed on ABi SOLiD

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Genome-wide activity-dependent MeCP2 phosphorylation regulates nervous system development and function [cultured cortical neurons]

Project description:To examine potential differences in activity-dependent gene expression, we analyzed mRNA expression in cultured neurons isolated from Wild-type vs MeCP2 S421A mice at 0 (unstimulated), 1 or 6 hours after membrane depolarization by exposure to high extracellular KCl (55mM) All mice were male littermates from one of three litters.

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931a6370-b209-4d93-b670-94904d7c8ace - samples

Project description:Brain-Derived Neurotrophic Factor (BDNF) is crucial for neuronal survival, differentiation, synaptic plasticity, memory formation, and neurocognitive health. Molecular mechanisms of BDNF promoting cellular survival and synaptic plasticity have been intensely studied, yet its role in genome regulation is obscure. Using human induced pluripotent stem cell (hiPSC)-derived neurons via lentiviral delivery of the neuronal transcription factor Ngn2, we performed a temporal profiling (1h, 6h and 10h) of chromatin accessibility upon BDNF treatment or depolarization (KCl) to identify BDNF-specific chromatin-to-gene expression programs.

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Chromatin accessibility changes in hiPSC-derived neurons after BDNF and KCl stimulations

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