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Analysis of Drosophila salivary glands and Kc cells with depleted levels of linker histone H1 [Affymetrix Expression]

ABSTRACT: Indicated cells were subjected to RNAi against linker histone H1, Nautilus (control), or GFP (control). RNA was isolated and subjected to Affymetrix GeneChIP Drosophila Genome 2.0 arrays

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE44398 | GEO | 2013/04/22

SECONDARY ACCESSION(S): PRJNA190015

REPOSITORIES: GEO

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Analysis of Drosophila salivary glands and Kc cells with depleted levels of linker histone H1 [Affymetrix Expression]

Project description:Indicated cells were subjected to RNAi against linker histone H1, Nautilus (control), or GFP (control). RNA was isolated and subjected to Affymetrix GeneChIP Drosophila Genome 2.0 arrays RNA was compared from cells treated with RNAi against control (Nautilus in the case of salivary glands or GFP in the case of Kc cells) and linker histone H1. Kc cells were treated once with RNAi and RNA was collected 6 days later.

2013-04-22 | E-GEOD-44398 | biostudies-arrayexpress

Analysis of Drosophila salivary glands and Kc cells with depleted levels of linker histone H1 (Illumina smRNA-Seq]

Project description:Salivary glands or larval ovaries were isolated from transgenic flies expressing RNAi targeting Nautilus (control) or linker histone H1 using a Tub-Gal4 driver.

2013-04-22 | GSE44399 | GEO

Analysis of Drosophila salivary glands and Kc cells with depleted levels of linker histone H1 (Illumina smRNA-Seq]

Project description:Salivary glands or larval ovaries were isolated from transgenic flies expressing RNAi targeting Nautilus (control) or linker histone H1 using a Tub-Gal4 driver. ~200 larvae were used to isolate salivary glands or ovaries, independently. Total RNA was isolated using Trizol reagent following manufacturer's guidelines. Then 5 M-BM-5g of total RNA was separated on a polyacrylamide gel, and 18-29 nt small RNAs were isolated for cloning.

2013-04-22 | E-GEOD-44399 | biostudies-arrayexpress

Analysis of Drosophila salivary glands and Kc cells with depleted levels of linker histone H1

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

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Analysis of Drosophila salivary glands and Kc cells with depleted levels of linker histone H1

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-04-22 | E-GEOD-44148 | biostudies-arrayexpress

The interactome of site-specifically acetylated linker histone H1

Project description:Linker histone H1 plays a key role in chromatin organization and maintenance, however, our knowledge of the regulation of H1 functions by its posttranslational modifications (PTMs) is very limited. In this study, we report on the generation of homogeneously and site-specifically mono- and di-acetylated H1 (H1 Ac) using genetic code expansion. We used these modified histones to identify and comprehensively characterize the acetylation-dependent cellular interactome for linker histone H1 and show that site-specific acetylation results in overlapping, but distinct groups of interacting partners. Intriguingly, H1 acetylation-specific interactors comprise translational initiation factors and are involved in transcriptional regulation, suggesting that acetylation of H1 may indeed act as a regulator of the linker histone H1 by modulation of protein-protein interactions.

2021-07-09 | PXD025832 | Pride

Novel nucleosomal particles containing core histones and linker DNA but no histone H1

Project description:Eukaryotic chromosomal DNA is assembled into regularly spaced nucleosomes, which play a central role in gene regulation by determining accessibility of control regions. The nucleosome contains ~147 bp of DNA wrapped ~1.7 times around a central core histone octamer. The linker histone, H1, binds both to the nucleosome, sealing the DNA coils, and to the linker DNA between nucleosomes, directing chromatin folding. Micrococcal nuclease (MNase) digests the linker to yield the chromatosome, containing H1 and ~160 bp, and then converts it to a core particle, containing ~147 bp and no H1. Sequencing of nucleosomal DNA obtained after MNase digestion (MNase-seq) generates genome-wide nucleosome maps that are important for understanding gene regulation. We present an improved MNase-seq method involving simultaneous digestion with exonuclease III, which removes linker DNA. Remarkably, we discovered two novel intermediate particles containing 154 or 161 bp, corresponding to 7 bp protruding from one or both sides of the nucleosome core. These particles are detected in yeast lacking H1 and in H1-depleted mouse chromatin. They can be reconstituted in vitro using purified core histones and DNA. We propose that these "proto-chromatosomes" are fundamental chromatin subunits, which include the H1 binding site and influence nucleosome spacing independently of H1.

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MNase analysis of linker histone H1 mutant

Project description:MNase analysis of linker histone H1 mutant

| PRJNA451507 | ENA

Transcriptiomic analysis of linker histone H1 mutant

Project description:Transcriptiomic analysis of linker histone H1 mutant

| PRJNA451508 | ENA

Mapping of somatic linker histone H1 variants in T47D-MTVL cells

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