Genomics

Dataset Information

159

Analysis of the DNA accessibility upon multiple histone H1 variants by ATAC-seq (6 samples)


ABSTRACT: Combined depletion of H1.2 and H1.4 has a strong deleterious effect in the cancer cells examined, and induces a strong interferon (IFN) response with up-regulation of many IFN-stimulated genes (ISGs), which is not seen in individual H1 knock-downs. Although H1 participates to repress ISG promoters, its activation upon H1 KD is mainly generated by the activation of the IFN response through cytosolic nucleic acids receptors, IFN synthesis and JAK-STAT pathway activation. The IFN response may be triggered by the expression of noncoding dsRNAs generated from heterochromatic repeats or endogenous retroviruses upon H1 KD. H1 KD promotes the appearance of accessibility sites genome wide and, particularly, at satellites and other repeats. Overall design: 6 samples

INSTRUMENT(S): Illumina HiSeq 2500 (Homo sapiens)

SUBMITTER: Albert Jordan  

PROVIDER: GSE100762 | GEO | 2017-08-14

SECONDARY ACCESSION(S): PRJNA392926

REPOSITORIES: GEO

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Publications


Histone H1 has seven variants in human somatic cells and contributes to chromatin compaction and transcriptional regulation. Knock-down (KD) of each H1 variant in breast cancer cells results in altered gene expression and proliferation differently in a variant specific manner with H1.2 and H1.4 KDs being most deleterious. Here we show combined depletion of H1.2 and H1.4 has a strong deleterious effect resulting in a strong interferon (IFN) response, as evidenced by an up-regulation of many IFN-s  ...[more]

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