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NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [H3K9me3 CUT&Tag]

ABSTRACT: Genome-wide profiling of histone H3K9me3 of G1 or S phase U2OS cells without or with NFIB depletion.

ORGANISM(S): Homo sapiens

PROVIDER: GSE223440 | GEO | 2023/08/22

REPOSITORIES: GEO

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NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [CUT&TAG]

Project description:Genome-wide binding profile of NFIB and ORC1 in G1 phase of U2OS cells without or with NFIB depletion were profiled using cleavage under targets and tagmentation sequencing (CUT&Tag-seq).

2023-08-22 | GSE201863 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [H3K4me3 CUT&Tag]

Project description:Genome-wide profiling of histone H3K4me3 of G1 or S phase U2OS cells without or with NFIB depletion.

2023-08-22 | GSE223438 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [Micro-C]

Project description:Micro-C performed on U2OS cells without or with NFIB depletion at G1/S phase and S phase to investigate the effect of NFIB on higher-order chromatin structure during DNA replication.

2023-08-22 | GSE201864 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [ATAC-seq]

Project description:Chromatin accessibility of G1 phase of U2OS cells without or with NFIB depletion were profiled using transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) to identify potential regulatory elements.

2023-08-22 | GSE201861 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [ATAC-seq II]

Project description:Chromatin accessibility of G1 or S phase of U2OS cells without or with NFIB depletion were profiled using transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) to identify potential regulatory elements.

2023-08-22 | GSE223437 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [Repli-seq]

Project description:Genome-wide DNA replication profiles of U2OS cells without or with NFIB depletion.

2023-08-22 | GSE223441 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [NS-seq]

Project description:Nascent strand sequencing (NS-seq) in U2OS cells without or with NFIB depletion to identify de facto activated replication origins.

2023-08-22 | GSE201865 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [WGS]

Project description:Whole genome sequencing (WGS) of MCF-10A cells without or with NFIB overexpression cultured at 30 or 75 days and 5-fluoracil-resistant or oxaliplatin-resistant MCF-10A cells with NFIB overexpression cultured at 75 days to investigate whether the oncogenic potential of NFIB is linked to its function in replication initiation.

2023-08-22 | GSE201866 | GEO

Detection of H2AZ acetylation, total H2AZ, and H4K8 and H4K16 acetylation by CUT&Tag-sequencing

Project description:In this study we examined the effects of loss of the MYST histone acetyltransferase TIP60 (KAT5) in mouse embryonic fibroblasts (MEFs), human embryonic kidney cells 293 (HEK293), and human osteosarcoma cells (U2OS) on cell proliferation, BrdU incorporation, cell cycle progression, apoptotic and other forms of cell death, DNA damage, histone acetylation at specific lysine residues and RNA expression levels. This dataset relates to U2OS cells. CUT&Tag was performed on replicate cultures and 100,000 cells per sample, 43,000 human cells each of U2OS with inducible single guide RNA #1 (g1/C9) or inducible single guide RNA #2 (g2/C9) expression and both with constitutive expression of Cas9 enzyme, either treated with doxycycline for 4 days (KO) or untreated (CTL) and 57,000 D. melanogaster cells as a spike-in, in total two replicates of TIP60 deleted cells and two replicates of control cells.

2022-07-22 | GSE208378 | GEO

NFIB facilitates replication licensing by acting as a genome organizer

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

2023-08-21 | GSE201867 | GEO