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Genome-wide maps of chromatin state in Huh 7 cells

ABSTRACT: We report the application of chromatin immunoprecipitation sequencing (ChIPseq) and ATAC for high-throughput profiling of histone modifications in Huh 7 cells.

ORGANISM(S): Homo sapiens

PROVIDER: GSE184797 | GEO | 2022/03/01

REPOSITORIES: GEO

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Genome-wide maps of chromatin state in HepG2 cells

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Project description:We report the application of single-molecule-based sequencing technology for high-throughput profiling of histone modifications in yeast. By obtaining bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide chromatin-state maps of saccharomuces cerevisiae.We find that H3T11 phosphorylationlysine is widely distributed in gene promoter region and chromosome telomere region

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Genome-wide maps of chromatin state in Huh 7 cells

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Genome-wide maps of chromatin state in human monocytes and monocyte-derived DCs

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Genome-wide maps of chromatin state in neural stem/progenitor cells (NSC) from mouse neonatal forebrain [ChIP-seq]

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Genome-wide maps of chromatin state in liver cells.

Project description:We report the application of single-molecule-based sequencing technology for high-throughput profiling of histone modifications in mammalian cells. By obtaining over four billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide chromatin-state maps of mouse liver cells. We find that lysine 4 trimethylation effectively discriminates genes that are expressed, poised for expression, or stably repressed, and therefore reflect cell state and lineage potential. Lysine 9 and 27 trimethylation marks primary coding and non-coding transcripts, have no differents in gene annotation. Trimethylation of lysine 4 is detected has different expresssion at mir124 site front of lnc-RNA(10835)Far. Finally, we show that chromatin state can be read in an allele-specific manner by using single nucleotide polymorphisms. This study provides a framework for the application of comprehensive chromatin profiling towards characterization of diverse mammalian cell populations.

2020-03-08 | GSE128073 | GEO

Genome-wide maps of chromatin state in liver.

Project description:We report the application of single-molecule-based sequencing technology for high-throughput profiling of histone modifications in mammalian cells. By obtaining over four billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide chromatin-state maps of mouse liver. We find that lysine 4 and lysine 27 trimethylation effectively discriminates genes that are expressed, poised for expression, or stably repressed, and therefore reflect cell state and lineage potential. Lysine 36 trimethylation marks primary coding and non-coding transcripts, facilitating gene annotation. Trimethylation of lysine 9 and lysine 20 is detected at satellite, telomeric and active long-terminal repeats, and can spread into proximal unique sequences. Lysine 4 and lysine 9 trimethylation marks imprinting control regions. Finally, we show that chromatin state can be read in an allele-specific manner by using single nucleotide polymorphisms. This study provides a framework for the application of comprehensive chromatin profiling towards characterization of diverse mammalian cell populations.

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Project description:We report the application of single-molecule-based sequencing technology for high-throughput profiling of histone modifications in kidney. By obtaining over four billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide chromatin-state maps of mouse kidney. This study provides a framework for the application of comprehensive chromatin profiling towards characterization of kidney of wild type (WT) and pod-SAHH-/- mice and ADA-treated mice.

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