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Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage [CUT&Tag]

ABSTRACT: Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage [CUT&Tag]

PROVIDER: PRJNA802532 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17844076_1.fastq.gz	Fastqsanger.gz
	SRR17844076_2.fastq.gz	Fastqsanger.gz
	SRR17844077_1.fastq.gz	Fastqsanger.gz
	SRR17844077_2.fastq.gz	Fastqsanger.gz
	SRR17844078_1.fastq.gz	Fastqsanger.gz

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Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage

Project description:Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage

| PRJNA725426 | ENA

scNanoSeq-CUT&Tag: a long-read single-cell CUT&Tag sequencing method for efficient chromatin modification profiling within individual cells

Project description:We developed scNanoSeq-CUT&Tag, a streamlined method by adapting a modified CUT&Tag protocol to Oxford Nanopore sequencing platform for efficient chromatin modification profiling at single-cell resolution. We firstly tested the performance of scNanoSeq-CUT&Tag on six human cell lines: K562, 293T, GM12878, HG002, H9, HFF1 and adult mouse blood cells, it showed that scNanoSeq-CUT&Tag can accurately distinguish different cell types in vitro and in vivo. Moreover, scNanoSeq-CUT&Tag enables to effectively map the allele-specific epigenomic modifications in the human genome andallows to analyze co-occupancy of histone modifications. Taking advantage of long-read sequencing,scNanoSeq-CUT&Tag can sensitively detect epigenomic state of repetitive elements. In addition, by applying scNanoSeq-CUT&Tag to testicular cells of adult mouse B6D2F1, we demonstrated that scNanoSeq-CUT&Tag maps dynamic epigenetic state changes during mouse spermatogenesis. Finally, we exploited the epigenetic changes of human leukemia cell line K562 during DNA demethylation, it showed that NanoSeq-CUT&Tag can capture H3K27ac signals changes along DNA demethylation. Overall, we prove that scNanoSeq-CUT&Tag is a valuable tool for efficiently probing chromatin state changes within individual cells.

2024-09-06 | GSE249799 | GEO

Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage (scRNA-Seq)

Project description:Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage (scRNA-Seq)

| PRJNA725445 | ENA

HCT116_SMARCA4 CUT&Tag

Project description:HCT116_SMARCA4 CUT&Tag

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Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage (Bulk RNA-Seq)

Project description:Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage (Bulk RNA-Seq)

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CUT&TAG of OE19 cell line

Project description:To map the chromatin binding sites for SMC1 in OE19 cells, we performed CUT&TAG.

2024-09-25 | E-MTAB-14090 | biostudies-arrayexpress

CUT&TAG of OE19 cell line

Project description:To map the chromatin binding sites for various factors in OE19 cells, we performed CUT&TAG.

2023-02-24 | E-MTAB-11356 | biostudies-arrayexpress

Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage [CUT&Tag]

Project description:We reported the allele-specific single cell RNA sequencing in highly morphogenic (C57Bl6J-maternal x CASTEiJ-paternal) male F1 mouse embryonic stem cells (mESC) and in vitro mESC derived six cardiac lineage cell types. We demonstrated distinctive gene regulation based on the parental origin of the alleles. We showed that deterministic and stochastic monoalleleic gene classes are distinctive in regulation and are involved in unique processes. In this study we highlighted the importance of parental origin-specific gene expression in development, homeostasis and disease.

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Bulk Cut&run and Cut&tag

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Project description:HIF2A(EPAS1) geenome_wide localization by Cut & Tag in MRC5 human fibroblasts ectopically expressing HIF2A in the pBabe vector, and in control MRC5 human fibroblasts containing only the pBabe vector. 2 biological replicates were done for the MRC5-HIF2A cells. Cut & Tag with an anti-H3-K27me3 Ab was done as a positive control for the Cut & Tag experiments.

2025-01-17 | E-MTAB-13732 | biostudies-arrayexpress

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