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Gene expression data from IMR90 control, IMR90 shRRM2 and shRRM2/shp16

ABSTRACT: Gene expression data from IMR90 control, IMR90 shRRM2 and shRRM2/shp16

PROVIDER: PRJNA552100 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9624610.fastq.gz	Fastqsanger.gz
	SRR9624611.fastq.gz	Fastqsanger.gz
	SRR9624612.fastq.gz	Fastqsanger.gz
	SRR9624613.fastq.gz	Fastqsanger.gz
	SRR9624614.fastq.gz	Fastqsanger.gz

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Gene expression data from IMR90 Control, IMR90 HRAS-G12V, IMR90 HRAS-G12V+shDOT1L, IMR90 DOT1L Overexpression

Project description:Gene expression data from IMR90 Control, IMR90 HRAS-G12V, IMR90 HRAS-G12V+shDOT1L, IMR90 DOT1L Overexpression

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Alterations of splicing and gene expression in IMR90 Control cells and IMR90 RAS cells upon knockdown of SF3B1.

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ChIP-Seq data from IMR90 Control and IMR90 HRAS-G12V using an H3K79me3 antibody

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Alterations of splicing and gene expression in IMR90 Control cells and IMR90 RAS cells upon knockdown of SF3B1.

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Expression data from ER32 and ER32.40HT IMR90

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Alterations of splicing and gene expression in DMSO or 4OHT treated-IMR90 ER:HRAS G12V cells upon knockdown of SF3B1 and RBM39

Project description:The goal of this study was to analyse changes of splicing and gene expression induced in IMR90 Control and IMR90 RAS (HRASG12V) cells upon knockdown of splicing factors SF3B1 and RBM39

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Gene expression profile of H1.5 knockdown and SIRT1 knockdown IMR90 cells versus control cells

Project description:In humans, there are eleven subtypes of linker histones that exhibit cell- and tissue-specific expression. Linker histone H1 proteins bind to both the core histones and linker DNA of chromatin fibers; and not only participate in control of gene activity but also serve to stabilize higher order chromatin structure. To determine the potential roles of linker histones in differentiation, we examined the global distribution of linker histone subtype H1.5 in human IMR90 fibroblasts and H1 embryonic stem cells (hESCs). Surprisingly, H1.5 binds to and represses a large fraction of gene family clusters in fully differentiated cell types representing all three embryonic germ layers. Little or no H1.5 enrichment at gene family clusters was detected in undifferentiated hESCs or partially differentiated somatic cells. We also found that SIRT1 histone deacetylase and H3K9me2, a repressive histone modification, are also enriched at gene family cluster in IMR90 cells, likely generating a stably repressive chromatin domain. To find out the mechanism of H1.5 targeting, H1.5 or SIRT1 was depleted in IMR90 cells by siRNA, and the binding patterns of SIRT1 and H1.5 were examined. In H1.5 knockdown cells, SIRT1 binding pattern was changed dramatically, and this changed pattern highly correlates to SIRT1 distribution in hESC. However, depletion of SIRT1 could not change the global binding pattern of H1.5. Depletion of H1.5 or SIRT1 leads to up-regulation of ~50% gene family clusters. However, the sets of gene family clusters that are affected by these two factors are different, suggesting H1.5 and SIRT1 may regulate gene transcription via different pathways.

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