Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome analysis of SKI knock-out in HL60 cells

ABSTRACT: Transcriptome analysis of SKI knock-out in HL60 cells

PROVIDER: PRJNA420737 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Transcriptome analysis of SKI knock-out in HL60 cells

Project description:Whole transcriptome for SKI knock-out and control HL60 cells was sequenced. SKI control and knockout samples were compared to find differentially expressed genes. Differentially expressed genes were further analysed to find the significance of SKI in HL60 cells.

2018-02-07 | GSE107555 | GEO

Cistrome analysis of SKI and RUNX1 in HL60

Project description:SKI is a transcriptional co-regulator and overexpressed in various human tumors, for example in acute myeloid leukemia (AML). SKI contributes to the origin and maintenance of the leukemic phenotype. Here we use ChIP-seq and RNA-seq to identify the epigenetic alterations induced by SKI overexpression in AML cells. We show that approximately two thirds of differentially expressed genes are up-regulated upon SKI deletion, of which nearly 50% harbour SKI binding sites in their proximity, primarily in enhancer regions. Gene ontology analysis reveals that many of the differentially expressed genes are annotated to hematopoietic cell differentiation and inflammatory response, corroborating our finding that SKI deletion causes a release of the myeloid differentiation block in HL60 cells. We find that SKI peaks are enriched for RUNX1 consensus motifs, particularly in up-regulated SKI targets. RUNX1 ChIP-seq demonstrates that nearly 70% of RUNX1 binding sites overlap with SKI peaks, mainly at enhancer regions. SKI and RUNX1 co-occupy the same genomic sites and cooperate in gene silencing. Our work demonstrates for the first time on a genome-wide scale the predominant co-repressive function of SKI in AML cells and uncovers the transcription factor RUNX1 as an important mediator of SKI-dependent transcriptional repression.

2018-02-07 | GSE107553 | GEO

Cistrome analysis of SKI and RUNX1 in HL60

Project description:Cistrome analysis of SKI and RUNX1 in HL60

| PRJNA420513 | ENA

ARRDC4 knock out Mouse Heart Analysis

Project description:ARRDC4 knock out Mouse Heart Analysis

| PRJNA773414 | ENA

Transcriptome of the panx1a-knock out zebrafish

Project description:Transcriptome of the panx1a-knock out zebrafish

| PRJNA612878 | ENA

Striatum transcriptome analysis of Shank3 knock-out/heterozygous mice

Project description:Striatum transcriptome analysis of Shank3 knock-out/heterozygous mice

| PRJNA514401 | ENA

Striatum transcriptome analysis of Shank3 knock-out/heterozygous mice

Project description:Shank3 is a core excitatory postsynaptic protein expressed in multiple brain regions including the medial prefrontal cortex, striatum, and hippocampus. Shank3 knock-out mice display autism-like behaviors and synaptic dysfunction. To understand molecular mechanisms underlying the behavioral and synaptic changes, we performed transcriptome (RNA-sequencing) analysis of the striatum tissues from 10 to 12-week-old wild-type and Shank3 knock-out/heterozygous mice.

2019-09-11 | GSE124946 | GEO

Transcriptome of FERRY component knock-out cell lines

Project description:Goal: elucidate transcriptomic changes upon knock-out of components of the FERRY complex Methods: RNA extraction from HeLa wildtype and fy-1, fy-2, fy-4 and fy-5 knock-out celllines and subsequent RNASeq Results: We observed differences in the transcriptome of all four knock-out cell lines Conclusions: In the Analysis we focused on genes that were differentially expressed in all four KO cell lines or upon KO of fy-1 and fy-2.

2023-04-27 | GSE230114 | GEO

Transcriptome analysis of bone marrow in Phc2 knock out mice

Project description:This study investigated the biological function of Phc2 by Phc2 knock out mice. Polycomb group (PcG) proteins function as transcriptional repressors of target genes by mainly modulating histone methylation. The canonical Polycomb repressor complex 1 (PRC1), type of PcG proteins, recognizes and binds to H3K27me3 to sustain the transcriptional repression of a target gene. To investigate the function of canonical PRC1, We identified potential function of Phc2 that is component of the canonical PRC1 by Phc2 knock out mice.

2019-07-10 | GSE128705 | GEO

Transcriptome Analysis of HMGB1 knock-out iSLK BAC16 cell (2)

Project description:Transcriptome Analysis of HMGB1 knock-out iSLK BAC16 cell (2)

| PRJNA722735 | ENA