Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide maps of chromatin state in TRIB3-shRNA and control lymphoma cells

ABSTRACT: Genome-wide maps of chromatin state in TRIB3-shRNA and control lymphoma cells

PROVIDER: PRJNA523177 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8591270_1.fastq.gz	Fastqsanger.gz
	SRR8591270_2.fastq.gz	Fastqsanger.gz
	SRR8591267_1.fastq.gz	Fastqsanger.gz
	SRR8591267_2.fastq.gz	Fastqsanger.gz
	SRR8591268_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

Genome-wide maps of chromatin state in TRIB3-shRNA and control lymphoma cells

Project description:We report the application of single-molecule-based sequencing technology for high-throughput profiling of RNAPII with promoters in mammalian cells. We performed ChIP sequencing with antibody to total RNAPII in TRIB3-cas9 and control group. Inspection of multiple individual traces and global analyses showed that TRIB3 deletion globally reduced association of RNAPII with promoters.

2020-10-02 | GSE126743 | GEO

Expression data from NB4 control shRNA cells and NB4 TRIB3 shRNA cells

Project description:To identify the top 20 up-regulated genes in NB4 TRIB3 shRNA cells in comparison with NB4 control shRNA cells, we examined the microarray gene expression profile of these groups above. Despite the fact that combined therapy of all-trans retinoic acid (ATRA) with arsenic trioxide (ATO) or chemotherapy dramatically improves the prognosis of patients with acute promyelocytic leukemia (APL), these regimens can cause systemic infections and secondary leukemias. Here we report that expression of the pseudokinase Tribble 3 (TRIB3) associates positively with APL progression and therapeutic resistance. The elevated TRIB3 expression promotes APL by interacting with PML-RARa and suppressing its sumoylation, ubiquitylation and degradation. This represses PML nuclear body assembly, p53-mediated senescence, cell differentiation, and supports cellular self-renewal. Genetically inhibiting Trib3 expression or disturbing the TRIB3/PML-RARa interaction produces potent therapeutic efficacy against APL and has synergic anti-APL effects when used in combination with ATRA or ATO by promoting PML-RARa degradation and PML expression. Our study provides new insight into APL pathogenesis and a new therapeutic option against APL.

2017-05-12 | GSE95637 | GEO

Genome-wide maps of ESR2 chromatin state in Mantle cell lymphoma cells

Project description:Genome-wide maps of ESR2 chromatin state in Mantle cell lymphoma cells

| PRJNA787627 | ENA

Genome-wide maps of chromatin state in TRIB3Cas9 and control lymphoma cells

Project description:Genome-wide maps of chromatin state in TRIB3Cas9 and control lymphoma cells

| PRJNA601926 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of Ctrl-Cas9 and TRIB3-Cas9 cells' Transcriptomes in lymphoma

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to analysis the differiational genes and pathways in Ctrl-Cas9 and TRIB3-Cas9 lymphoma cells by using NGS-derived lymphoma transcriptome profiling (RNA-seq). Methods: Ctrl-Cas9 and TRIB3-Cas9 cells' mRNA profiles were generated by deep sequencing, in triplicate, using Illumina GAIIx. The sequence reads that passed quality filters were analyzed at the transcript isoform level with following methods: Alignment by using HISAT2 v2.1, IGV was used to to view the mapping result by the Heatmap, histogram, scatter plot or other stytle, FPKM was then calculated to estimate the expression level of genes in each sample, DEGseq v1.18.0 was used for differential gene expression analysis between two samples with non biological replicates and Function Enrichment Analysis including GO enrichment analysis and KEGG . Conclusions: Our study represents the first detailed analysis of Ctrl-Cas9 and TRIB3-Cas9 cells' transcriptomes, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that NGS offers a comprehensive and more accurate quantitative and qualitative evaluation of mRNA content within a cell or tissue. We conclude that RNA-seq based transcriptome characterization would expedite genetic network analyses and permit the dissection of complex biologic functions.

2020-10-01 | GSE117128 | GEO

Genome-wide maps of chromatin state in Ad-ube3b and control lymphoma cells

Project description:Genome-wide maps of chromatin state in Ad-ube3b and control lymphoma cells

| PRJNA523181 | ENA

Genome-wide maps of chromatin state in Ad-UBE3B and control lymphoma cells

Project description:Genome-wide maps of chromatin state in Ad-UBE3B and control lymphoma cells

| PRJNA601921 | ENA

Expression profiling of Burkitt's lymphoma cells 24h after FOXM1 shRNA or MYB shRNA lentivirus-mediated transduction

Project description:Human Burkitt's lymphoma ST486 cells were transduced with non-target control shRNA lentiviral vectors, FOXM1 shRNA, and MYB shRNA lentiviral vectors. Total RNA was isolated 24h later. cRNA was produced with the standard one-step IVT protocol (Affymetix) and hybridized in U95Av2 gene chips (Affymetrix). Experiment consists in 3 independent samples: Expression profiling of Burkitt's lymphoma cells 24h after non-target control shRNA lentiviral mediated transduction. Expression profiling of Burkitt's lymphoma cells 24h after FOXM1 shRNA lentiviral mediated transduction. Expression profiling of Burkitt's lymphoma cells 24h after MYB shRNA lentiviral mediated transduction. Data processing performed using MAS5 or GCRMA.

2009-07-27 | E-GEOD-17172 | biostudies-arrayexpress

Genome-wide maps of chromatin state in Pep2-CM4-treated and control lymphoma cells

Project description:Genome-wide maps of chromatin state in Pep2-CM4-treated and control lymphoma cells

| PRJNA601927 | ENA

Genome-wide maps of chromatin state in WT c-Myc and K427R mutant lymphoma cells

Project description:Genome-wide maps of chromatin state in WT c-Myc and K427R mutant lymphoma cells

| PRJNA601928 | ENA