Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Chromosomal rearrangements juxtapose the TERT coding sequence to strong enhancer elements

ABSTRACT: Chromosomal rearrangements juxtapose the TERT coding sequence to strong enhancer elements

PROVIDER: PRJNA613274 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11348101.fastq.gz	Fastqsanger.gz
	SRR11348102.fastq.gz	Fastqsanger.gz
	SRR11348103.fastq.gz	Fastqsanger.gz

Items per page:

1 - 3 of 3

Similar Datasets

Chromosomal rearrangements juxtapose the TERT coding sequence to strong enhancer elements

Project description:Chromatin immunoprecipitation (ChIP) sequencing with an anti-acetyl-H3K27 antibody showed an enhancer region rearranged to the TERT gene, and ChIP sequencing with an anti-BRD4 antibody showed BRD4 protein binding to the enhancer in TERT-rarranged neuroblasstoma PDX CCI-NB07-RMT cells

2021-03-01 | GSE147181 | GEO

TERT rearrangements are frequent in neuroblastoma and identify aggressive tumors

Project description:Whole genome sequencing detected structural rearrangements of TERT in 17/75 high stage neuroblastoma with 5 cases resulting from chromothripsis. Rearrangements were associated with increased TERT expression and targeted immediate up- and down-stream regions of TERT, placing in 7 cases a super-enhancer close to the breakpoints. TERT rearrangements (23%), ATRX deletions (11%) and MYCN amplifications (37%) identify three almost non-overlapping groups of high stage neuroblastoma, each associated with very poor prognosis

2015-10-21 | GSE73537 | GEO

Analysis of Gross Chromosomal Rearrangements in Budding Yeast

Project description:Determine changes in genomic copy across the entire genome for isolated strains with selected gross chromosomal rearrangements relative to the wild-type strain.

2014-03-15 | E-MTAB-2377 | biostudies-arrayexpress

Ploidy influences the cellular responses of gross chromosomal rearrangements in Saccharomyces cerevisiae

Project description:We investigated the effects of the ploidy on cellular response in strains carrying various types of gross chromosomal rearrangements.

2011-06-17 | GSE28285 | GEO

Comparative genomic hybridization of Saccharomyces cerevisiae - analysis of gross chromosomal rearrangements

Project description:Determine changes in genomic copy across the entire genome for isolated strains with selected gross chromosomal rearrangements relative to the wild-type strain.

2009-07-04 | E-TABM-714 | biostudies-arrayexpress

TERT rearrangements are frequent in neuroblastoma and identify aggressive tumors

| EGAS00001001479 | EGA

PARP3 is a promoter of chromosomal rearrangements and limits G4 DNA

Project description:Chromosomal rearrangements are essential events in the pathogenesis of both malignant and nonmalignant disorders, yet the factors affecting their formation are incompletely understood. We developed a zinc finger nuclease translocation reporter (ZITR) and screened for factors that modulate rearrangements in human cells. We identified UBC9 and RAD50 as suppressors and 53BP1, DDB1, and PARP3 as promoters of chromosomal rearrangements across human cell types. We focused on poly(ADP)ribose polymerase 3 (PARP3) as it is dispensable for murine viability and has druggable catalytic activity. We found that PARP3 regulated G quadruplex (G4) DNA in response to DNA damage, which suppressed repair by nonhomologous end-joining and homologous recombination. Chemical stabilization of G4 DNA in PARP3-/- cells led to widespread DNA double-strand breaks and synthetic lethality. We propose a model in which PARP3 suppresses G4 DNA and facilitates DNA repair by multiple pathways.

2017-03-01 | GSE94588 | GEO

Hi-C As A New Tool For Precise Detection And Characterization Of Chromosomal Rearrangements And Copy Number Variation In Human Tumors

Project description:Chromosomal rearrangements are prevalent events in the human population, occurring both constitutionally in the general population and somatically in the majority of cancers. Detection of balanced rearrangements, such as reciprocal translocations and inversions, is troublesome with many rearrangements remaining undetected. This is particularly detrimental in oncology where rearrangements play diagnostic and prognostic roles and can influence choice and efficacy of treatment protocols. New methods to detect and characterize balanced rearrangements are therefore required for both research and clinical applications. Here we describe the use of the chromosome conformation capture derived method Hi-C as a tool for detection of both balanced and unbalanced chromosomal rearrangements in cell lines and human tumor samples, with the ability to detect gene fusions and define chromosomal breakpoints to base pair resolution. In addition, we show that copy number information can also be obtained from the same data, allowing rearrangements, gains, amplifications and deletions of genomic regions to be detected in a single experiment.

2017-05-23 | GSE81879 | GEO

Genomic and functional overlap between somatic and germline chromosomal rearrangements

Project description:Genomic and functional overlap between somatic and germline chromosomal rearrangements

| PRJEB5063 | ENA

Ploidy influences the cellular responses of gross chromosomal rearrangements in Saccharomyces cerevisiae

Project description:We investigated the effects of the ploidy on cellular response in strains carrying various types of gross chromosomal rearrangements. Fourteen mutated strains (6 haploid strains and 8 diploid strains) were compared to their associated parental strain (haploid or diploid parental strain). For each comparison, 2 microarray experiments implying biological replicates were performed.

2011-06-17 | E-GEOD-28285 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data