Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Multigenerational cell tracking of DNA replication and heritable DNA damage (scRNA)

ABSTRACT: Multigenerational cell tracking of DNA replication and heritable DNA damage (scRNA)

PROVIDER: PRJNA1217854 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR32192717_1.fastq.gz	Fastqsanger.gz
	SRR32192717_2.fastq.gz	Fastqsanger.gz
	SRR32192718_1.fastq.gz	Fastqsanger.gz
	SRR32192718_2.fastq.gz	Fastqsanger.gz
	SRR32192719_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 20

Similar Datasets

Multigenerational cell tracking of DNA replication and heritable DNA damage

Project description:Multigenerational cell tracking of DNA replication and heritable DNA damage

| PRJNA1076892 | ENA

Multigenerational cell tracking of DNA replication and heritable DNA damage (bulk)

Project description:Multigenerational cell tracking of DNA replication and heritable DNA damage (bulk)

| PRJNA1217850 | ENA

Multigenerational cell tracking of DNA replication and heritable DNA damage

Project description:The goal of this project was to analyze gene expression changes upon polyploidization. To this end, human U-2 OS cells were exposed to the NEDD8-activating enzyme (NAE) inhibitor Pevonedistat (MLN4924), a first-in-class anticancer drug that induces DNA re-replication, or to oncogenic H-RAS V12 (HRAS) over-expression. Untreated U-2 OS cells served as control. Cells with 2N-4N DNA content were separated from cells with >4N DNA content by FACS and single cells were sorted into 384 well plates for scRNA-seq analysis.

2025-03-31 | GSE255874 | GEO

Multigenerational cell tracking of DNA replication and heritable DNA damage (bulk)

Project description:The goal of this project was to analyze gene expression changes upon DNA damage induced by ionizing radiation (IR). To this end, human U-2 OS cells were left untreated or exposed to 4 Gy of IR and 24 h after IR exposure collected for RNA extraction and sequencing.

2025-03-31 | GSE288485 | GEO

Multigenerational cell tracking of DNA replication and heritable DNA damage (scRNA)

Project description:The goal of this project was to analyze gene expression changes and gene expression heterogeneity at the single cell level upon DNA damage induced by ionizing radiation (IR). To this end, human U-2 OS cells were left untreated or exposed to 4 Gy of IR. 48 h after IR exposure, single cells were sorted into 384 well plates for scRNA-seq analysis.

2025-03-31 | GSE288487 | GEO

Synthetic circuit identifies subpopulations with sustained memory of DNA damage

Project description:Differential responses to stimuli can affect how cells succumb to disease. In yeast, DNA damage can create heterogeneous responses. To delineate how a response contributes to a cell's future behavior, we constructed a transcription-based memory circuit that detects DNA repair to isolate subpopulations with heritable damage responses. Strongly responsive cells show multigenerational effects, including growth defects and iron-associated gene expression. Less-responsive cells exhibit increased mutation frequencies but resume wild-type behavior. These two subpopulations remain distinct for multiple generations, indicating a transmissible memory of damage. Collectively, this work demonstrates the efficacy of using synthetic biology to define how environmental exposure contributes to distinct cell fates. Cells containing the HUG1 memory device (Burrill, 2011) were exposed to 0.3% EMS for 24 h and recovered for 36 h, at which point cells were sorted based on YFP expression, i.e. memory and non-memory cells. These two sorted populations were then grown for another 12 h, at which point transcriptional profiling was performed.

2012-03-02 | E-GEOD-36210 | biostudies-arrayexpress

Synthetic circuit identifies subpopulations with sustained memory of DNA damage

2012-03-02 | GSE36210 | GEO

Multigenerational effect of heat stress on the Drosophila melanogaster sperm proteome

Project description:The notion that genes are the sole units of heredity and that a barrier exists between soma and germline has been a major hurdle in elucidating the heritability of traits that were observed to follow a non-Mendelian inheritance pattern. It was only after the conception of “epigenetics” by C. H. Waddington that the effect of parental environment on subsequent generations via non-DNA sequence-based mechanisms, such as DNA methylation, chromatin modifications, non-coding RNAs and proteins, could be established in various organisms, now referred to as multigenerational epigenetic inheritance. Despite the growing body of evidence, the male gamete-derived epigenetic factors that mediate the transmission of such phenotypes are seldom explored, particularly in the model organism Drosophila melanogaster. Using the heat stress-induced multigenerational epigenetic inheritance paradigm in a widely used position-effect variegation line of Drosophila, named white-mottled, we have dissected the effect of heat stress on the sperm proteome in the current study. We demonstrate that multiple successive generations of heat stress at the early embryonic stage results in a significant downregulation of proteins associated with translation, chromatin organization, microtubule-based processes, and generation of metabolites and energy in the Drosophila sperms. Based on our findings, we propose chromatin-based epigenetic mechanisms, a well-established mechanism for environmentally induced multigenerational effects, as a plausible way of transmitting heat stress memory via the male germ line in subsequent generations. Moreover, we demonstrate the effect of multiple generations of heat stress on the reproductive fitness of Drosophila, shedding light on the adaptive or maladaptive potential of heat stress-induced multigenerational phenotypes.

2024-05-10 | PXD037488 | Pride

TCDD-mediated multigenerational effects in mice

Project description:TCDD exposure cauuses multigenerational effect in mice.

2023-01-18 | GSE220204 | GEO

Intergenerational hormesis is regulated by heritable 18S rRNA methylation 18S rRNA methylation is heritably transmitted to regulate intergenerational hormesis

Project description:Heritable non-genetic information can regulate a variety of complex phenotypes. However, what specific non-genetic cues are transmitted from parents to their descendants are unknown. Here, we perform metabolic methyl-labelling experiments to track the heritable transmission of methylation from ancestors to their descendants in the nematode Caenorhabditis elegans. We find that methylation is transmitted to descendants in proteins, RNA, DNA and lipids. We further find that in response to parental starvation, naïve progeny display reduced fertility, increased heat stress resistance, and extended longevity. This intergenerational hormesis is accompanied by a heritable increase in N6’-dimethyl adenosine (m6,2A) on the 18S ribosomal RNA at adenosines 1735 and 1736. We identified DIMT-1 as the m6,2A methyltransferase in C. elegans and find that dimt-1 is required for the intergenerational hormesis phenotypes. Together this study provides the first labeling and tracking of heritable non-genetic material across generations and demonstrates the importance of rRNA methylation for regulating the heritable response to starvation

2022-05-01 | GSE175363 | GEO

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