Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic changes during regeneration in demosponge Cinachyyrella cf cavernosa

ABSTRACT: Transcriptomic changes during regeneration in demosponge Cinachyyrella cf cavernosa

PROVIDER: PRJNA556233 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR9735060_1.fastq.gz	Fastqsanger.gz
	SRR9735060_2.fastq.gz	Fastqsanger.gz
	SRR9735058_1.fastq.gz	Fastqsanger.gz
	SRR9735058_2.fastq.gz	Fastqsanger.gz
	SRR9735059_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Transcriptomic changes during regeneration in demosponge Cinachyyrella cf cavernosa

Project description:In this study, the differential regeneration process in sponge Cinachyrella cf cavernosa was examined by creating a wound at basal and non-basal tissues. The differences in wound healing were investigated based on qualitative and quantitative changes in collagen at both wound locations. The variation at the cellular level was also studied during regeneration. To understand the molecular process of gene regulation during regeneration in C.cf cavernosa, differential gene expression (transcriptomics) analysis was carried out using Illumina NextSeq 500. The basal tissue was found to heal faster than non-basal tissue and collagen was found to be the responsible factor for this increased rate of wound healing. There was no apparent difference in the types and density of cells present in regenerative basal and non-basal tissue. The differential analysis of fast regenerating basal tissue showed up-regulation in collagen-related gene Col and actin-related genes during progressive stages of regeneration. Contrary to other metabolism-related genes, lipid metabolism related genes are expressed in more numbers with consecutive stages of regeneration highlighting their role in stress management of the sponge. This study serves to advance our understanding of the regeneration process, factors affecting the rate of this process and transcriptomic changes in regenerating sponge.

2020-06-29 | GSE134724 | GEO

Transcriptomic changes in Cinachyrella cf cavernosa as a response to spatial competition

Project description:Demosponge Cinachyrella cf cavernosa is an inter-tidal sponge. It is found in competition with soft coral Zoanthus sansibaricus and macroalgae Dictyota ciliatum. The effect of these two spatial competitors on the gene expression profile of the sponge is checked. Sponges are collected from three distinct situations, 1. sponge without competitors, 2. sponge in competition with algae, and 3. sponge in competition with soft coral. Each group has three biological replicates.

2023-04-25 | E-MTAB-9052 | biostudies-arrayexpress

Transcriptomic changes in Cinachyrella cf cavernosa as a response to spatial competition

Project description:Transcriptomic changes in Cinachyrella cf cavernosa as a response to spatial competition

| PRJEB38249 | ENA

Transcriptome of Cinachyrella cf. cavernosa under competition

Project description:Transcriptomic response of Cinachyrella cf. cavernosa sponges to spatial competition

| PRJEB46089 | ENA

Corpora cavernosa fibroblasts mediate penile erection

Project description:Penile erection is mediated by the corpora cavernosa, a trabecular-like vascular bed, which enlarges upon vasodilation, but its regulation is not completely understood. Here, we show that perivascular fibroblasts in the corpora cavernosa support vasodilation by reducing norepinephrine availability. We used scRNAseq to investigate fibroblast heterogeneity in the penis.

2024-03-01 | GSE249526 | GEO

Bulk RNA sequencing of kidney in newborn non-CF and CF pigs

Project description:We did bulk RNA sequencing in newborn cystic fibrosis (CF) and non-CF pig kidney. We compared kidney gene expression profiling between non-CF and CF pigs. RNA sequencing results showed that there is not significant difference between non-CF and CF in terms of gene expression, suggesting that CFTR knockout does not affect kidney development in newborn pigs.

2024-06-07 | GSE217122 | GEO

Gene expression in CF-vs-non CF human airway epithelial cell samples obtained by nasal brushing.

Project description:A small-scale whole genome microarray study of gene expression in human native nasal epithelial cells from F508del-CFTR homozygous CF patients and non-CF controls. We used the custom designed Affymetrix HsAirwaya520108F Arrays to compare gene expression in 5 CF and 5 non CF nasal epithelial cell samples. We analysed a total of 10 samples (5 CF and 5 non CF). The CF group contained 2 males and 3 females, with an average age of 14 years and an average of 6% inflammatory cells per sample, and the non CF group contained 3 males and 2 females with an average age of 14.8 years and an average of 4.7% inflammatory cells.

2013-04-10 | E-GEOD-40445 | biostudies-arrayexpress

Gene expression in CF-vs-non CF human airway epithelial cell samples obtained by nasal brushing.

2013-04-10 | GSE40445 | GEO

Corpora cavernosa fibroblasts mediate penile erection

Project description:Corpora cavernosa fibroblasts mediate penile erection

| PRJNA1049437 | ENA

Exposure of CF and WT primary human monocyte derived macrophages to extracellular vesicles secreted by CF or WT primary human airway epithelial cells.

Project description:Mutations in CFTR have been shown to alter the immune response of macrophages, for example, by reducing the ability of macrophages to phagocytose and kill bacteria. This contributes to chronic bacterial infection and inflammation in the lungs, which leads to significant morbidity and mortality in cystic fibrosis (CF). Extracellular vesicles (EVs) are secreted by a variety of cell types in the lungs and participate in the host immune response to bacterial infection. However, nothing is known about the effect of EVs secreted by CF airway epithelial cells (AEC) on CF macrophages. Therefore, we examined the effect of EVs secreted by primary CF AEC on CF monocyte derived macrophages (MDM) and compared it with the effect of EVs secreted by wild type (WT) AEC on WT MDM. EVs increased pro-inflammatory cytokine secretion and enhanced the expression of numerous innate immune genes in WT MDM. However, the response of CF MDM to EVs was significantly attenuated compared to WT MDM, a difference that was also observed when EVs were isolated from WT and CF AEC exposed to Pseudomonas aeruginosa. Attenuated responses by CF MDM can be attributed to defects in the CF macrophages themselves rather than differences between CF and WT EVs, because EVs secreted by CF AEC or WT AEC elicited similar cytokine secretion by CF MDM. EVs secreted by P. aeruginosa exposed AEC resulted in the upregulation of immune response genes and increased secretion of pro-inflammatory cytokines, chemoattractants and chemokines involved in tissue repair by WT MDM, whereas the response of CF MDM was attenuated by comparison. To our knowledge, this is the first study examining the effect of EVs secreted by CF AEC on CF MDM, and it demonstrates that the Phe508del mutation in CFTR attenuates the innate immune response of MDM to EVs.

2021-02-19 | GSE163095 | 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