Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Anatomical and molecular dissection of the prestreak chick embryo

ABSTRACT: Anatomical and molecular dissection of the prestreak chick embryo

PROVIDER: PRJEB32476 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR3316240.fastq.gz	Fastqsanger.gz
	ERR3316250.fastq.gz	Fastqsanger.gz
	ERR3316260.fastq.gz	Fastqsanger.gz
	ERR3316270.fastq.gz	Fastqsanger.gz
	ERR3316280.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Anatomical and molecular dissection of the prestreak chick embryo

Project description:This paper shows detailed information of prestreak stage chick embryos at the morphological level by using scanning electron microscopy, and at the molecular level by RNAseq and expression analysis.

2020-02-12 | E-MTAB-7941 | biostudies-arrayexpress

Apoptotic auditory brainstem of E13 chick embryo

Project description:We characterized the proteome of the auditory brainstem of a chick embryo on embryonic day 13, when apoptosis occurs in auditory nuclei. We identified caspase substrates by searching the peptidome for peptides C-terminal to caspase-typical cleavage sites.

2022-04-01 | PXD030697 | Pride

Molecular and anatomical organization of the dorsal raphe nucleus

Project description:The dorsal raphe nucleus (DRN) is an important source of neuromodulators and has been implicated in a wide variety of behavioral and neurological disorders. The DRN is subdivided into distinct anatomical subregions comprised of multiple cell types, and its complex cellular organization has impeded efforts to investigate the distinct circuit and behavioral functions of its subdomains. Here we used single-cell RNA sequencing, in situ hybridization, anatomical tracing, and spatial correlation analysis to map the transcriptional and spatial profiles of cells from the mouse DRN. Our analysis of 39,411 single-cell transcriptomes revealed at least 18 distinct neuron subtypes and 5 serotonergic neuron subtypes with distinct molecular and anatomical properties, including a serotonergic neuron subtype that preferentially innervates the basal ganglia. Our study lays out the molecular organization of distinct serotonergic and non-serotonergic subsystems, and will facilitate the design of strategies for further dissection the DRN and its diverse functions.

2019-08-06 | GSE134163 | GEO

Chick Cranial Small RNA-seq

Project description:Small RNA-seq of HH9- chick embryo cranial midbrain region

2022-08-17 | GSE171616 | GEO

Molecular characterization of chick anterior and posterior half-scleorotomes by RNA-sequencing.

Project description:During amniote peripheral nervous system development, segmentation ensures the correct patterning of the spinal nerves relative to vertebral column. Along the antero-posterior (rostro-caudal) axis, each somite-derived half-sclerotome has intrinsic molecular properties that govern this segmentation process. Posterior half-sclerotomes express repellent molecules to restrict axon growth and neural crest migration to anterior half-sclerotomes. Here, we report an RNA-sequencing-based molecular characterization of anterior and posterior half-sclerotomes, using the chick embryo as a model organism.

2020-09-12 | GSE103748 | GEO

Molecular, anatomical, and functional organization of lung interoceptors

Project description:Molecular, anatomical, and functional organization of lung interoceptors

| PRJNA772785 | ENA

Anatomical and Molecular Characterization of the Zebrafish Meninges

Project description:Anatomical and Molecular Characterization of the Zebrafish Meninges

| PRJNA1249042 | ENA

Transcriptomics analysis of bursal B-cells from the chick embryo

Project description:Transcriptomics analysis of bursal B-cells from the chick embryo

| PRJNA544302 | ENA

Deep Proteome of the Developing Chick Midbrain

Project description:The epithelial-to-mesenchymal transition (EMT) and migration of cranial neural crest cells are critical processes that occur in the early embryo that permit proper craniofacial patterning. Disruptions in these processes not only impair development but also lead to various diseases, underscoring the need for their detailed understanding at the molecular level. The chick embryo has served historically as an excellent model for human embryonic development. While chick cranial neural crest cell EMT and migration have been characterized at the transcript level, studies at the protein level—to allow direct measurement of the active players—have not been undertaken to date. In this study, we applied mass spectrometry (MS)-based proteomics to establish a deep proteomics profile of the midbrain region during early embryonic development. We developed a proteomics method combining optimal lysis conditions and offline fractionation with nanoflow liquid chromatography coupled to high-resolution MS to analyze the tissue from this region, which identified >5,900 proteins involved in key pathways related to neural crest cell EMT and migration such as signaling, proteolysis/extracellular matrix (ECM), and transcriptional regulation. This study offers valuable insight into important developmental processes occurring in the midbrain region and demonstrates the utility of proteomics for characterization of various tissues during chick embryogenesis.

2023-10-25 | PXD042200 | Pride

Effects of hypoxic preconditioning on neuroblastoma tumour oxygenation and metabolic signature in a chick embryo model

Project description:Hypoxia episodes and areas in tumours have been associated with metastatic dissemination and poor prognosis. Given the link between tumour tissue oxygen levels and cellular metabolic activity, we hypothesised that the metabolic profile between metastatic and non-metastatic tumours would reveal potential new biomarkers and signalling cues. We have used a previously established chick embryo model for neuroblastoma growth and metastasis, where the metastatic phenotype can be controlled by neuroblastoma cell hypoxic preconditioning (3 days at 1% O2). We measured, with fibre-optic oxygen sensors, the effects of the hypoxic preconditioning on the tumour oxygenation, within tumours formed by SK-N-AS cells on the chorioallantoic membrane (CAM) of chick embryos. We found that the difference between the metastatic and non-metastatic intratumoural oxygen levels was small (0.35% O2), with a mean below 1.5% O2 for most tumours. The metabolomic profiling, using NMR spectroscopy, of neuroblastoma cells cultured in normoxia or hypoxia for 3 days, and of the tumours formed by these cells showed that the effects of hypoxia in vitro did not compare with in vivo tumours. One notable difference was the high levels of the glycolytic end-products triggered by hypoxia in vitro, but not by hypoxia preconditioning in tumours, likely due to the very high basal levels of these metabolites in tumours compared with cells. In conclusion, we have identified high levels of ketones (3-hydroxybutyrate), lactate and phosphocholine in hypoxic preconditioned tumours, all known to fuel tumour growth, and we herein point to the poor relevance of in vitro metabolomic experiments for cancer research.

2018-08-13 | MTBLS541 | MetaboLights

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