Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Chicken heart transcriptome

ABSTRACT: Study potential cardiac implications of wooden breast disease in chickens

PROVIDER: PRJEB85439 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR14231400_1.fastq.gz	Fastqsanger.gz
	ERR14231400_2.fastq.gz	Fastqsanger.gz
	ERR14231401_1.fastq.gz	Fastqsanger.gz
	ERR14231401_2.fastq.gz	Fastqsanger.gz
	ERR14231402_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Tittel: 20241111_Wooden Breast Chicken MS data

Project description:Male Ross 308 broiler chickens (Gallus Gallus) were raised with ad libitum access to a pelleted wheat/maize diet from the 10th day of age. Breast muscle was acquired from the chickens at 36 days post-hatching. The degree of wooden breast (non-affected, moderately affected and affected) were first sorted by palpation of individual chickens, followed by classification using near-infrared (NIR) spectroscopy of breast filet and histology of specimen. Samples were grouped into three categories: affected, moderately affected and non-affected according to WB myopathy based on the connective tissue content (fibrotic signs). For the shotgun proteomics analysis, salt soluble proteins were extracted from breast filet. Twelve biological replicates of each group were included in the analysis. The proteins were reduced and alkylated prior to digestion with Trypsin/Lys-C. And peptides were analyzed by Dionex Ultimate 3000 UHPLC (Thermo Scientific) coupled to a Q-Exactive hybrid quadrupole Orbitrap mass spectrometer (Thermo Scientific).

2024-11-14 | MSV000096414 | MassIVE

Single-cell analysis reveals gene expression profiles and cell types in wooden breast myopathy

Project description:Wooden Breast (WB) is a novel myopathy affecting the pectoralis major muscle of modern broiler chickens. We selected pectoralis fillet samples, a normal(healthy) fillet and a WB fillet.

2022-04-13 | GSE200516 | GEO

Chromatin Remodeling Complex Dosage Modulates Transcription Factor Function in Heart Development

Project description:Dominant mutations in cardiac transcription factor genes cause human inherited congenital heart defects (CHDs), but their molecular basis is not understood. Transcription factors and Brg1/Brm-associated factor (BAF) chromatin remodeling complex interactions suggest potential mechanisms, but the role of BAF complexes in cardiogenesis is not known. Here we show that dosage of Brg1 is critical for mouse and zebrafish cardiogenesis. Disrupting the balance between Brg1 and disease-causing cardiac transcription factors, including Tbx5, Tbx20, and Nkx2-5, causes severe cardiac anomalies, revealing an essential allelic balance between Brg1 and these cardiac transcription factor genes. This suggests that relative levels of transcription factors and BAF complexes are important for heart development, which is supported by reduced occupancy of Brg1 at cardiac genes in Tbx5 haploinsufficient hearts. Our results reveal complex dosage-sensitive interdependence between transcription factors and BAF complexes, providing a potential mechanism underlying transcription factor haploinsufficiency, with implications for multigenic inheritance of CHDs. We performed transcriptional profiling of E11.5 hearts from mice heterozygous for deletions of Brg1, Tbx5, or Nkx2-5, and mice that were compound heterozygotes for Brg1 and each transcription factor gene (Tbx5 and Nkx2-5).

2010-12-22 | E-GEOD-26191 | biostudies-arrayexpress

RNA-seq chicken

Project description:RNA-seq data for characterization of wooden breast myopathy in chicken

| PRJEB66500 | ENA

Integrating metabolomic and transcriptomic to reveal the dynamics of ntramuscular fat in chicken meat

Project description:In this study, we investigated the dynamic changes of intramuscular fat (IMF) deposition in the breast muscle of Jingyuan chickens at different stages (42-, 126- and 180-day-old) using metabolomics. pH45min, a*, and L* were significantly increased in the breast muscle of 126-day-old chickens, and IMF content and b* were significantly increased in the breast muscle of 180-day-old chickens. A total of 4,643 differentially expressed metabolites (DEMs) were identified, of which 10 decreased and 29 increased with age. Key pathways associated with meat quality included oxidative phosphorylation, β-alanine metabolism, and glycerophospholipid metabolism. Combined transcriptomic and phenotypic correlation analyses revealed significant positive correlations of IMF, pH45min, a*, and L* with LysoPC 20:4, CD3E, TARP, IL7R, ENSGALG00010025331, and RASSF5. In the 42- and 180-day-old chickens, IMF, pH45min, a*, and L* were significantly and positively correlated with L-Anserine, Dihydroxyacetone phosphate, ENSGALG00010006904, and HSPB7. IMF, pH45min, a*, and L* were significantly and positively correlated with beta-Nicotinamide adenine dinucleotide in the 126- and 180-day-old. This study deepens our understanding of the differences in IMF deposition at different stages of Jingyuan chickens and its relationship with meat quality.

2025-07-16 | GSE294245 | GEO

Transcriptome analysis reveals an activation of MHC-I and MHC-II pathways in chicken trachea immunized with infectious laryngotracheitis virus vaccine

Project description:Infectious laryngotracheitis (ILT) is an acute, contagious, upper respiratory disease, which is caused by gallid herpesvirus 1 (GaHV-1). Due to the mortality rates up to 70% depending on the virulence of the virus, it is of economic importance of the disease to explore the etiology of the ILT in the poultry industry. In this study, 15-day-old SPF white leghorn chickens were used to transcriptome analysis in chicken trachea immunized with infectious laryngotracheitis virus vaccine. In conclusion, chicken embryo origin (CEO) vaccine activation of the MHC-I and MHC-II pathways provides insight into the molecular mechanism of immune response in chickens, and holds potential for evaluation and design of new ILT vaccines in a manner adapted to the host immune response to the virus.

2014-04-08 | GSE46046 | GEO

Transcriptomic expression profiles of SPF chicken-heart infected with fowl adenovirus-4

Project description:To elucidate the expression changes of host genes of SPF chickens infected with fowl adenovirus-4 at 48 hours post-infection. The hearts of SPF chickens infected with fowl adenovirus-4 were collected and high throughout sequenced. Compared with the control group, there were 1797 differentially expressed genes were obtained in the infection group, including 1082 up-regulated genes and 715 down-regulated genes.

2020-06-03 | GSE151663 | GEO

MicroRNA profiling associated with muscle growth in modern broilers compared to an unselected chicken breed

Project description:We recently performed global gene expression in the breast muscles of modern broiler and foundation line chickens. In this study, we have peformed miRNA expression analyses in the same tissues to identify muscle specific miRNAs that could be regulatory factors for muscle growth and feed efficiency in chickens.

2018-09-07 | GSE119528 | GEO

Proteomics Unveils Chemical Modifications on Protein Side Chains in Raw Chicken Meat Affected with Growth-Related Myopathies

Project description:The objective of this study was to investigate chemical modifications on side chains of proteins in breast of chickens affected with different levels of growth-related myopathies.

2025-11-04 | PXD057484 | JPOST Repository

Integrative Analysis of the Ovarian Metabolome and Transcriptome of the Yaoshan Chicken and its Hybrids

Project description:Laying performance is a key factor affecting production efficiency in poultry farming, but its molecular mechanism is still unclear. In this study, Yaoshan chickens, a local breed in Guizhou, China, and commercial chickens (GYR) with higher egg yield after the three-line cross improvement hybridization of Yaoshan chickens were used as animal samples. To explore the regulatory mechanism of the differences in laying performance, RNA-seq and ultra-performance liquid chromatography-tandem mass spectrometry (UPLC‒MS/MS) were used to portray the transcriptional and metabolic profiles of the ovaries of Yaoshan and GYR chickens. At the transcriptional level, 288 differentially expressed genes were upregulated in Yaoshan chickens and 353 differentially expressed genes were upregulated in GYR chickens. In addition, GSEA revealed that ECM-receptor interactions and the TGF-β signalling pathway were inhibited, resulting in increased egg production in GYR chickens. Furthermore, the upregulation of thiamine and carnitine was identified by metabolomic analysis to promote the laying performance of chickens. Finally, comprehensive analyses of the transcriptome and metabolome found that thiamine and carnitine were negatively correlated with ECM-receptor interactions and the TGF-β signalling pathway, which jointly regulate the laying performance of Yaoshan chickens and GYR chickens. In conclusion, our study delineates differences in the transcriptional and metabolic profiles of the ovaries of Yaoshan and GYR chickens during the peak egg production period and provides new hypotheses and clues for further research on poultry egg production performance and the improvement of economic benefits.

2022-12-10 | GSE218287 | 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