Ontology highlight
ABSTRACT:
PROVIDER: PRJNA882763 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The purpose of this study was to characterize the transcriptomic alterations accompanying the inflammation involved in feline chronic gingivostomatitis (FCGS). Towards this goal next-generation sequencing (NGS)-based gene expression profiling (RNA-Sequencing; RNA-Seq) was performed on matched pairs of FCGS diseased and healthy tissues obtained from three feline subjects.
2020-09-25 | GSE149881 | GEO
Project description:In this study we are examining the paracrine effect induced by feline calicivirus (FCV) infection on stress granule (SG) accumulation. We provided an understanding of paracrine granules function and specificity through their affinity purification followed RNAseq to systematically analyse their RNA content.
2022-02-09 | GSE171655 | GEO
Project description:MicroRNAs negatively regulate gene expression and may serve as biomarkers for human cardiomyopathy. In the domestic cat, hypertrophic cardiomyopathy (HCM) represents the most common primary cardiomyopathy. In humans, the etiology of HCM is linked to mutations in genes of contractile muscle proteins, while in cats a clear proof for causal mutations is missing. The etiology of feline HCM is uncertain. Diagnosis is made by heart ultrasound examination and measuring the serum level of N-terminal pro B-type natriuretic peptide. The purpose of this study was to investigate whether microRNA profiles in the serum of cats with HCM are different from the profiles of healthy cats and whether specific miRNAs can be detected to serve as potential biomarkers for feline HCM or may help in understanding the etiology of this disease
2015-07-22 | GSE49427 | GEO
Project description:Histone modifications and CTCF mark the locations of genomic regulatory regions -- including promoters, enhancers, and insulators -- and have not been previously annotated for the domestic cat genome. Understanding where non-coding sequence variants fall in relation to regulatory regions is vital for determining their impact on gene function and their ability to cause disease. The addition of replicated feline ChIP-seq data from multiple tissues will aid in interpretation of non-coding variants, furthering characterization of genetic diseases and genetic test development.
2021-08-29 | GSE182952 | GEO
Project description:Single RNA sequencing analysis of myosin binding protein C3 (mybpc-3) associated Hypertrophic Cardiomyopathy to identify single cell gene expression changes across common pathological mechanisms and species-specific distinctions in human, feline, and murine heart tissues.
2024-03-06 | GSE255296 | GEO
Project description:MicroRNAs negatively regulate gene expression and may serve as biomarkers for human cardiomyopathy. In the domestic cat, hypertrophic cardiomyopathy (HCM) represents the most common primary cardiomyopathy. In humans, the etiology of HCM is linked to mutations in genes of contractile muscle proteins, while in cats a clear proof for causal mutations is missing. The etiology of feline HCM is uncertain. Diagnosis is made by heart ultrasound examination and measuring the serum level of N-terminal pro B-type natriuretic peptide. The purpose of this study was to investigate whether microRNA profiles in the serum of cats with HCM are different from the profiles of healthy cats and whether specific miRNAs can be detected to serve as potential biomarkers for feline HCM or may help in understanding the etiology of this disease Blood was drawn from two groups of cats: 12 healthy cats and 11 cats suffering from hypertrophic cardiomyopathy. After clotting, samples were centrifuged and total mRNA was extracted from serum. These 23 serum samples were analyzed and the groups were compared
2015-07-22 | E-GEOD-49427 | biostudies-arrayexpress
Project description:We report differential expression analysis of RNAseq data in joint-related tissues (articular cartilage and subchondral bone) in healthy foals (4 weeks of age or younger) and healthy adult horses. We find that 1115 genes are differentially expressed in cartilage and 3574 in bone between these two groups. Functional annotation suggests that differences primarily lie in genes involved in growth/turnover of tissue and cell signaling.
2020-01-15 | GSE135322 | GEO
Project description:Introduction: The domestic cat (Felis catus) is a valued companion animal and the second most popular pet (over 46.5 million US households). They are also an important model system for virally-induced cancers (feline leukemia virus) and virally-mediated immunodeficiency (feline immunodeficiency virus). However, species specific research limitations such as a lack of reagents and immune cell markers limit our ability to utilize these models to their full capacity. The goal of this study is to characterize the transcriptomic landscape of circulating feline T cells and other captured leukocytes utilizing CD5 (only available selective feline T cell marker) flow cytometry enriched single cell RNA-sequencing and V(D)J repertoire analysis in clinically healthy domestic shorthair cats between the ages of 6 months and 9 years as well as contextualize them with the leukocytes of other species. Methods: 5 mL of peripheral whole blood was collected from 4 healthy cats (6 months, 1 year, 4 years, 9 years) and were housed at the UC Davis Nutrition and Pet Care Center. Samples were enriched for T cells by flow cytometry using a mouse anti-feline CD5 monoclonal antibody. The GEX library was constructed using the Chromium Next GEM Single Cell 5’ Kit v2 (10x Genomics). The V(D)J library for all 4 T cell receptor loci was prepared using the Chromium Single Cell V(D)J Enrichment Kit with custom reverse primers for the feline orthologs. Sequencing was done via Illumina NovaSeq S4 and pre-processed using the Cell Ranger for alignment to the feline genome (felis_catus_9.0). Processing and downstream analyses were conducted via Seurat v5. Additional annotated datasets for cross species T cell integration were acquired from peer-reviewed literature. Results: Unsupervised clustering of GEX data revealed 7 major populations – T cells, neutrophils, monocytic cells, B cells, plasmacytoid dendritic cells, mast cells and platelets. Sub cluster analysis of T cells resolved different populations of naive (CD4+ and CD8+), CD4+ effector T cells, CD8+ cytotoxic T cells and γδ T cells for the first time. Cross species analysis revealed relatively high conservation of T cell subtypes along an effector gradient with equitable representation of veterinary species (horse, dog, pig) and humans with the cat. Our V(D)J repertoire analysis demonstrated marked differences in CD8+ cytotoxic T cells from other alpha/beta T cell subsets including productive TRG transcript expression. Among the myeloid cells, we resolved 3 clusters of classical monocytes with polarization into pro- and anti-inflammatory phenotypes in addition to a cluster of conventional dendritic cells. Lastly, our neutrophil sub clustering revealed a larger mature neutrophil cluster and a smaller exhausted/activated cluster. Discussion: Our study is the first to characterize the subtypes of circulating T cells utilizing an integrative approach of single cell RNA-sequencing, V(D)J repertoire analysis and cross species integration. Additionally, we also characterize subtypes in the myeloid cells expanding our understanding of the feline immune system. We have also demonstrated species immune cell relatedness which can provide an important foundation for further translational immunology, pathogenesis, translational treatments, and species-tropism of pathogens in veterinary medicine and research.
2024-05-17 | GSE267355 | GEO