Childhood arthritis DNA
Ontology highlight
ABSTRACT:
PROVIDER: EGAS00001002652 | EGA |
REPOSITORIES: EGA
Similar Datasets
Project description:The aim of this study is to describe the transcriptome of single arthritic cells. .
This dataset contains all the data available for this study on 2020-01-15.
| EGAD00001005785 | EGA
Project description:This is a pilot single cell mRNA sequencing experiment to study immune cells in psoriatic arthritis.
| EGAS00001002104 | EGA
Project description:Single-cell genomics and single-cell transcriptomics have recently emerged as powerful tools to study the biology of single cells at a genome-wide scale. Here we describe a method that allows the integration of genomic DNA and mRNA sequencing from the same cell. We use this method to correlate DNA copy number variation to transcriptome variability among individual cells.
2014-12-11 | GSE62952 | GEO
Project description:In this study, we performed single-cell transcriptional profiling of human embryonic and fetal gut samples obtained from 9 human embryos spanning ages 6-10 PCW and three regions (duo-jejunum, ileum and colon). Additionally, we profile mucosal biopsies from the terminal ileum of healthy children aged 4-12 years (n = 8) as well as a group of children newly diagnosed with Crohn’s disease (CD) (n = 7), a common form of IBD. Tissue samples were treated using an enzymatic dissociation protocol and single cell suspensions were then processed using the 3’v2 10x Genomics Chromium workflow. In a subset of samples, the intestinal epithelial cell fraction was enriched by performing magnetic bead sorting for EPCAM. In total, we generate single cell transcriptomes of ~90,000 primary human intestinal cells providing a rich resource and detailed roadmap. Using this data as well as scRNAseq profiles of human fetal gut derived organoids we describe embryonic and fetal epithelium composition, trace their differentiation dynamics and signaling partners, and provide links to regenerating Crohn’s disease epithelium.
2020-12-22 | E-MTAB-8901 | biostudies-arrayexpress
Project description:The objective of this study was the assessment of transcriptional dysregulation in particular with regard to B-cell differentiation factors. Most studies focus on cross-section analyses of various leukemia subtypes to identify differentially regulated genes lacking suitable reference models. Here we applied comparative intraindividual transcriptome analysis of B-precursor ALL of childhood, which introduces a side-by-side analysis of leukemic cells and matched normal lymphoblasts from the same individual in complete continuous remission after the end of re-induction therapy. This approach reduces noise by eliminating interindividual variability. Comparative matched pair analysis of (single sorted) initial leukemia and single sorted lymphoblasts isolated from the same individual, n=4 pairs, reference samples are the single sorted normal lymphoblasts. Please note that there are sorted samples form only three of the patients. Due to experimental circumstances, a "sorted" sample from the last patient was not included.
2013-09-17 | E-GEOD-42221 | biostudies-arrayexpress
Project description:In this study we describe the immunosupressive role of Tim3+ tumor cells during eraly stages of metastasis. We used single cell RNA sequencing (scRNA-seq) to analyze the diversity of immune cells subsets altered by Tim3 expression in the tumor cells. The aim was to determine the immune status of immunosuppressive and cytotoxic populations during the dynamic process of the metastatic colonization in the liver
2025-07-02 | GSE260482 | GEO
Project description:<p>Cariogenic microorganisms as well as salivary metabolic status in early childhood caries (ECC) have been reported to differ from that in adult caries. The main aim of this study was to identify specific microbial species and salivary metabolites in children with ECC using species-specific qPCR and untargeted metabolomic approach. Scardovia wiggsiae, Streptococcus mutans, Streptococcus sobrinus, Lactobacillus salivarius and Candida albicans were more prevalent in ECC group. Prevalence of ECC was higher in children with two targeted species present. Histidine metabolism and valine, leucine and isoleucine degradation were activated in ECC group, while glyoxylate and dicarboxylate metabolism, Purine and Pyrimidine metabolism were inhibited. Histidine and glutathione metabolism was activated with enrichment of targeted microorganism, while linoleic acid and biotin metabolism was inhibited. These findings suggest that detection / co-detection of targeted microorganisms can well describe caries status in children. Microbial and metabolite biomarkers can be used in caries control for children.</p>
2024-11-12 | MTBLS10890 | MetaboLights
Project description:Single-cell nucleosome, methylome and transcriptome (scNMT) sequencing is a recently developed method that allows multiomics profiling of single cells. In this scNMT protocol, we describe profiling of cells from mouse brain and pancreatic organoids, using liquid handling platforms to increase throughput from 96-well to 384-well plate format. Our approach miniaturizes reaction volumes and incorporates the latest Smart-seq3 protocol to obtain a higher number of detected genes and genomic DNA (gDNA) CpG sites per cell. We outline normalization steps to optimally distribute per-cell sequencing depth.
2022-08-12 | GSE210804 | GEO
Project description:T-cell acute lymphoblastic leukemia (T-ALL) is a genetically highly heterogeneous disease, and numerous genetic aberrations in the leukemic genome are responsible for the biological and clinical differences among particular ALL subtypes. However, there is limited knowledge about the association of whole genome copy number abnormalities (CNAs) in childhood T-cell ALL with the course of leukemia and outcome. The aim of study was identification the pattern of whole genome CNAs in 86 newly diagnosed childhood T-ALL using a high-density single-nucleotide polymorphism (SNP) array.A series of bone marrow aspirates from 86 children with newly diagnosed T-ALL were analysed prior to any oncological treatment.
2020-03-24 | GSE147381 | GEO
Project description:The aim of this study is to describe expression changes related to the metastatic behavior of PCa cells after siRNA-mediated knockdown of PRK1.
2017-12-11 | GSE64082 | GEO