Canis lupus familiaris
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA400178 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:miRNA expression of canine mammary cancer stem cells
| PRJNA195433 | ENA
Project description:Gene expression profile of canine mammary malignancy
| PRJNA188402 | ENA
Project description:Molecular homology and difference between spontaneous canine mammary cancer and human breast cancer.
| PRJNA236998 | ENA
Project description:Gene expression profiles of progestin-induced canine mammary hyperplasia and spontaneous mammary tumors
| PRJNA109413 | ENA
Project description:miRNA expression profiles of canine mammary cancer cells and macrophages grown in co-culture conditions
| PRJNA188240 | ENA
Project description:Gene expression regulation in canine mammary neoplastic cells by MDSC
| PRJNA231862 | ENA
Project description:Comparative oncology is a developing research discipline that is being used to assist our understanding of human neoplastic diseases. Companion canines are a preferred animal oncology model due to spontaneous tumor development and similarity to human disease at the pathophysiological level. We use a paired RNA sequencing (RNA-Seq)/microarray analysis of a set of four normal canine lymph nodes and ten canine lymphoma fine needle aspirates to identify technical biases and variation between the technologies and convergence on biological disease pathways. Surrogate Variable Analysis (SVA) provides a formal multivariate analysis of the combined RNA-Seq/microarray data set. Applying SVA to the data allows us to decompose variation into contributions associated with transcript abundance, differences between the technology, and latent variation within each technology. A substantial and highly statistically significant component of the variation reflects transcript abundance, and RNA-Seq proved more sensitive for detection of transcripts expressed at low levels. Latent random variation among RNA-Seq samples is also distinct in character from that impacting microarray samples. In particular, we observed variation between RNA-Seq samples that reflects transcript GC content. Platform-independent variable decomposition without a priori knowledge of the sources of variation using SVA represents a generalizable method for accomplishing cross-platform data analysis. We identified genes differentially expressed between normal lymph nodes of disease free dogs and a subset of the diseased dogs diagnosed with B-cell lymphoma using each technology. There is statistically significant overlap between the RNA-Seq and microarray sets of differentially expressed genes. Analysis of overlapping genes in the context of biological systems suggests elevated expression and activity of PI3K signaling in B-cell lymphoma biopsies compared with normal biopsies, consistent with literature describing successful use of drugs targeting this pathway in lymphomas.
2012-12-15 | GSE41917 | GEO
Project description:Establishment and RNA sequencing profiling of two canine mammary gland tumors cell lines
| PRJNA385190 | ENA
Project description:Metastatic Cascade is Reflected in the Gene Expression of Metastatic Canine Mammary Carcinomas Similar to Human Breast Cancer
| PRJNA128477 | ENA