{"data":{"id":"10.6084/m9.figshare.1568991","type":"dois","attributes":{"doi":"10.6084/m9.figshare.1568991","prefix":"10.6084","suffix":"m9.figshare.1568991","identifiers":[],"alternateIdentifiers":[],"creators":[{"name":"Telegina, Darya V","nameType":"Personal","givenName":"Darya V","familyName":"Telegina","affiliation":[],"nameIdentifiers":[]},{"name":"Korbolina, Elena E","nameType":"Personal","givenName":"Elena E","familyName":"Korbolina","affiliation":[],"nameIdentifiers":[]},{"name":"Ershov, Nikita I","nameType":"Personal","givenName":"Nikita I","familyName":"Ershov","affiliation":[],"nameIdentifiers":[]},{"name":"Kolosova, Nataliya G","nameType":"Personal","givenName":"Nataliya G","familyName":"Kolosova","affiliation":[],"nameIdentifiers":[]},{"name":"Oyuna S Kozhevnikova","affiliation":[],"nameIdentifiers":[]}],"titles":[{"title":"Identification of functional networks associated with cell death in the retina of OXYS rats during the development of retinopathy"}],"publisher":"Taylor \u0026 Francis","container":{},"publicationYear":2018,"subjects":[{"subject":"Medicine"},{"subject":"Cell Biology"},{"subject":"Genetics"},{"subject":"FOS: Biological sciences","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Biological sciences","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"Molecular Biology"},{"subject":"Neuroscience"},{"subject":"Physiology"},{"subject":"Immunology"},{"subject":"FOS: Clinical medicine","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Clinical medicine","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"69999 Biological Sciences not elsewhere classified","subjectScheme":"FOR"},{"subject":"Developmental Biology"},{"subject":"Cancer"},{"subject":"111714 Mental Health","subjectScheme":"FOR"},{"subject":"FOS: Health sciences","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Health sciences","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"110309 Infectious Diseases","subjectScheme":"FOR"}],"contributors":[],"dates":[{"date":"2015-10-08","dateType":"Created"},{"date":"2019-06-03","dateType":"Updated"},{"date":"2018","dateType":"Issued"}],"language":null,"types":{"ris":"DATA","bibtex":"misc","citeproc":"dataset","schemaOrg":"Dataset","resourceType":"Dataset","resourceTypeGeneral":"Dataset"},"relatedIdentifiers":[{"relationType":"IsSupplementTo","relatedIdentifier":"10.1080/15384101.2015.1080399","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":["2764154 Bytes"],"formats":[],"version":null,"rightsList":[{"rights":"Creative Commons Attribution 4.0 International","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rightsIdentifier":"cc-by-4.0","rightsIdentifierScheme":"SPDX"}],"descriptions":[{"description":"Age-related macular degeneration (AMD) is a major cause of blindness in developed countries, and the molecular pathogenesis of early events in AMD is poorly understood. Senescence-accelerated OXYS rats develop AMD-like retinopathy. The aim of this study was to explore the differences in retinal gene expression between OXYS and Wistar (control) rats at age 20 d and to identify the pathways of retinal cell death involved in the OXYS retinopathy initiation and progression. Retinal mRNA profiles of 20-day-old OXYS and Wistar rats were generated at the sequencing read depth 40 mln, in triplicate, using Illumina GAIIx. A terminal deoxynucleotidyl transferase-mediated deoxyuridine triphosphate nick end labeling (TUNEL) assay was performed to measure the apoptosis level. GeneMANIA was used to construct interaction networks for differentially expressed (DE) apoptosis-related genes at ages 20 d and 3 and 18 months. Functional analysis was suggestive of a developmental process, signal transduction, and cell differentiation as the most enriched biological processes among 245 DE genes at age 20 d An increased level of apoptosis was observed in OXYS rats at age 20 d but not at advanced stages. We identified functional clusters in the constructed interaction networks and possible hub genes (\u003ci\u003eRasa1, cFLAR, Birc3, Cdk1, Hspa1b, Erbb3\u003c/i\u003e, and \u003ci\u003eNtf3)\u003c/i\u003e. We also demonstrated the significance of the extrinsic apoptotic pathway at preclinical, early, and advanced stages of retinopathy development. Besides the cell death signaling pathways, immune system-related processes and lipid-metabolic processes showed overrepresentation in the clusters of all networks. These characteristics of the expression profile of the genes functionally associated with apoptosis may contribute to the pathogenesis of AMD-like retinopathy in senescence-accelerated OXYS rats.","descriptionType":"Abstract"}],"geoLocations":[],"fundingReferences":[],"xml":"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