Please use this identifier to cite or link to this item: https://hdl.handle.net/11147/7894
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dc.contributor.authorHamzeiy, Hamid-
dc.contributor.authorSuluyayla, Rabia-
dc.contributor.authorBrinkrolf, Christoph-
dc.contributor.authorJanowski, Sebastian Jan-
dc.contributor.authorHofestädt, Ralf-
dc.contributor.authorAllmer, Jens-
dc.date.accessioned2020-07-18T03:35:20Z-
dc.date.available2020-07-18T03:35:20Z-
dc.date.issued2018-
dc.identifier.issn0926-9630-
dc.identifier.urihttps://hdl.handle.net/11147/7894-
dc.identifier.urihttps://doi.org/10.3233/978-1-61499-896-9-183-
dc.descriptionPubMed: 30147069en_US
dc.description.abstractMicroRNAs (miRNAs), approximately 22 nucleotides long, post-transcriptionally active gene expression regulators, play active roles in modulating cellular processes. Gene regulation and miRNA regulation are intertwined and the main aim of this study is to facilitate the analysis of miRNAs within gene regulatory pathways. VANESA enables the reconstruction of biological pathways and supports visualization and simulation. To support integrative miRNA and gene pathway analyses, a custom database of experimentally proven miRNAs, integrating data from miRBase, TarBase and miRTarBase, was added to DAWIS-M.D., which is the main data source for VANESA. Analysis of human KEGG pathways within DAWIS-M.D. showed that 661 miRNAs (~1/3 recorded human miRNAs) lead to 65,474 interactions. hsa-miR-335-5p targets most genes in our system (2,544); while the most targeted gene (with 71 miRNAs) is NUFIP2 (Nuclear Fragile X Mental Retardation Protein Interacting Protein 2). Amyotrophic Lateral Sclerosis (ALS), a complex neurodegenerative disease, was chosen as a proof of concept model. Using our system, it was possible to reduce the initially several hundred genes and miRNAs associated with ALS to eight genes, 19 miRNAs and 31 interactions. This highlights the effectiveness of the implemented system to distill important information from otherwise hard to access, highly convoluted and vast regulatory networks.en_US
dc.language.isoenen_US
dc.publisherIOS Pressen_US
dc.relation.ispartofStudies in Health Technology and Informaticsen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectAmyotrophic lateral sclerosisen_US
dc.subjectgene expression regulationen_US
dc.subjectKEGGen_US
dc.subjectMetabolic networksen_US
dc.subjectMicroRNAsen_US
dc.subjectmiRBaseen_US
dc.subjectmiRTarBaseen_US
dc.titleVisualization and analysis of miRNAs implicated in amyotrophic lateral sclerosis within gene regulatory pathwaysen_US
dc.typeArticleen_US
dc.institutionauthorSuluyayla, Rabia-
dc.institutionauthorAllmer, Jens-
dc.departmentİzmir Institute of Technology. Molecular Biology and Geneticsen_US
dc.identifier.volume253en_US
dc.identifier.startpage183en_US
dc.identifier.endpage187en_US
dc.identifier.scopus2-s2.0-85056274164en_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.identifier.doi10.3233/978-1-61499-896-9-183-
dc.identifier.pmid30147069en_US
dc.identifier.scopusqualityQ3-
item.fulltextWith Fulltext-
item.cerifentitytypePublications-
item.openairetypeArticle-
item.openairecristypehttp://purl.org/coar/resource_type/c_18cf-
item.grantfulltextopen-
item.languageiso639-1en-
crisitem.author.dept04.03. Department of Molecular Biology and Genetics-
Appears in Collections:Molecular Biology and Genetics / Moleküler Biyoloji ve Genetik
PubMed İndeksli Yayınlar Koleksiyonu / PubMed Indexed Publications Collection
Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
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