ANGIOGENES: knowledge database for protein-coding and noncoding RNA genes in endothelial cells
| Autor: | Raphael Müller, Giuseppe Militello, Wei Chen, Tyler Weirick, Shizuka Uchida, Stefanie Dimmeler, David John |
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| Rok vydání: | 2016 |
| Předmět: |
0301 basic medicine
Cell type Angiogenesis In silico Neovascularization Physiologic Article Transcriptome 03 medical and health sciences Mice 0302 clinical medicine Databases Genetic Animals Humans ddc:610 RNA Messenger Zebrafish Gene Genetics Protein coding Internet Multidisciplinary biology Sequence Analysis RNA Endothelial Cells biology.organism_classification Non-coding RNA 030104 developmental biology Cardiovascular and Metabolic Diseases 030220 oncology & carcinogenesis RNA Long Noncoding Technology Platforms |
| Zdroj: | Scientific Reports |
| ISSN: | 2045-2322 |
| Popis: | Increasing evidence indicates the presence of long noncoding RNAs (lncRNAs) is specific to various cell types. Although lncRNAs are speculated to be more numerous than protein-coding genes, the annotations of lncRNAs remain primitive due to the lack of well-structured schemes for their identification and description. Here, we introduce a new knowledge database “ANGIOGENES” (http://angiogenes.uni-frankfurt.de) to allow for in silico screening of protein-coding genes and lncRNAs expressed in various types of endothelial cells, which are present in all tissues. Using the latest annotations of protein-coding genes and lncRNAs, publicly-available RNA-seq data was analyzed to identify transcripts that are expressed in endothelial cells of human, mouse and zebrafish. The analyzed data were incorporated into ANGIOGENES to provide a one-stop-shop for transcriptomics data to facilitate further biological validation. ANGIOGENES is an intuitive and easy-to-use database to allow in silico screening of expressed, enriched and/or specific endothelial transcripts under various conditions. We anticipate that ANGIOGENES serves as a starting point for functional studies to elucidate the roles of protein-coding genes and lncRNAs in angiogenesis. |
| Databáze: | OpenAIRE |
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