title: ANGIOGENES: knowledge database for protein-coding and noncoding RNA genes in endothelial cells.
abstract: 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.
authors: Institute of Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt, Theodor-Stern-Kai 7, Frankfurt am Main 60590, Germany.|German Center for Cardiovascular Research, Partner side Rhein-Main, Frankfurt am Main 60590, Germany.|THM - University of Applied Sciences, Department MNI, Wiesenstr. 14, D-35390 Giessen, Germany.
authors: Raphael
authors: R
authors: Müller
authors: Institute of Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt, Theodor-Stern-Kai 7, Frankfurt am Main 60590, Germany.|German Center for Cardiovascular Research, Partner side Rhein-Main, Frankfurt am Main 60590, Germany.
authors: Tyler
authors: T
authors: Weirick
authors: Institute of Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt, Theodor-Stern-Kai 7, Frankfurt am Main 60590, Germany.|German Center for Cardiovascular Research, Partner side Rhein-Main, Frankfurt am Main 60590, Germany.
authors: David
authors: D
authors: John
authors: Institute of Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt, Theodor-Stern-Kai 7, Frankfurt am Main 60590, Germany.|German Center for Cardiovascular Research, Partner side Rhein-Main, Frankfurt am Main 60590, Germany.
authors: Giuseppe
authors: G
authors: Militello
authors: Laboratory for Functional and Medical Genomics, Berlin Institute for Medical Systems Biology, Lindenberger Weg 80, Berlin 13125, Germany.|German Center for Cardiovascular Research, Partner side Berlin, Berlin 13125, Germany.|Department of Biology, South University of Science and Technology of China, 1088 Xueyuan Rd, Nanshan District, Shenzhen, Guangdong 518055, China.
authors: Wei
authors: W
authors: Chen
authors: Institute of Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt, Theodor-Stern-Kai 7, Frankfurt am Main 60590, Germany.|German Center for Cardiovascular Research, Partner side Rhein-Main, Frankfurt am Main 60590, Germany.
authors: Stefanie
authors: S
authors: Dimmeler
authors: Institute of Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt, Theodor-Stern-Kai 7, Frankfurt am Main 60590, Germany.|German Center for Cardiovascular Research, Partner side Rhein-Main, Frankfurt am Main 60590, Germany.
authors: Shizuka
authors: S
authors: Uchida
mesh_terms: D000818:Animals; D030541:Databases, Genetic; D042783:Endothelial Cells / Q000166:cytology / Q000378:metabolism*; D006801:Humans; D020407:Internet; D051379:Mice; D018919:Neovascularization, Physiologic / Q000235:genetics*; D062085:RNA, Long Noncoding / Q000235:genetics* / Q000378:metabolism; D012333:RNA, Messenger / Q000235:genetics* / Q000378:metabolism; D017423:Sequence Analysis, RNA; D059467:Transcriptome; D015027:Zebrafish
chemical_list: D062085:RNA, Long Noncoding; D012333:RNA, Messenger