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10.1186/s13321-016-0144-4 http://scihub22266oqcxt.onion/10.1186/s13321-016-0144-4 C4893829!4893829 !27275187     free     free     free Deprecated: Implicit conversion from float 213.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 213.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Warning: imagejpeg(C:\Inetpub\vhosts\kidney.de\httpdocs\phplern\27275187 .jpg): Failed to open stream: No such file or directory in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 117       J+Cheminform 2016 ; 8 (ä): 31 Nephropedia Template TP {{tp|p=27275187 |t=2016. Advanced SPARQL querying in small molecule databases |pdf=|usr=}}{{27275187 }} gab.com Text Advanced SPARQL querying in small molecule databases JO: J Cheminform http://www.kidney.de/pget.php?&tw=1&pmid=27275187 #FOAvip BACKGROUND: In recent years, the Resource Description Framework (RDF) and the SPARQL query language have become more widely used in the area of cheminformatics and bioinformatics databases. These technologies allow better interoperability of various data sources and powerful searching facilities. However, we identified several deficiencies that make usage of such RDF databases restrictive or challenging for common users. RESULTS: We extended a SPARQL engine to be able to use special procedures inside SPARQL queries. This allows the user to work with data that cannot be simply precomputed and thus cannot be directly stored in the database. We designed an algorithm that checks a query against data ontology to identify possible user errors. This greatly improves query debugging. We also introduced an approach to visualize retrieved data in a user-friendly way, based on templates describing visualizations of resource classes. To integrate all of our approaches, we developed a simple web application. CONCLUSIONS: Our system was implemented successfully, and we demonstrated its usability on the ChEBI database transformed into RDF form. To demonstrate procedure call functions, we employed compound similarity searching based on OrChem. The application is publicly available at https://bioinfo.uochb.cas.cz/projects/chemRDF. Twit Text FOAVip Advanced SPARQL querying in small molecule databases ????J Cheminform http://www.kidney.de/pget.php?&tw=1&pmid=27275187 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=27275187 #FOAvip English Wikipedia <ref>{{Cite pmid|27275187 }}</ref> Advanced SPARQL querying in small molecule databases #MMPMID27275187 Galgonek J ; Hurt T ; Michlíková V ; Onderka P ; Schwarz J ; Vondrá?ek J J Cheminform 2016[]; 8 (ä): 31 PMID27275187 show ga BACKGROUND: In recent years, the Resource Description Framework (RDF) and the SPARQL query language have become more widely used in the area of cheminformatics and bioinformatics databases. These technologies allow better interoperability of various data sources and powerful searching facilities. However, we identified several deficiencies that make usage of such RDF databases restrictive or challenging for common users. RESULTS: We extended a SPARQL engine to be able to use special procedures inside SPARQL queries. This allows the user to work with data that cannot be simply precomputed and thus cannot be directly stored in the database. We designed an algorithm that checks a query against data ontology to identify possible user errors. This greatly improves query debugging. We also introduced an approach to visualize retrieved data in a user-friendly way, based on templates describing visualizations of resource classes. To integrate all of our approaches, we developed a simple web application. CONCLUSIONS: Our system was implemented successfully, and we demonstrated its usability on the ChEBI database transformed into RDF form. To demonstrate procedure call functions, we employed compound similarity searching based on OrChem. The application is publicly available at https://bioinfo.uochb.cas.cz/projects/chemRDF. äAdvanced SPARQL querying in small molecule databases (epmc).pdf DeepDyve Pubget Overpricing