Shima Dastgheib

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Protein kinases represent a large and diverse family of evolutionarily related proteins that are abnormally regulated in human cancers. Although genome sequencing studies have revealed thousands of variants in protein kinases, translating "big" genomic data into biological knowledge remains a challenge. Here, we describe an ontological framework for(More)
Crowd sourcing is an emerging paradigm to exploit the notion of human-computation for solving various computational problems, which cannot be accurately solved solely by the machine-based solutions. We use crowd sourcing for large-scale link management in the Semantic Web. More specifically, we develop Crowd Link, which utilizes crowd workers for(More)
Domain-specific ontologies have become integral components of numerous semantic- and knowledge-based applications. However, creating such ontologies and populating them with correct individuals is a difficult and time-consuming process. Recently, a vast amount of knowledge has become available as part of the Linking Open Data (LOD) project. In this paper,(More)
SPARQLing presents a graphical SPARQL query builder, which allows users of domain ontologies and RDF datasets formulate queries through visual inspection of classes and properties in the ontology or RDF schema. Our approach takes into account the users' preferences in viewing the elements of the interface. 1 Introduction Domain-specific ontologies and RDF(More)
Multiple sequence alignments (MSAs) are a fundamental analysis tool used throughout biology to investigate relationships between protein sequence, structure, function, evolutionary history, and patterns of disease-associated variants. However, their widespread application in systems biology research is currently hindered by the lack of user-friendly tools(More)