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Application development Benchmark Bioinformatics Biological networks BioPAX Collaborative research Cytoscape Data Analysis Database Data integration Data Market Platform Dendritic cells Experiment annotation Gene expression Gene regulation geographic information Immunology Knowledge Management Life Sciences Microarrays Ontologies Pathogen Host Interaction Pathways Reasoning Semantic Analysis Semantic Web Translational Research Triplestore User Interaction Visualization Web Science WikiCategories
- Biomedical knowledge bases and infrastructures (4)
- Biomedical ontologies and representation of Biological Pathways (3)
- Book chapters (1)
- EditedBy (6)
- Journal Papers (10)
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- Newsletters (1)
- Ontology based data analysis (2)
- Proceedings (7)
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Category Archives: Journal Papers
Gauging triple stores with actual biological data
Vladimir Mironov, Nirmala Seethappan, Ward Blondé, Erick Antezana, Andrea Splendiani and Martin Kuiper. Gauging triple stores with actual biological data. http://www.biomedcentral.com/1471-2105/13/S1/S3 Abstract Background: Semantic Web technologies have been developed to overcome the limitations of the current Web and conventional data … Continue reading
Knowledge sharing and collaboration in translational research, and the DC-THERA Directory
Andrea Splendiani, Michaela Gündel, Jonathan M Austyn, Duccio Cavalieri, Ciro Scognamiglio, Marco Brandizi. Knowledge sharing and collaboration in translational research, and the DC-THERA Directory. http://bib.oxfordjournals.org/content/early/2011/10/02/bib.bbr051.full.pdf Abstract Biomedical research relies increasingly on large collections of data sets and knowledge whose generation, … Continue reading
Biomedical Semantics in the Semantic Web
Andrea Splendiani, Albert Burger, Adrian Paschke, Paolo Romano, M. Scott Marshall. Biomedical Semamtics in the Semantic Web (commentary) http://www.jbiomedsem.com/content/2/S1/S1 Abstract The Semantic Web offers an ideal platform for representing and linking biomedical information, which is a prerequisite for the development … Continue reading
DC-ATLAS, a Systems Biology Resource to Dissect Receptor Specific Signal Transduction in Dendritic Cells
Duccio Cavalieri1, Damariz Rivero, Luca Beltrame, Sonja I. Buschow, Enrica Calura, Lisa Rizzetto, Sandra Gessani, Maria C. Gauzzi, Walter Reith, Andreas Baur, Roberto Bonaiuti, Marco Brandizi, Carlotta De Filippo, Ugo D’Oro, Sorin Draghici, Isabelle Dunand-Sauthier, Evelina Gatti, Francesca Granucci, Michaela … Continue reading
The BioPAX community standard for pathway data sharing
The BioPAX community standard for pathway data sharing Emek Demir, Michael P Cary, Suzanne Paley, Ken Fukuda, Christian Lemer, Imre Vastrik, Guanming Wu, Peter D’Eustachio, Carl Schaefer, Joanne Luciano, Frank Schacherer, Irma Martinez-Flores, Zhenjun Hu, Veronica Jimenez-Jacinto, Geeta Joshi-Tope, Kumaran … Continue reading
Semantic Web Application and Tools for Life Sciences, 2008 – Introduction
Albert Burger, Paolo Romano, Adrian Paschke, Andrea Splendiani Semantic Web Application and Tools for Life Sciences, 2008 – Introduction BMC Bioinformatics 2009, 10 (S10), S1
The Gene Regulation Ontology (GRO): Design Principles and Use Case
E. Beisswanger, V. Lee, Kim JJ, Rebholz-Schumann D, A. Splendiani, O. Dameron, Schulz S, U Hahn. The Gene Regulation Ontology (GRO): Design Principles and Use Cases Stud Health Technol Inform. 2008;136:9-14 Abstract The Gene Regulation Ontology (GRO) is designed as … Continue reading
RDFScape: Semantic Web meets Systems Biology
Splendiani A RDFScape: Semantic Web meets Systems Biology (selected In IMIA Yearbook of Medical Informatics) BMC Bioinformatics 2008 Apr 25, 9 (S4):S6 Abstract BACKGROUND The recent availability of high-throughput data in molecular biology has increased the need for a formal … Continue reading
The Genopolis Microarray Database
Splendiani A, Brandizi B, Even G, Beretta O, Pavelka N, Pelizzola M, Foti M, Mauri G, Ricciardi-Castagnoli P. The Genopolis Microarray Database BMC Bioinformatics 2007 Mar 8, 8(Suppl 1):S22 Abstract Background Gene expression databases are key resources for microarray data … Continue reading
A power law global error model for the identification of differentially expressed genes in microarray data
Pavelka N, Pelizzola M, Vizzardelli C, Capozzoli M, Splendiani A, Granucci F, Ricciardi-Castagnoli P. A power law global error model for the identification of differentially expressed genes in microarray data BMC Bioinformatics. 2004 Dec 17;5(1):203 Abstract Background High-density oligonucleotide microarray … Continue reading
