Blar i Institutt for biologi på tidsskrift "BMC Bioinformatics"

Viser treff 1-8 av 8

    • A mixture model approach to sample size estimation in two- sample comparative microarray experiments 

      Jørstad, Tommy Stokmo; Midelfart, Herman; Bones, Atle M. (Journal article; Peer reviewed, 2008)
      Background: Choosing the appropriate sample size is an important step in the design of a microarray experiment, and recently methods have been proposed that estimate sample sizes for control of the False Discovery Rate ...

    • BioGateway: A Semantic Systems Biology Tool for the Life Sciences 

      Antezana, Erick; Blondé, Ward; Egaña, Mikel; Rutherford, Alistair; Stevens, Robert; De baets, Bernard; Mironov, Vladimir; Kuiper, Martin (Journal article; Peer reviewed, 2009)
      Background: Life scientists need help in coping with the plethora of fast growing and scattered knowledge resources. Ideally, this knowledge should be integrated in a form that allows them to pose complex questions that ...

    • Finding gene regulatory network candidates using the gene expression knowledge base 

      Venkatesan, Aravind; Tripathi, Sushil; Sanz de Galdeano, Alejandro; Blondé, Ward; Lægreid, Astrid; Mironov, Vladimir; Kuiper, Martin (Journal article; Peer reviewed, 2014)
      Background: Network-based approaches for the analysis of large-scale genomics data have become well established. Biological networks provide a knowledge scaffold against which the patterns and dynamics of ?omics? data can ...

    • Flexible network reconstruction from relational databases with Cytoscape and CytoSQL 

      Laukens, K; Hollunder, J; Thanh, HD; De Jaeger, G; Kuiper, Martin; Witters, E; Verschoren, A; Van Leemput, K (Journal article; Peer reviewed, 2010)
      Background: Molecular interaction networks can be efficiently studied using network visualization software such as Cytoscape. The relevant nodes, edges and their attributes can be imported in Cytoscape in various file ...

    • A foundation for reference models for drug combinations with an application to Loewe’s reference model 

      De Mulder, Wim; Kuiper, Martin (Peer reviewed; Journal article, 2020)
      Background Treating patients with combinations of drugs that have synergistic effects has become widespread practice in the clinic. Drugs work synergistically when the observed effect of a drug combination is larger ...

    • Gauging triple stores with actual biological data 

      Mironov, Vladimir; Seethappan, Nirmala; Blondé, Ward; Antezana, Erick; Splendiani, Andrea; Kuiper, Martin (Journal article; Peer reviewed, 2012)
      Background: Semantic Web technologies have been developed to overcome the limitations of the current Web and conventional data integration solutions. The Semantic Web is expected to link all the data present on the Internet ...

    • OLSVis: an animated, interactive visual browser for bio-ontologies 

      Vercruysse, Steven; Venkatesan, Aravind; Kuiper, Martin (Journal article; Peer reviewed, 2012)
      Background: More than one million terms from biomedical ontologies and controlled vocabularies are available through the Ontology Lookup Service (OLS). Although OLS provides ample possibility for querying and browsing terms, ...

    • ONTO-ToolKit: enabling bio-ontology engineering via Galaxy 

      Antezana, Erick; Venkatesan, Aravind; Mungall, Chris; Mironov, Vladimir; Kuiper, Martin (Journal article; Peer reviewed, 2010)
      Background: The biosciences increasingly face the challenge of integrating a wide variety of available data, information and knowledge in order to gain an understanding of biological systems. Data integration is supported by ...