13 Result(s)

Article

Problems with the nested granularity of feature domains in bioinformatics: the eXtasy case

Data from biomedical domains often have an inherit hierarchical structure. As this structure is usually implicit, its existence can be overlooked by practitioners interested in constructing and evaluating pred...

Dusan Popovic, Alejandro Sifrim, Jesse Davis, Yves Moreau… in BMC Bioinformatics (2015)

Article

Predicting breast cancer using an expression values weighted clinical classifier

Clinical data, such as patient history, laboratory analysis, ultrasound parameters-which are the basis of day-to-day clinical decision support-are often used to guide the clinical management of cancer in the p...

Minta Thomas, Kris De Brabanter, Johan AK Suykens, Bart De Moor in BMC Bioinformatics (2014)

Article

New bandwidth selection criterion for Kernel PCA: Approach to dimensionality reduction and classification problems

DNA microarrays are potentially powerful technology for improving diagnostic classification, treatment selection, and prognostic assessment. The use of this technology to predict cancer outcome has a history o...

Minta Thomas, Kris De Brabanter, Bart De Moor in BMC Bioinformatics (2014)

Article

A bioinformatics e-dating story: computational prediction and prioritization of receptor-ligand pairs

Ernesto Iacucci, Léon-Charles Tranchevent, Dusan Popovic… in BMC Bioinformatics (2012)

Article

Predicting receptor-ligand pairs through kernel learning

Regulation of cellular events is, often, initiated via extracellular signaling. Extracellular signaling occurs when a circulating ligand interacts with one or more membrane-bound receptors. Identification of r...

Ernesto Iacucci, Fabian Ojeda, Bart De Moor, Yves Moreau in BMC Bioinformatics (2011)

Article

Candidate gene prioritization by network analysis of differential expression using machine learning approaches

Discovering novel disease genes is still challenging for diseases for which no prior knowledge - such as known disease genes or disease-related pathways - is available. Performing genetic studies frequently re...

Daniela Nitsch, Joana P Gonçalves, Fabian Ojeda, Bart de Moor… in BMC Bioinformatics (2010)

Article

L₂-norm multiple kernel learning and its application to biomedical data fusion

This paper introduces the notion of optimizing different norms in the dual problem of support vector machines with multiple kernels. The selection of norms yields different extensions of multiple kernel learni...

Shi Yu, Tillmann Falck, Anneleen Daemen, Leon-Charles Tranchevent… in BMC Bioinformatics (2010)

Article

Gene prioritization and clustering by multi-view text mining

Text mining has become a useful tool for biologists trying to understand the genetics of diseases. In particular, it can help identify the most interesting candidate genes for a disease for further experimenta...

Shi Yu, Leon-Charles Tranchevent, Bart De Moor, Yves Moreau in BMC Bioinformatics (2010)

Article

An experimental loop design for the detection of constitutional chromosomal aberrations by array CGH

Comparative genomic hybridization microarrays for the detection of constitutional chromosomal aberrations is the application of microarray technology coming fastest into routine clinical application. Through g...

Joke Allemeersch, Steven Van Vooren, Femke Hannes, Bart De Moor… in BMC Bioinformatics (2009)

Article

ModuleDigger: an itemset mining framework for the detection of cis-regulatory modules

The detection of cis-regulatory modules (CRMs) that mediate transcriptional responses in eukaryotes remains a key challenge in the postgenomic era. A CRM is characterized by a set of co-occurring transcription fa...

Hong Sun, Tijl De Bie, Valerie Storms, Qiang Fu, Thomas Dhollander… in BMC Bioinformatics (2009)

Article

More robust detection of motifs in coexpressed genes by using phylogenetic information

Several motif detection algorithms have been developed to discover overrepresented motifs in sets of coexpressed genes. However, in a noisy gene list, the number of genes containing the motif versus the number...

Pieter Monsieurs, Gert Thijs, Abeer A Fadda… in BMC Bioinformatics (2006)

Article

SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms

The development of algorithms to infer the structure of gene regulatory networks based on expression data is an important subject in bioinformatics research. Validation of these algorithms requires benchmark d...

Tim Van den Bulcke, Koenraad Van Leemput, Bart Naudts… in BMC Bioinformatics (2006)

Article

arrayCGHbase: an analysis platform for comparative genomic hybridization microarrays

The availability of the human genome sequence as well as the large number of physically accessible oligonucleotides, cDNA, and BAC clones across the entire genome has triggered and accelerated the use of sever...

Björn Menten, Filip Pattyn, Katleen De Preter, Piet Robbrecht… in BMC Bioinformatics (2005)