AIMC Topic: Computational Biology

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SFM: A novel sequence-based fusion method for disease genes identification and prioritization.

Journal of theoretical biology
The identification of disease genes from human genome is of great importance to improve diagnosis and treatment of disease. Several machine learning methods have been introduced to identify disease genes. However, these methods mostly differ in the p...

Sample Selection for Training Cascade Detectors.

PloS one
Automatic detection systems usually require large and representative training datasets in order to obtain good detection and false positive rates. Training datasets are such that the positive set has few samples and/or the negative set should represe...

Use of Semisupervised Clustering and Feature-Selection Techniques for Identification of Co-expressed Genes.

IEEE journal of biomedical and health informatics
Studying the patterns hidden in gene-expression data helps to understand the functionality of genes. In general, clustering techniques are widely used for the identification of natural partitionings from the gene expression data. In order to put cons...

IMG-ABC: A Knowledge Base To Fuel Discovery of Biosynthetic Gene Clusters and Novel Secondary Metabolites.

mBio
UNLABELLED: In the discovery of secondary metabolites, analysis of sequence data is a promising exploration path that remains largely underutilized due to the lack of computational platforms that enable such a systematic approach on a large scale. In...

Semi-supervised Learning for the BioNLP Gene Regulation Network.

BMC bioinformatics
BACKGROUND: The BioNLP Gene Regulation Task has attracted a diverse collection of submissions showcasing state-of-the-art systems. However, a principal challenge remains in obtaining a significant amount of recall. We argue that this is an important ...

Extracting biomedical events from pairs of text entities.

BMC bioinformatics
BACKGROUND: Huge amounts of electronic biomedical documents, such as molecular biology reports or genomic papers are generated daily. Nowadays, these documents are mainly available in the form of unstructured free texts, which require heavy processin...

The contribution of co-reference resolution to supervised relation detection between bacteria and biotopes entities.

BMC bioinformatics
BACKGROUND: The acquisition of knowledge about relations between bacteria and their locations (habitats and geographical locations) in short texts about bacteria, as defined in the BioNLP-ST 2013 Bacteria Biotope task, depends on the detection of co-...

Novel Online Dimensionality Reduction Method with Improved Topology Representing and Radial Basis Function Networks.

PloS one
This paper presents improvements to the conventional Topology Representing Network to build more appropriate topology relationships. Based on this improved Topology Representing Network, we propose a novel method for online dimensionality reduction t...

The application of fuzzy statistics and linear discriminant analysis as criteria for optimizing the preparation of plasma for matrix-assisted laser desorption/ionization mass spectrometry peptide profiling.

Clinica chimica acta; international journal of clinical chemistry
An alternative bioinformatics approach based on fuzzy theory statistics and linear discriminant analysis is proposed for the interpretation of MALDI MS spectra in peptide profiling. When applied, the methodology enables the establishment of a reprodu...