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Methodology
The modeling of genetic interactions within a cell is crucial for a basic understanding of physiology and for applied areas such as drug design. Interactions in gene regulatory networks (GRNs) include effects ...
BioData Mining 2017 10:29
Published on: 3 August 2017
Short Report
BarraCUDA is an open source C program which uses the BWA algorithm in parallel with nVidia CUDA to align short next generation DNA sequences against a reference genome. Recently its source code was optimised u...
BioData Mining 2017 10:28
Published on: 2 August 2017
Research
Non-coding RNA (ncRNA) are small non-coding sequences involved in gene expression regulation of many biological processes and diseases. The recent discovery of a large set of different ncRNAs with biologically...
BioData Mining 2017 10:27
Published on: 1 August 2017
Editorial
BioData Mining 2017 10:26
Published on: 29 July 2017
Research
The genetic etiology of human lipid quantitative traits is not fully elucidated, and interactions between variants may play a role. We performed a gene-centric interaction study for four different lipid traits...
BioData Mining 2017 10:25
Published on: 24 July 2017
Software article
Recently we surveyed the dark-proteome, i.e., regions of proteins never observed by experimental structure determination and inaccessible to homology modelling. Surprisingly, we found that most of the dark pro...
BioData Mining 2017 10:24
Published on: 20 July 2017
Software article
Refinement of candidate gene lists to select the most promising candidates for further experimental verification remains an essential step between high-throughput exploratory analysis and the discovery of spec...
BioData Mining 2017 10:22
Published on: 6 July 2017
Methodology
Identifying epistasis or epistatic interactions, which refer to nonlinear interaction effects of single nucleotide polymorphisms (SNPs), is essential to understand disease susceptibility and to detect genetic ...
BioData Mining 2017 10:23
Published on: 6 July 2017
Software Article
Feature selection methods aim at identifying a subset of features that improve the prediction performance of subsequent classification models and thereby also simplify their interpretability. Preceding studies...
BioData Mining 2017 10:21
Published on: 27 June 2017
Review
Modeling and predicting biological dynamic systems and simultaneously estimating the kinetic structural and functional parameters are extremely important in systems and computational biology. This is key for u...
BioData Mining 2017 10:20
Published on: 17 June 2017
Methodology
Large-scale genetic studies of common human diseases have focused almost exclusively on the independent main effects of single-nucleotide polymorphisms (SNPs) on disease susceptibility. These studies have had ...
BioData Mining 2017 10:19
Published on: 30 May 2017
Methodology
Genetic studies for complex diseases have predominantly discovered main effects at individual loci, but have not focused on genomic and environmental contexts important for a phenotype. Gene Set Enrichment Ana...
BioData Mining 2017 10:18
Published on: 26 May 2017
Short report
Every year around 300 Gl of vinasse, a by-product of ethanol distillation in sugarcane mills, are flushed into more than 9 Mha of sugarcane cropland in Brazil. This practice links fermentation waste management...
BioData Mining 2017 10:17
Published on: 23 May 2017
Research
Any family of learning machines can be combined into a single learning machine using various methods with myriad degrees of usefulness.
BioData Mining 2017 10:16
Published on: 19 May 2017
Methodology
Reverse engineering of gene regulatory networks (GRNs) from gene expression data is a classical challenge in systems biology. Thanks to high-throughput technologies, a massive amount of gene-expression data ha...
BioData Mining 2017 10:15
Published on: 6 May 2017
Research
Large number of features are extracted from protein crystallization trial images to improve the accuracy of classifiers for predicting the presence of crystals or phases of the crystallization process. The exc...
BioData Mining 2017 10:14
Published on: 27 April 2017
Methodology
A computational evolution system (CES) is a knowledge discovery engine that can identify subtle, synergistic relationships in large datasets. Pareto optimization allows CESs to balance accuracy with model comp...
BioData Mining 2017 10:13
Published on: 24 April 2017
Methodology
Discovering relevant features (biomarkers) that discriminate etiologies of a disease is useful to provide biomedical researchers with candidate targets for further laboratory experimentation while saving costs...
BioData Mining 2017 10:12
Published on: 15 March 2017
Software article
Databases are imperative for research in bioinformatics and computational biology. Current challenges in database design include data heterogeneity and context-dependent interconnections between data entities....
BioData Mining 2017 10:11
Published on: 11 March 2017
Methodology
In metabolomics, thousands of substances can be detected in a single assay. This capacity motivates the development of metabolomics testing, which is currently a very promising option for improving laboratory ...
BioData Mining 2017 10:10
Published on: 28 February 2017
Methodology
Genetic predispositions to diseases populate the noncoding regions of the human genome. Delineating their functional basis can inform on the mechanisms contributing to disease development. However, this remain...
BioData Mining 2017 10:9
Published on: 22 February 2017
Erratum
BioData Mining 2017 10:8
Published on: 14 February 2017
The original article was published in BioData Mining 2017 10:2
Methodology
Capturing complete medical knowledge is challenging-often due to incomplete patient Electronic Health Records (EHR), but also because of valuable, tacit medical knowledge hidden away in physicians’ experiences...
BioData Mining 2017 10:7
Published on: 10 February 2017
Research
Aldolase A (ALDOA) is one of the glycolytic enzymes primarily found in the developing embryo and adult muscle. Recently, a new role of ALDOA in several cancers has been proposed. However, the underlying mechan...
BioData Mining 2017 10:6
Published on: 7 February 2017
Methodology
In gene set analysis, the researchers are interested in determining the gene sets that are significantly correlated with an outcome, e.g. disease status or treatment. With the rapid development of high through...
BioData Mining 2017 10:5
Published on: 6 February 2017
