Research
In classification, prior knowledge is incorporated in a Bayesian framework by assuming that the feature-label distribution belongs to an uncertainty class of feature-label distributions governed by a prior dis...
EURASIP Journal on Bioinformatics and Systems Biology 2016 2016:2
Published on: 20 January 2016
Research
The toxicity and efficacy of more than 30 anticancer agents present very high variations, depending on the dosing time. Therefore, the biologists studying the circadian rhythm require a very precise method for...
EURASIP Journal on Bioinformatics and Systems Biology 2016 2016:3
Published on: 20 January 2016
Research
The discrete coefficient of determination (CoD) measures the nonlinear interaction between discrete predictor and target variables and has had far-reaching applications in Genomic Signal Processing. Previous w...
EURASIP Journal on Bioinformatics and Systems Biology 2016 2016:1
Published on: 15 January 2016
Research
Leishmania devices its survival strategy by suppressing the host’s immune functions. The antigen molecules produced by Leishmania interferes with the host’s cell signaling cascades and co...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:13
Published on: 1 December 2015
Research
Study of signaling networks is important for a better understanding of cell behaviors e.g., growth, differentiation, metabolism, proptosis, and gaining deeper insights into the molecular mechanisms of complex ...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:12
Published on: 27 November 2015
Research
The evolution of biologic systems (BS) includes functional mechanisms that in some conditions may lead to the development of cancer. Using mathematical group theory and matrix analysis, previously, it was show...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:11
Published on: 18 November 2015
Research
Biological networks inherently have uncertain topologies. This arises from many factors. For instance, interactions between molecules may or may not take place under varying conditions. Genetic or epigenetic m...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:10
Published on: 11 November 2015
Research
Boolean networks are an important class of computational models for molecular interaction networks. Boolean canalization, a type of hierarchical clustering of the inputs of a Boolean function, has been extensi...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:9
Published on: 4 November 2015
Research
A recently proposed optimal Bayesian classification paradigm addresses optimal error rate analysis for small-sample discrimination, including optimal classifiers, optimal error estimators, and error estimation...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:8
Published on: 24 October 2015
Research
Network-based analyses are commonly used as powerful tools to interpret the findings of genome-wide association studies (GWAS) in a functional context. In particular, identification of disease-associated funct...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:7
Published on: 30 June 2015
Research
Soybean (Glycine max) is a major source of vegetable oil and protein for both animal and human consumption. The completion of soybean genome sequence led to a number of transcriptomic studies (RNA-seq), which pro...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:5
Published on: 20 June 2015
Research
Bayesian networks have become popular for modeling probabilistic relationships between entities. As their structure can also be given a causal interpretation about the studied system, they can be used to learn...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:6
Published on: 20 June 2015
Review
Biological network alignment aims to find regions of topological and functional (dis)similarities between molecular networks of different species. Then, network alignment can guide the transfer of biological k...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:3
Published on: 4 June 2015
Review
Recent findings have elucidated that the regulation of messenger RNA (mRNA) levels is due to the synergistic and antagonist actions of transcription factors (TFs) and microRNAs (miRNAs). Mutual interactions am...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:4
Published on: 4 June 2015
Research
This paper presents a fusion-based neural network (NN) classification algorithm for 40-Hz auditory steady state response (ASSR) ensemble averaged signals which were recorded from eight human subjects for obser...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:2
Published on: 5 February 2015
Research
Typically, a vast amount of experience and data is needed to successfully determine cancer prognosis in the face of (1) the inherent stochasticity of cell dynamics, (2) incomplete knowledge of healthy cell reg...
EURASIP Journal on Bioinformatics and Systems Biology 2015 2015:1
Published on: 27 January 2015
Research
Discovery and validation of protein biomarkers with high specificity is the main challenge of current proteomics studies. Different mass spectrometry models are used as shotgun tools for the discovery of bioma...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:17
Published on: 15 November 2014
Research
Accurate prediction of cancer prognosis based on gene expression data is generally difficult, and identifying robust prognostic markers for cancer remains a challenging problem. Recent studies have shown that ...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:19
Published on: 6 November 2014
Research
The waveforms of the pupillary light reflex (PLR) can be analyzed in a diagnostic test that allows for differentiation between disorders affecting photoreceptors and disorders affecting retinal ganglion cells,...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:18
Published on: 7 October 2014
Research
Convex bootstrap error estimation is a popular tool for classifier error estimation in gene expression studies. A basic question is how to determine the weight for the convex combination between the basic boot...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:15
Published on: 3 October 2014
Research
Drugs that target specific proteins are a major paradigm in cancer research. In this article, we extend a modeling framework for drug sensitivity prediction and combination therapy design based on drug perturb...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:14
Published on: 25 September 2014
Research
Challenging tasks are encountered in the field of bioinformatics. The choice of the genomic sequence’s mapping technique is one the most fastidious tasks. It shows that a judicious choice would serve in examin...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:16
Published on: 12 September 2014
Research
A grand challenge in the modeling of biological systems is the identification of key variables which can act as targets for intervention. Boolean networks are among the simplest of models, yet they have been s...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:11
Published on: 19 July 2014
Research
The Dialogue for Reverse Engineering Assessments and Methods (DREAM) project was initiated in 2006 as a community-wide effort for the development of network inference challenges for rigorous assessment of reve...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:12
Published on: 16 July 2014
Research
Restricted Boolean networks are simplified Boolean networks that are required for either negative or positive regulations between genes. Higa et al. (BMC Proc 5:S5, 2011) proposed a three-rule algorithm to inf...
EURASIP Journal on Bioinformatics and Systems Biology 2014 2014:10
Published on: 15 July 2014
