AIMC Topic: Evolution, Molecular
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Supervised machine learning reveals introgressed loci in the genomes of Drosophila simulans and D. sechellia.
PLoS genetics
Apr 23, 2018
Hybridization and gene flow between species appears to be common. Even though it is clear that hybridization is widespread across all surveyed taxonomic groups, the magnitude and consequences of introgression are still largely unknown. Thus it is cru...
A machine learning based framework to identify and classify long terminal repeat retrotransposons.
PLoS computational biology
Apr 23, 2018
Transposable elements (TEs) are repetitive nucleotide sequences that make up a large portion of eukaryotic genomes. They can move and duplicate within a genome, increasing genome size and contributing to genetic diversity within and across species. A...
Interpretation of biological experiments changes with evolution of the Gene Ontology and its annotations.
Scientific reports
Mar 23, 2018
Gene Ontology (GO) enrichment analysis is ubiquitously used for interpreting high throughput molecular data and generating hypotheses about underlying biological phenomena of experiments. However, the two building blocks of this analysis - the ontolo...
Using Chou's general PseAAC to analyze the evolutionary relationship of receptor associated proteins (RAP) with various folding patterns of protein domains.
Journal of theoretical biology
Feb 22, 2018
The receptor-associated protein (RAP) is an inhibitor of endocytic receptors that belong to the lipoprotein receptor gene family. In this study, a computational approach was tried to find the evolutionarily related fold of the RAP proteins. Through t...
An Improved Binary Differential Evolution Algorithm for Feature Selection in Molecular Signatures.
Molecular informatics
Nov 6, 2017
The discovery of biomarkers from high-dimensional data is a very challenging task in cancer diagnoses. On the one hand, biomarker discovery is the so-called high-dimensional small-sample problem. On the other hand, these data are redundant and noisy....
iPHLoc-ES: Identification of bacteriophage protein locations using evolutionary and structural features.
Journal of theoretical biology
Sep 21, 2017
Bacteriophage proteins are viruses that can significantly impact on the functioning of bacteria and can be used in phage based therapy. The functioning of Bacteriophage in the host bacteria depends on its location in those host cells. It is very impo...
Artificial intelligence in peer review: How can evolutionary computation support journal editors?
PloS one
Sep 20, 2017
With the volume of manuscripts submitted for publication growing every year, the deficiencies of peer review (e.g. long review times) are becoming more apparent. Editorial strategies, sets of guidelines designed to speed up the process and reduce edi...
Bi-PSSM: Position specific scoring matrix based intelligent computational model for identification of mycobacterial membrane proteins.
Journal of theoretical biology
Sep 18, 2017
Mycobacterium is a pathogenic bacterium, which is a causative agent of tuberculosis (TB) and leprosy. These diseases are very crucial and become the cause of death of millions of people every year in the world. So, the characterize structure of membr...
Subcellular localization prediction of apoptosis proteins based on evolutionary information and support vector machine.
Artificial intelligence in medicine
May 24, 2017
OBJECTIVES: In this paper, a high-quality sequence encoding scheme is proposed for predicting subcellular location of apoptosis proteins.
Memory and betweenness preference in temporal networks induced from time series.
Scientific reports
Feb 3, 2017
We construct temporal networks from time series via unfolding the temporal information into an additional topological dimension of the networks. Thus, we are able to introduce memory entropy analysis to unravel the memory effect within the considered...
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