AIMC Topic: Species Specificity

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Eliciting the Functional Taxonomy from protein annotations and taxa.

Scientific reports
The advances of omics technologies have triggered the production of an enormous volume of data coming from thousands of species. Meanwhile, joint international efforts like the Gene Ontology (GO) consortium have worked to provide functional informati...

The Disease Portals, disease-gene annotation and the RGD disease ontology at the Rat Genome Database.

Database : the journal of biological databases and curation
The Rat Genome Database (RGD;http://rgd.mcw.edu/) provides critical datasets and software tools to a diverse community of rat and non-rat researchers worldwide. To meet the needs of the many users whose research is disease oriented, RGD has created a...

EffectorP: predicting fungal effector proteins from secretomes using machine learning.

The New phytologist
Eukaryotic filamentous plant pathogens secrete effector proteins that modulate the host cell to facilitate infection. Computational effector candidate identification and subsequent functional characterization delivers valuable insights into plant-pat...

Computational classification of different wild-type zebrafish strains based on their variation in light-induced locomotor response.

Computers in biology and medicine
Zebrafish larvae display a rapid and characteristic swimming behaviour after abrupt light onset or offset. This light-induced locomotor response (LLR) has been widely used for behavioural research and drug screening. However, the locomotor responses ...

Rapid Identification and Classification of Listeria spp. and Serotype Assignment of Listeria monocytogenes Using Fourier Transform-Infrared Spectroscopy and Artificial Neural Network Analysis.

PloS one
The use of Fourier Transform-Infrared Spectroscopy (FT-IR) in conjunction with Artificial Neural Network software NeuroDeveloperâ„¢ was examined for the rapid identification and classification of Listeria species and serotyping of Listeria monocytogene...

Genome-Wide Detection and Analysis of Multifunctional Genes.

PLoS computational biology
Many genes can play a role in multiple biological processes or molecular functions. Identifying multifunctional genes at the genome-wide level and studying their properties can shed light upon the complexity of molecular events that underpin cellular...

Characterization and machine learning prediction of allele-specific DNA methylation.

Genomics
A large collection of Single Nucleotide Polymorphisms (SNPs) has been identified in the human genome. Currently, the epigenetic influences of SNPs on their neighboring CpG sites remain elusive. A growing body of evidence suggests that locus-specific ...

Artificial Neural Network applied as a methodology of mosquito species identification.

Acta tropica
There are about 200 species of mosquitoes (Culicidae) known to be vectors of pathogens that cause diseases in humans. Correct identification of mosquito species is an essential step in the development of effective control strategies for these disease...

DNA-binding protein prediction using plant specific support vector machines: validation and application of a new genome annotation tool.

Nucleic acids research
There are currently 151 plants with draft genomes available but levels of functional annotation for putative protein products are low. Therefore, accurate computational predictions are essential to annotate genomes in the first instance, and to provi...

A tool for developing an automatic insect identification system based on wing outlines.

Scientific reports
For some insect groups, wing outline is an important character for species identification. We have constructed a program as the integral part of an automated system to identify insects based on wing outlines (DAIIS). This program includes two main fu...