Tags: Bioinformatics, HGT, Genes, Horizontal, Transfer, Method, Tools, DarkHorse
2859 days ago
Tags: Bioinformatics, NearHGT, Horizontal, Gene, Transfer, Haifa
2859 days ago
Alien_Hunter : prediction of putative Horizontal Gene Transfer (HGT) events
Alien_hunter is an application for the prediction of putative Horizontal Gene Transfer (HGT) events with the implementation of Interpolated Variable Order Motifs (IVOMs). An IVOM approach exploits compositional biases using variable order motif distributions and captures more reliably the local ...Tags: prediction, putative, Horizontal, Gene, Transfer, HGT, events, Alien, Hunter, Alien_hunter
2294 days ago
HGT-Finder: A New Tool for Horizontal Gene Transfer Finding and Application to Aspergillus genomes
HGT-Finder: (i) can be used for HGT detection in both prokaryotes and eukaryotes, (ii) can report a statistical P value for each gene to indicate how likely it is to be horizontally transferred, and (iii) is fully automated (requires minimal human intervention), as well as very ea...Tags: HGT-Finder, Tool, Horizontal, Gene, Transfer, Finding, Application, Aspergillus, genomes
2285 days ago
alienness : Rapid Detection of Candidate Horizontal Gene Transfers across the Tree of Life
Horizontal gene transfer (HGT) is the transmission of genes between organisms by other means than parental to offspring inheritance. While it is prevalent in prokaryotes, HGT is less frequent in eukaryotes and particularly in Metazoa. Here, we propose Alienness, a taxonomy-aware web application a...Tags: alienness, Rapid, Detection, Candidate, Horizontal, Gene, Transfers, Tree, Life
2231 days ago
Tags: GeneMates, R, package, Horizontal, Gene, Co-transfer, Bacteria, Associations, Population, Structure
1505 days ago
DarkHorse: a method for genome-wide prediction of horizontal gene transfer
A new approach to rapid, genome-wide identification and ranking of horizontal transfer candidate proteins is presented. The method is quantitative, reproducible, and computationally undemanding. It can be combined with genomic signature and/or phylogenetic tree-building procedures to improve accu...Tags: DarkHorse, method, genome-wide, prediction, horizontal, gene, transfer, HGT
2494 days ago
Tags: EuGI, novel, genomic, islands, facilitate, horizontal, gene, transfer, detection, eukaryotes, tools
2170 days ago
Tags: HGTector, automated, method, facilitating, genome-wide, discovery, putative, horizontal, gene, transfers
1916 days ago
ShadowCaster: a hybrid approach for the detection of horizontal gene transfer events in prokaryotes
ShadowCaster implements an evolutionary model to calculate Bayesian likelihoods for each ‘alien genes’ with an unusual sequence composition according to the host genome background to detect HGT events in prokaryotes. https://www.mdpi.com/2073-4425/11/7/756/htm https://shadowcaster.r...Tags: ShadowCaster, hybrid, approach, detection, horizontal, gene, transfer, prokaryotes, HGT
1376 days ago