Results for "Gene"


  • NearHGT

    Horizontal gene transfer (HGT), the transfer of genetic material between organisms, is crucial for genetic innovation and the evolution of genome architecture. Existing HGT detection algorithms rely on a strong phylogenetic signal distinguishing the transferred sequence from ancestral (vertically...

    Tags: Bioinformatics, NearHGT, Horizontal, Gene, Transfer, Haifa

    610 days ago

  • GeneValidator - Identify problems with predicted genes

    GeneValidator helps in identifing problems with gene predictions and provide useful information extracted from analysing orthologs in BLAST databases. The results produced can be used by biocurators and researchers who need accurate gene predictions. If you would like to use GeneValidator on a f...

    Tags: Bioinformatics, Analysis, NGS, Gene, Prediction, GeneValidator, Genome

    545 days ago

  • Gene Finding and Predictions

    In this exercise, a previously annotated gene will be used to measure the accuracy of different gene finding approaches. GRAIL, GENSCAN, geneid, FGENESH, GenomeScan, GrailEXP and GENEWISE will be used to annotate the sequence. Both search by signal, content and homology (protein and cDNA seq...

    Tags: Bioinformatics, Analysis, NGS, Gene, Prediction, Finding, Genome

    545 days ago

  • Useful Bioinformatics Tools

    Collections of few handy tools for bioinformatician

    Tags: Bioinformatics, Analysis, NGS, Tools, Gene, Genome, Format

    542 days ago

  • Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm)

    Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm) is a microbial (bacterial and archaeal) gene finding program developed at Oak Ridge National Laboratory and the University of Tennessee. Key features of Prodigal include: Speed: Prodigal is an extremely fast gene r...

    Tags: Bioinformatics, Analysis, Gene, Prediction, Tool, Prodigal, Mathod

    420 days ago

  • DeCoSTAR - Detection of Co-evolution

    DeCoSTAR is a software which aims at reconstructing ancestral gene or genome organizations, in the form of sets of neighborhood relations -adjacencies- between pairs of ancestral genes or gene domains.Ancestral genes or domains are deduced from reconciled gene trees in a context of birth, speciat...

    Tags: Bioinformatics, DeCoSTAR, Detection, Co-evolution, Reconstruction, Ancestral, Gene, Genome

    314 days ago

  • OrthoGNC: A Software for Accurate Identification of Orthologs Based on Gene Neighborhood Conservation

    Orthology relations can be used to transfer annotations from one gene (or protein) to another. Hence, detecting orthology relations has become an important task in the post-genomic era. Various genomic events, such as duplication and horizontal gene transfer, can cause erroneous assignment of o...

    Tags: OrthoGNC, Software, Accurate, Identification, Orthologs, Gene, Neighborhood, Conservation

    100 days ago

  • PASA: Gene Structure Annotation and Analysis

    PASA, acronym for Program to Assemble Spliced Alignments, is a eukaryotic genome annotation tool that exploits spliced alignments of expressed transcript sequences to automatically model gene structures, and to maintain gene structure annotation consistent with the most recently available experim...

    Tags: PASA, Gene, Structure, Annotation, Analysis

    57 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

    46 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

    36 days ago