Services: Genes and genomes
Name of service | Tag | Related links* | Key collection | |
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Tree-based Consistency Objective Function for Alignment Evaluation (T-Coffee) |
A multiple sequence alignment package that can be used for DNA, RNA and protein sequences. It can be used to align sequences or to combine the output of other alignment methods (Clustal, Mafft, Probcons, Muscle...) into one unique alignment. |
bio.tools | ||
UTRdb / UTRSite |
Curated database of 5' and 3' untranslated sequences of eukaryotic mRNAs, with experimentally validated functional motifs and cross-links to interacting regulatory proteins. |
bio.tools | ||
V-pipe |
V-pipe is the bioinformatics pipeline that integrates various open-source software packages for assessing viral genetic diversity from next-generation sequencing (NGS) data derived from intra-host virus populations. V-pipe enables reliable and comparable viral pathogen genomics and epidemiological studies and facilitates clinical diagnostics of viruses. |
bio.tools | ||
VarAFT |
VarAFT is a software designed to annotate and filter Human NGS data. This system was developed within the RD-Connect project and was instrumental for the creation of the RD-Connect Genome-Phenome platform. As a stand-alone java system, it ensures full data protection, critical for clinical use. VarAFT provides experiments’ quality, annotates, and allows the filtration of VCF files. Data from multiple samples can be combined to address different Mendelian Inherited Disorders, Population Genetics or Cancers. It contains unique variant priorization features including OMIM, HPO, Gene Ontology, pathways and predictions from UMD-Predictor and Human Splicing Finder in addition to classical annotations from dbNSFP . It is used by many research and clinical laboratories worldwide. |
bio.tools | ||
Variant Ranker |
Performs ranking of variants in genomic datasets, integrating information from multiple sources to prioritize each variant by its deleteriousness, novelty and existing information. |
bio.tools | ||
Variant Validator |
Accurate validation, mapping and formatting of sequence variant descriptions |
bio.tools | ||
ViralZone |
A resource for viral genes and families, providing detailed molecular and epidemiological information, along with virion and genome figures. Each virus or family page gives easy access to UniProtKB/Swiss-Prot viral protein entries. |
bio.toolsFAIRsharing | ||
Weeder |
A software package for the automatic discovery of enriched motifs in a set of related DNA sequences, including ChIP-Seq peaks. |
bio.tools | ||
WheatIS |
WheatIS is a portal that enables data discovery through an international federation of distant informations systems about wheat genetics and genomics in the frame of the Wheat Initiative (www.wheatinitiative.org). The WheatIS portal allows a keyword-based discovery of any type of data. It currently gives a single entry point to data provided by twelve different worldwide institutes. |
bio.tools | ||
WikiPathways |
An open, collaborative platform dedicated to the curation of biological pathways |
bio.toolsFAIRsharingTeSS | ||
WiNGS |
Federated genomics data sharing platform allowing users to query genomic and phenotypic information. |
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Workflow Execution Service backend (WfExS-backend) |
Workflow Execution Service automating a number of steps, including:
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YEASTRACT |
Repository of regulatory associations between transcription factors and target genes in Saccharomyces cerevisiae. |
bio.toolsFAIRsharing |