Biomedical text mining analysis software tools and databases

The scientific literature is the key distribution channel for novel findings and hypotheses from research. As the number of publications continuously grows, retrieving relevant scientific information and identifying connections between pieces of…

Text mining applications

Most recent bioinformatics tools

BioSearch
Web

BioSearch

Leverages semantic search and ontology-based query answering over a wide range…

Leverages semantic search and ontology-based query answering over a wide range of life science Linked Data, obtained from Bio2RDF. BioSearch can be applied to other application domains. It leverages…

SCGS
Dataset

SCGS SysCilia Gold Standard

Provides a list of verified ciliary genes, which can be used as a reference…

Provides a list of verified ciliary genes, which can be used as a reference dataset of cilia genes. SCGS facilitates determination of objective cut-off thresholds via receiver operator characteristic…

OnASSIs
Desktop

OnASSIs Ontology Annotation and Semantic SImilarity software

Permits annotation thank to ontology terms. OnASSIs is able to compute semantic…

Permits annotation thank to ontology terms. OnASSIs is able to compute semantic similarity measures based on the structure of the ontology between different annotated samples. It allows users to…

BioConda
Dataset

BioConda

Represents a channel for the conda package, more particularly for the…

Represents a channel for the conda package, more particularly for the bioinformatics softwares. BioConda is a build system that turns recipes into conda packages. It consists of a repository of…

Most popular analytical software and databases

PubMed
Dataset

PubMed

Comprises more than 24 million citations for biomedical literature from…

Comprises more than 24 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and…

SRADE
Desktop

SRADE Sequence Read Archive Data Extractor

A java based data extraction tool that is used to read and extract required…

A java based data extraction tool that is used to read and extract required data from files in tab delimited text format. SRADE was originally developed for the purpose to extract data from the…

tagtog
Web

tagtog

Helps in your workflow for text analysis and database curation. tagtog…

Helps in your workflow for text analysis and database curation. tagtog leverages manual user annotation in combination with automatic machine-learned annotation to provide accurate identification of…

eLabFTW
Desktop

eLabFTW

Represents an electronic lab notebook. ELabFTW offers different services to…

Represents an electronic lab notebook. ELabFTW offers different services to users. It allows to store content in common file formats (PDF, CSV, JSON, ZIP) and to secure its. Several templates are…

Curators for Text mining

  • Hélène Dauchel's avatar image
    Hélène Dauchel
    LITIS EA 4108 Computer science,…
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