Biomedical text mining 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

BNNPT
Desktop

BNNPT Bagging Nearest-Neighbor Prediction Test

Detects independence between two random variables especially in non-linear…

Detects independence between two random variables especially in non-linear situations. BNNPT is based on a permutation test of the square error (SE) of bagging nearest neighbor estimator. It is able…

DIRECT
Dataset

DIRECT DNA-mutation Inventory to Refine and Enhance Cancer Treatment

Provides clinically relevant somatic mutations. DIRECT enables a genetically…

Provides clinically relevant somatic mutations. DIRECT enables a genetically informed approach to cancer medicine by providing clinicians access to tumor gene therapy-response information based on…

MINOTAUR
Web

MINOTAUR MINing Online Text-A User-friendly Resource

Allows extraction of information from UniProtKB and published literature, or…

Allows extraction of information from UniProtKB and published literature, or from users' own uploaded text. MINOTAUR aims to assist users who want to search specific types of information from…

METIS
Web

METIS Multiple Extraction Techniques for Informative Sentences

Builds protein reports from related entries in Swiss-Prot. METIS employs data…

Builds protein reports from related entries in Swiss-Prot. METIS employs data in the Swiss-Prot entries to find relevant literature, or to find search terms with which to seek this out. It reduces…

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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