 | BioSearch-2D | BioSearch-2D renders the contents of large biomedical document collections into a single, dynamic map. [more] | launch tool |
 | ClairLib | The Clair library is intended to simplify a number of generic tasks in Natural Language Processing (NLP), Information Retrieval (IR), and Network Analysis (NA). Its architecture also allows for external software to be plugged in with very little effort. | launch tool |
 | ConceptGen | ConceptGen is a tool to help biologists identify novel relationships among biologically-related groups of genes (concepts), useful for exploratory analysis and generation of novel hypotheses. [more] | launch tool |
 | ConceptSignature (ConSig) | Statistically narrows gene lists by significance. (Currently in development) | |
 | Gene2MeSH | Gene2MeSH is an automated annotation tool that associates Medical Subject Heading (MeSH) terms with genes using PubMed. [more] | launch tool |
 | GIN - Gene Interaction Network | GIN (Gene Interaction Network) discovers gene interactions based on full-text literature analysis. [more] | launch tool |
 | GIN-IE: Gene Interaction Extraction from the Literature | GIN-IE extracts molecule relationships and their types and directionality by using sentences and their syntactic and dependency parse tree structures. The extracted interactions are published as an RSS feed and included into the NCIBI data repository | |
 | GIN-NA: Gene Interaction Network Analysis | GIN-NA is a system for analysing disease-specific molecule interaction networks by ranking the molecules in the network based on graph centrality measures and second neighbor statistics. | |
 | MarkIt | Biomarker prediction using Topologically Constrained Bayesian Networks [more] | launch tool |
 | MEAD | MEAD is a publicly available toolkit for multi-lingual summarization and evaluation. [more] | launch tool |
 | Metab2MeSH | Metab2MeSH uses a statistical approach to reliably and automatically annotate metabolites with the concepts defined in MeSH, the National Library of Medicine controlled vocabulary for biomedical concepts. [more] | launch tool |
 | MetScape | A Cytoscape plugin for visualizing and analyzing metabolomic data [more] | launch tool |
 | Microarray Database | Microarray database collects microarray data from well known microarray gene expression warehouses and NCIBI collaborators | launch tool |
 | MiMI | Michigan Molecular Interactions (MiMI) allows users to easily explore an extensive database of protein interactions, pathways and genes. The data in MiMI comes from multiple external and internal data sources including DIP and BIND and NCIBIs NLP literature mining efforts. [more] | launch tool |
 | MiMI Plugin for Cytoscape | The Cytoscape MiMI Plugin is an open source interactive visualization tool that you can use for analyzing protein interactions and their biological effects. [more] | launch tool |
 | MiSearch | MiSearch is a literature search tool that works with NCBI Entrez to rapidly search PubMed citations and display them automatically in order of those most relevant to your research interests. [more] | launch tool |
 | PEBL | An open source environment for learning Bayesian network structures using observational and interventional data [more] | launch tool |
 | PMCOA Database | PubMed Central Open Access Database | |
 | PubAnatomy | Provides new ways to explore relationships among anatomical structures, pathophysiological processes, gene expression levels and protein-protein interactions in the context of Medline literature and experimental data. | launch tool |
 | PubMed Database | SQL database with all PubMed baseline and update records, sentence-segmented and named entity tagged for genes, proteins, and MeSH terms. Contains over 17 million citations from Medline and other life sciences journals. Updated nightly. | |
 | PubOnto | Provides multiple ontologies from the Open Biomedical Ontology to help researchers explore literature from different perspectives. | launch tool |
 | SAGA/TALE | SAGA (Substructure Index-based Approximate Graph Alignment) is a tool for querying a biological graph database to retrieve matches between subgraphs of molecular interactions that scientists select and biological networks. [more] | launch tool |
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