Search Results for "semantic"

The Kinetic Simulation Algorithm Ontology (KiSAO; http://co.mbine.org/standards/kisao) is an ontology of algorithms for simulating and analyzing biological models, as well as the characteristics of these algorithms, their input parameters, and their outputs. In addition, KiSAO captures relationships among algorithms, their parameters, and their outputs. Development of KiSAO has moved to https://github.com/SED-ML/KiSAO/.

This is a Python-based efficient implementation of several semantic similarity measures. The target is to enable fast and easy calculation of similarity between proteins and genes using the Gene Ontology (GO).

A general OWL reasoning framework for the analysis of big biomedical data and implement a MapReduce-based property chain reasoning prototype system. OWL reasoning method is ideally suitable for problems involved complex semantic associations because it is able to infer logical consequences based on a set of asserted rules or axioms. MapReduce framework isused to solve the problem of scalability. In our experiment, we focus on the discovery of associations between Traditional Chinese Medicine (TCM) and Western Medicine (WM).

Identifiers.org is a system providing resolvable and persistent identifiers, in the form of URIs, used to identify data for the scientific community, with a current focus on the Life Sciences domain. The provision of resolvable identifiers (URLs) fits well with the Semantic Web vision, and the Linked Data initiative. The resolving services of Identifiers.org rely on the information stored in the MIRIAM Registry.

The registry supports WSDL 1.1 / 2.0 and BioMoby services. It also supports WADL for WSDL HTTP Bindings. It uses WSDL 2.0 / RDF mapping as an internal model and supports SPARQL 1.1 for querying.

SSWAP (Simple Semantic Web Architecture and Protocol; pronounced "swap") is an architecture, protocol, and platform that uses reasoning to semantically integrate disparate data and services on the web. Running live at http://sswap.info.

The BioNLP UIMA Component Repository provides UIMA wrappers for novel and well-known 3rd-party NLP tools used in biomedical text prosessing, such as tokenizers, parsers, named entity taggers, and tools for evaluation.

Framework for text mining, data integration and data analysis. Keywords: ontology and graph alignment, relation mining, warehouse, semantic database integration, bioinformatics, systems biology, microarray, Java.

SemaRule Navigator is an Integrated Suite of Open-Source and Free-License Software, placing Semantic and Text Analysis Technologies in the toolbox of Researchers, Students, and Enterprises.

BEAT: Bio-Ontology Enrichment and Alignment Toolkit is a software framework to handle persistence, alignment, queries, reasoning on ontologies. It is specifically targeted to the bio-ontology domain and to the Semantic Web. While Beat can already be used

A prototype of a system that uses Semantic Web techology and natural language processing to identify and present drug mechanism information that updates or expands upon statements present in drug package inserts.

Memomics Forge is a meta-project for software that utilizes the Memomics Semantic Service. Memomics Semantic Service provides semantic data which can be embedded in applications via webservices.

OpenDMAP (Open Source Direct Memory Access Parser) is a natural language processing (text mining) application: a semantic parser for information extraction.

go2Sim measures semantic similarity between genes annotated with Gene Ontology terms. Resnik and Wang methods supported. A new improvement of the methods is currently in development, it will be available as soon as the results have been published.

The Hanalyzer is a tool designed to help biologists explain results observed in genome-scale experiments and to generate new hypotheses. It combines information extraction, semantic data integration, reasoning, and visualization.

Mathematics, Chemistry and Bio-informatics semantic knowledge editor and simulation environment. It should serve as interactive science learning program or science classroom notebook and workshop.

S3DB - Simple Sloppy Semantic Database - is a PHP / mySQL,postgreSQL implementation of a local database infrastructure with a semantic architecture. The philosophy of its development is data driven.

Protege is a free, open-source platform that provides a suite of tools to construct domain models and knowledge-based applications with frame-based and Semantic Web ontologies.

** IMPORTANT NOTICE ** 10 Feb 2006 Code is being moved to the SMI subversion repository (http://smi-protege.stanford.edu/svn/owl/trunk/) Project will continue to be open source. ProtegeOWL info at: http://protege.stanford.edu/overview/protege-owl.html

eagle-i is an ontology-driven, RDF-based distributed platform for creating, storing and searching semantically rich data. eagle-i is built around semantic web technologies and adheres to linked open data principles.

Here we introduce a Genomic Epidemiology Ontology (GenEpiO) that covers vocabulary necessary to identify, document and research food-borne pathogens and associated outbreaks. We envision various subdomains including genomic laboratory testing, specimen and isolate metadata, and epidemiological case investigations. The project files are currently hosted at https://github.com/GenEpiO/genepio/ . Here we provide the genepio-consortium@lists.sourceforge.net listserve. Terms for these subdomains...

UIMA-compliant text analytics using a rule language in which to express context-sensitive constraints on syntactic and semantic text elements.

This is a survey system for collecting patients' information, in accordance with ontology and semantic web standard. Created by Nim Tri Hieu - HT081981J Under the open source project LimeSurvey.

BioLit infers and delivers metadata describing the semantic content of all open access, peer-reviewed research articles from the major life sciences literature archive, PubMed Central.

The JAQPOT3 web services are OpenTox API-1.2 compliant web services. JAQPOT3 is a web application that supports model training and data preprocessing algorithms such as MLR, SVM, ANN and more.