BEReX is a new biomedical knowledge integration, search and exploration tool. BEReX integrates eight popular databases (STRING, DrugBank, KEGG, PhamGKB, BioGRID, GO, HPRD and MSigDB) and delineates an integrated network by combining the information available from these databases.
BioSynther is a web-based tool which is developed to explore the biosynthetic potentials of precursor chemicals using BKM-react, Rhea, and more than 50,000 in-house RxnFinder reactions manually curated from about 120 thousand literature.
ROCCET is a freely available web-based tool designed to assist clinicians and bench biologists in performing common ROC based analyses on their metabolomic data using both classical univariate and more recently developed multivariate approaches.
GPX (Gene Phylogeny eXplorer) is a web-based tool that facilitates comparative genome analysis of different species. GPX displays results as an interactive map that allows users to explore and interpret genomic data representing gene evolution. It allows the visualization of consensus and conflicting evolutionary histories of genes.
SME (Sigmoid Model Explorer) is a Graphical User Interface of the Sigmoid Project. It is a front end that provides access to the web services of the pathway databases and Cellerator, the module responsible for simulations. Some of SME’s features are:
Query and retrieval of Cellerator Models in Sigmoid Database via web service
Graphical view of Cellerator Models with customizable icons
Custom selection and editing of model parameters
Remote simulation of customized models in Cellerator via web service
The MAExplorer is a Java-based bioinformatics exploratory data-analysis and data-mining program for analyzing sets of quantitative spotted cDNA or oligonucleotide microarray data . It includes data management, graphics, statistics, clustering, reports, gene data-filtering, user written MAEPlugins, documentation, tutorials, demo data. The exploratory data analysis environment provides tools for the data-mining of quantitative expression profiles across multiple microarrays.
With MAExplorer, it is possible to: 1) analyze the expression of individual genes; 2) analyze the expression of gene families and clusters; 3) compare expression patterns and outliers; 4) directly access other genomic databases for genes of interest. Previously quantified array data is copied to your local computer where it is read by MAExplorer and intermediate results as well as the data mining session state may be saved between data mining sessions.
::DEVELOPER
Dr. Peter Lemkin (LECB/NCI-Frederick) with help from Gregory Thornwall (SAIC) and Jai Evans (DECA/CIT, NIH)
