Expression Predictor (ExP)(http://www.niehs.nih.gov/research/resources/software/exp/index.cfm)is a desktop application developed with Java™ programming language for classifying and predicting samples based on gene expression data using a simplified fuzzy adaptive resonance theory map (SFAM) neural network architecture.
fdrMotif(http://www.niehs.nih.gov/research/resources/software/fdrMotif/index.cfm) determines the number of binding sites in each sequence of a probability model by performing statistical tests.
GA/KNN(http://www.niehs.nih.gov/research/resources/software/gaknn/index.cfm) selects the most discriminative variables for sample classification and may be used for analysis of microarray gene expression data, proteomic data or other high-dimensional data.
GADEM(http://www.niehs.nih.gov/research/resources/software/gadem/index.cfm) is an unbiased de novo motif discovery tool implementing an expectation-maximization (EM) algorithm.
Hybrid Design(http://www.niehs.nih.gov/research/resources/software/hybrid/index.cfm) provides information for fitting log-linear models and carrying out statistical tests.
Modk-Prototypes(http://www.niehs.nih.gov/research/resources/software/modk/index.cfm) clusters biological samples by simultaneously considering microarray gene expression data and classes of known phenotypic variables such as clinical chemistry evaluations and histopathologic observations.
mPopTag(http://www.niehs.nih.gov/research/resources/software/mpoptag/index.cfm) is a tool used to select or evaluate linkage disequilibrium tag SNPs for multiple populations.
Phase-shifted Analysis of Gene Expression (PAGE)(http://www.niehs.nih.gov/research/resources/software/page/index.cfm) is an interactive tool that uses a line graph to dynamically illustrate the phase-shifted patterns of gene expressions based on the q-Cluster selected by the users.
SA-Modk-Prototypes (http://www.niehs.nih.gov/research/resources/software/sa-modk/index.cfm) for simultaneous clustering of gene expression data with clinical chemistry and pathological evaluations using simulated annealing.
TAGster(http://www.niehs.nih.gov/research/resources/software/tagster/index.cfm) is a tool to select, evaluate and visualize LD tag SNPs for single or multiple populations.
TRIad Multi-Marker(http://www.niehs.nih.gov/research/resources/software/triad/index.cfm) performs association tests for a child's or mother's genetic effects using multiple markers from triad families.
Physical & Analytical Chemistry
Electron Spin Resonance Software Database(http://www.niehs.nih.gov/research/resources/software/esdb/index.cfm) is a compilation of details about programs written for Electron Paramagnetic Resonance spectroscopists.
NMR NOE Simulations(http://www.niehs.nih.gov/research/resources/software/nmrnoe/index.cfm) calculates the time dependence of the diagonal and crosspeaks in a 2D NOESY experiment for a system undergoing chemical exchange using the full relaxation matrix.