Tools

From GersteinInfo

Morph Server generates a plausible pathway between two conformations of a protein or nucleic acid structure. A large number of statistics and several high-quality movies are output.

ExpressYourself is an interactive platform for background correction, normalization, scoring, and quality assessment of raw microarray data.

SPINE is our laboratory-information management system (LIMS) for the NorthEast Structural Genomics Consortium. The online version is restricted to consortium users, but most of the code is freely available for download.

Pseudogene.org is a collection of resources related to our efforts to survey eukaryotic genomes for pseudogene sequences, "pseudo-fold" usage, amino-acid composition, and single-nucleotide polymorphisms (SNPs) to help elucidate the relationships between pseudogene families across several organisms.

Tiling is under construction.

TopNet is an automated web tool designed to calculate topological parameters and compare different sub-networks for any given network.

A number of programs for calculating properties of protein and nucleic acid structures have been collected into a single distribution. Included are a library of utility functions for dealing with structures, and a convenient interactive command-line interpreter.

A new algorithm for local clustering of expression data to find timeshifted and/or inverted relationships is available as C source code.