Tools
From GersteinInfo
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[http://molmovdb.org/molmovdb/morph 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. | [http://molmovdb.org/molmovdb/morph 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. | ||
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[http://bioinfo.mbb.yale.edu/ExpressYourself ExpressYourself] is an interactive platform for background correction, normalization, scoring, and quality assessment of raw microarray data. | [http://bioinfo.mbb.yale.edu/ExpressYourself ExpressYourself] is an interactive platform for background correction, normalization, scoring, and quality assessment of raw microarray data. | ||
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[http://spine.nesg.org SPINE] is our laboratory-information management system (LIMS) for the [http://www.nesg.org NorthEast Structural Genomics Consortium]. The online version is restricted to consortium users, but most of the code is freely available for download.<br> | [http://spine.nesg.org SPINE] is our laboratory-information management system (LIMS) for the [http://www.nesg.org NorthEast Structural Genomics Consortium]. The online version is restricted to consortium users, but most of the code is freely available for download.<br> | ||
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[http://pseudogene.org 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 | [http://pseudogene.org 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 | ||
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[http://networks.gersteinlab.org/genome/interactions/networks/ TopNet] is an automated web tool designed to calculate topological parameters and compare different sub-networks for any given network. | [http://networks.gersteinlab.org/genome/interactions/networks/ TopNet] is an automated web tool designed to calculate topological parameters and compare different sub-networks for any given network. | ||
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A number of programs for calculating properties of protein and nucleic | A number of programs for calculating properties of protein and nucleic | ||
acid structures have been collected into a [http://geometry.molmovdb.org single distribution]. Included are a library of utility functions for dealing | acid structures have been collected into a [http://geometry.molmovdb.org single distribution]. Included are a library of utility functions for dealing | ||
with structures, and a convenient interactive command-line interpreter. | with structures, and a convenient interactive command-line interpreter. | ||
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A new algorithm for [http://bioinfo.mbb.yale.edu/expression/cluster local clustering of expression data] to find timeshifted and/or inverted | A new algorithm for [http://bioinfo.mbb.yale.edu/expression/cluster local clustering of expression data] to find timeshifted and/or inverted | ||
relationships is available as C source code. | relationships is available as C source code. | ||
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Revision as of 02:29, 2 June 2011
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.
