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Revision as of 22:12, 1 June 2011

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<A CLASS="image" HREF="http://molmovdb.org/molmovdb/morph"> <IMG SRC="./images/morph-icon.jpg" ALT="Morph Server"></A>

The <A CLASS="resource" HREF="http://molmovdb.org/molmovdb/morph">Morph Server</A> 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.
[ <A HREF="/papers/morphs-nar">citation 1</A> | <A HREF="/papers/molmovdb2">citation2</A> | <A HREf="/papers/subject/motions">related</A> ]

<A CLASS="image" HREF="http://bioinfo.mbb.yale.edu/ExpressYourself"> <IMG SRC="./images/express-logo.png" ALT="ExpressYourself"></A>

<A CLASS="resource" HREF="http://bioinfo.mbb.yale.edu/ExpressYourself">ExpressYourself</A> is an interactive platform for background correction, normalization, scoring, and quality assessment of raw microarray data.
[ <A HREf="/papers/expressyourself">citation</A> ]

<A CLASS="image" HREF="http://spine.nesg.org"> <IMG SRC="./images/spine-icon.jpg" ALT="SPINE"></A>

<A CLASS="resource" HREF="http://spine.nesg.org">SPINE</A> is our laboratory-information management system (LIMS) for the <A CLASS="resource" HREf="http://www.nesg.org">NorthEast Structural Genomics Consortium</A>. The online version is restricted to consortium users, but most of the code is freely available for download.

[ <A HREF="/papers/spine-nar">citation1</A> | <A HREF="/papers/spine2-nar">citation2</A> ]

<A CLASS="image" HREF="http://pseudogene.org"> <IMG SRC="./images/pseudogene.png" ALT="Pseudogenes"></A>

<a class="resource" href="http://pseudogene.org">Pseudogene.org</a> 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.

<A CLASS="image" HREF="http://tiling.gersteinlab.org/"> <IMG SRC="./images/tiling.png" ALT="Tiling"></A>

<a class="resource" href="http://tiling.gersteinlab.org/">Tiling</a> is under construction.

<A CLASS="image" HREF="http://networks.gersteinlab.org/genome/interactions/networks/"> <IMG SRC="./images/topnet.png" ALT="TopNet"></A>

<a class="resource" href="http://networks.gersteinlab.org/genome/interactions/networks/">TopNet</a> is an automated web tool designed to calculate topological parameters and compare different sub-networks for any given network.

<A CLASS="image" HREF="http://geometry.molmovdb.org">

<IMG SRC="./images/volume.png" ALT="Protein Geometry"></A>

A number of programs for calculating properties of protein and nucleic acid structures have been collected into a <A CLASS="resource" HREF="http://geometry.molmovdb.org">single distribution</A>. Included are a library of utility functions for dealing with structures, and a convenient interactive command-line interpreter. [ <A HREF="/papers/subject/volumes">related papers</A> ]

<A CLASS="image" HREF="http://bioinfo.mbb.yale.edu/expression/cluster"> <IMG SRC="./images/timeshift.png" ALT="Local Clustering"></A>

A new algorithm for <A CLASS="resource" HREF="http://bioinfo.mbb.yale.edu/expression/cluster">local clustering of expression data</A> to find timeshifted and/or inverted relationships is available as C source code. [ <A HREF="/papers/timeshift-jmb">citation</A> ]

<A CLASS="image" HREF="/papers/xml/"> <IMG SRC="./images/papers.png" ALT="Papers"></A>

The <A CLASS="resource" HREF="/papers">publication listings</A> on our site are automatically generated based on data from the NCBI and local annotations stored in XML format. The <A CLASS="resource" HREF="/papers/xml">code</A> which does this is freely available (some modification will be required for other sites).

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