integrativemodeling.org
IMP, the Integrative Modeling PlatformIMP Community site for the development of an Integrative Modeling Platform
http://www.integrativemodeling.org/
IMP Community site for the development of an Integrative Modeling Platform
http://www.integrativemodeling.org/
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IMP, the Integrative Modeling Platform | integrativemodeling.org Reviews
https://integrativemodeling.org
IMP Community site for the development of an Integrative Modeling Platform
integrativemodeling.org
About IMP
https://integrativemodeling.org/about.html
We formulate the hybrid approach to structure determination as an optimization problem, the solution of which requires three main components:. The representation of the assembly,. The scoring function and. The ensemble of solutions to the optimization problem embodies the most accurate structural characterization given the available information. See also the talks page. For various talks and other presentations about IMP.
Download
https://integrativemodeling.org/download.html
IMP 26.2 stable release. This release is recommended for beginners, and should be stable. (For the very latest features, use the development version. Please refer to the online documentation. You can also download the documentation. To build IMP from source code, please refer to the installation guide. Please check the SHA256SUM. The latest development version of the IMP source code is hosted at github. Note that this may not always work, but does include new functionality not in the stable release.
Documentation
https://integrativemodeling.org/doc.html
IMP 26.2 stable release. See also the talks page. For various talks and other presentations about IMP. For reference, documentation for old versions of IMP is archived.
News
https://integrativemodeling.org/news.html
May 25, 2016. The IMP 2.6.2 release. Contains minor bug and documentation fixes. Including support for Ubuntu 16.04 (Xenial Xerus). Apr 14, 2016. The IMP 2.6.1 release. Contains minor bug and documentation fixes. Mar 28, 2016. The IMP 2.6.0 release. Contains bug fixes and minor updates. Most notably we include most of the functionality of PMI2. This is an improved version of PMI that is faster than PMI1, more modular, and easier to use. See IMP: pmi. Jun 30, 2015. The IMP 2.5.0 release. Feb 27, 2015.
IMP nightly build results, 2016-08-26, develop 893552a923
https://integrativemodeling.org/nightly/results
Branch: release/2.0.1. Branch: release/2.3.0. Branch: release/2.3.1. Branch: release/2.4.0. Branch: release/2.5.0. Branch: release/2.6.0. Branch: release/2.6.1. Branch: release/2.6.2. Summary for build on 2016-08-26, develop 893552a923. To get an email when new results become available, subscribe to the IMP-build. Some of the IMP testcases failed. Today's manual contains 1 broken link. Today's reference guide contains 1 broken link. You can get IMP source code from github.
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Andrej Sali Lab
http://salilab.org/modpipe
Bull; Lab Members. Bull; Research Positions. Bull; Directions and Maps. Bull; Lab Pages. ModPipe is a completely automated software pipeline that can calculate protein structure models for a large number of sequences with almost no manual intervention. In the simplest case, it takes as input a sequence identifier and a configuration file and produces one or more comparative models for that sequence. Section of the documentation. Download ModPipe-2.2.0. Department of Pharmaceutical Chemistry.
Andrej Sali Lab
http://salilab.org/lab_members.html
Bull; Lab Members. Bull; Research Positions. Bull; Directions and Maps. Bull; Lab Pages. Structural modeling and analysis of pathogen-host complexes using integrative techniques. Biological SAXS (Small Angle X-ray Scattering) experiments. Integration of SAXS data into structural and homology modeling of proteins and their assemblies. My aim is to create a data-driven model of nucelocytoplasmic transport through the Nuclear Pore Complex, based on multiple sources of experimental data. Developing technique...
Andrej Sali Lab
http://salilab.org/mdt
Bull; Lab Members. Bull; Our Associations. Bull; Research Positions. Bull; Directions and Maps. Bull; Lab Pages. Section of the documentation. To be notified of new MDT releases, or to ask questions about the use of the software, please subscribe to the MDT-users mailing list. For 64-bit Fedora 21 Linux (requires Modeller. Mac users: install homebrew. Brew tap salilab/salilab; brew install mdt. Users (Linux or Mac): run ". Conda install -c salilab mdt. All packages are signed with this GPG key.
Andrej Sali Lab
http://salilab.org/our_associations.html
Bull; Lab Members. Bull; Research Positions. Bull; Directions and Maps. Bull; Lab Pages. Department of Bioengineering and Therapeutic Sciences. Department of Pharmaceutical Chemistry. Institute for Computational Health Sciences. University of California, San Francisco. National Center for Dynamic Interactome Research (NCDIR). Center for Structures of Membrane Proteins. New York Structural Genomix Research Consortium. Pharmacogenetics of Membrane Transporters. Center for Computational Proteomics Research.
Andrej Sali Lab
http://salilab.org/our_resources.html
Bull; Lab Members. Bull; Research Positions. Bull; Directions and Maps. Bull; Lab Pages. Database of sequence and structure alignments generated by different alignment methods. Integrated database for New York Structural Genomics Research Consortium. Integral membrane database for 34 genomes. Database of structurally defined ligand binding sites in PDB. Counts of membrane protein families represented in 34 genomes. Comprehensive database of annotated comparative protein structure models. Predicts peptide...
Structural Genomics @ CNAG/CRG [software]
http://sgt.cnag.cat/www/software
Structural Genomics @CNAG CRG. Software developed in our group. TADbit is a Python library that deals with 3C-based data to detect Topologically Associating Domains (TADs), model their 3D structure and analyze them. TADkit is a visualizer for 3D genomic data that helps researchers to easy annotate 3D models generated by TADbit. The TCAMS-TB dataset includes a series of GSK compounds and its predicted targets in. This effort is part of the Tropical Disease Initiative. Now hosted at the Capriotti Lab).
ModBase User Login
http://modbase.compbio.ucsf.edu/modbase-cgi/manage_datasets.cgi
University of California San Francisco. UCSF Benioff Children's Hospital San Francisco. ModBase: Database of Comparative Protein Structure Models. ModBase Datasets for User:modbase. Please address inquiries to:. MODBASE contains theoretically calculated models, not experimentally determined structures. The models may contain significant. Please select your login type:. Academic User (comprehensive mode). Public User (restricted access). About ModBase Dataset Management. Individual User: Results of ModWeb...
Sali Lab Web Server Login
https://modbase.compbio.ucsf.edu/scgi/server.cgi
SaliLab Web Server Account Management. Bull; Current User:Anonymous. Bull; Sali Lab Server Home. Sali Lab Web Server Login. Check if you want to log on permanently on this computer.
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IMP, the Integrative Modeling Platform
IMP, the Integrative Modeling Platform. Molecular modeling system, or via one of several web applications. IMP is open source software, mostly available under the terms of the GNU Lesser General Public License (LGPL). Some IMP modules are available under the GNU GPL. Get started with IMP by downloading it. And checking out the documentation. The IMP software is used as part of the National Center for Dynamic Interactome Research. The main page of each IMP module in the documentation.
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