U.S. Department of Energy Office of Science
Genomic Science Program
Systems Biology for Energy and Environment
External Resources
No endorsement is made or implied by inclusion here.
Computational Biology
- BACTER Institute: Bringing Advanced Computational Techniques to Environmental Research (BACTER)
- Bibliography on Computational Gene Recognition
- Bioinformatics World Wide: a community maintained website dedicated to Bioinformatics and Computational Biology
- BioMolecular Engineering Research Center and Molecular Biology Computer Research Resource
- Biopython Project: an international association of developers of Python tools for computational molecular biology
- Broad Institute: fulfulling the promise of genetics for medicine
- Computational Biochemistry Research Group
- Computational Biosciences: protein and DNA sequence analysis and annotation
- Genome Sciences Department: Lawrence Berkeley National Laboratory
- Genomic Science Program from the U.S. Department of Energy: The next step at the Department of Energy to accelerate understanding of dynamic living systems
- International Society for Computational Biology: dedicated to advancing the scientific understanding of living systems through computation
- LAMMPS Molecular Dynamics Simulator
- Microbial Ecology, Proteogenomics & Computational Optima: DOE Genomes to Life Center at Harvard/MIT/BWH/MGH
- Stein Laboratory : develops software for computational biology and genome bioinformatics
- University of Minnesota Computational Biology and Bioinformatics
- University of Pennsylvania's Computational Biology and Informatics Lab
Links Updated 09-Mar-10
Biocomputing
- AceDB: genome database system
- BioBike: biology-specific programming language embedded in an integrated biological knowledge-base
- BioJAVA: open-source project dedicated to providing Java tools for processing biological data
- California Institute for Bioengineering, Biotechnology, and Quantitative Biomedical Research (aka QB3)
- Center for Biomolecular Science and Engineering at UC Santa Cruz
- Dynamite: code generating language developed for sequence comparison methods
- Genomic Science Program from the U.S. Department of Energy: The next step at the Department of Energy to accelerate understanding of dynamic living systems
- International Society for Computational Biology: dedicated to advancing the scientific understanding of living systems through computation
- Research Group in Practical Computer Science
- University of Minnesota Computational Biology and Bioinformatics
Links Updated 09-Mar-10
Bioinformatics
- 123Genomics: Genomics, Proteomics and Bioinformatics Knowledge Base
- 2000 DOE Microbial Genome Report
- 2can Bioinformatics Educational Resource
- Best of the Web Genome Databases
- Bibliography on Computational Gene Recognition
- Bielefeld University Bioinformatics Server
- BioBike: biology-specific programming language embedded in an integrated biological knowledge-base
- BioBrew Linux: open source Linux distribution that is enhanced for life scientists
- BioCatalog: software directory of general interest in molecular biology and genetics
- BioInform: news service focused on global bioinformatics community.
- Bioinformatic resources, University of Otago, Dunedin, New Zealand: includes Transterm (tools for translational control elements) and Mlogd (detects overlapping genes)
- Bioinformatics : full-text of selected papers in 'bioinformatics' or 'genomics' from Donald Forsdyke, Queen's University, Canada
- Bioinformatics Coordination Program
- Bioinformatics Directory from Google
- Bioinformatics Journal
- Bioinformatics Law Resources: Starting Points for Finding Bioinformatics Law Resources on the Internet
- Bioinformatics Links
- Bioinformatics Perl Script Library
- BioInformatics Services: biotechnology consulting firm
- Bioinformatics World Wide: a community maintained website dedicated to Bioinformatics and Computational Biology
- Bioinformatics.org: The Open Lab: provides information on free tools being developed for bioinformatics research.
- Bioinformatik: software, tutorials, databases, literature, technologies, jobs, and resources.
- Bioknoppix: customized distribution of Knoppix Linux Live CD targeted for molecular biologists
- BioMolecular Engineering Research Center and Molecular Biology Computer Research Resource
- Bioperl Project: Perl tools for bioinformatics, genomics and life science research
- Biopython Project: an international association of developers of Python tools for computational molecular biology
- BioWarehouse: Database Integration for Bioinformatics
- BMC Bioinformatics Journal
- BRITE: database of binary relations for computation and graph comparisons
- Broad Institute: fulfulling the promise of genetics for medicine
- Brown Lab, Stanford University, California
- Brutlag Bioinformatics Group: located in the Biochemistry Department at Stanford University and affiliated with the Stanford Medical Informatics program
- California Institute for Bioengineering, Biotechnology, and Quantitative Biomedical Research (aka QB3)
- Canadian Bioinformatics Workshops
- Center for Biomolecular Science and Engineering at UC Santa Cruz
- Center for Molecular and Biomolecular Informatics
- Computational Biosciences: protein and DNA sequence analysis and annotation
- Computational Molecular Biology At NIH
- Database Services at EMBL: database searching with SRS
- Department of Genome Analysis, GBF
- DNA Data Bank of Japan
- DNALinux: Linux distribution with bioinformatics software pre-installed.
- EMBnet - European Molecular Biology Network
- European Bioinformatics Institute Services (EBI): center for research and services in bioinformatics
- GenBank -- National Center for Biotechnology Information
- Genetics from Google
- Genome Channel: Genome annotation and analysis
- Genome Sciences Department: Lawrence Berkeley National Laboratory
- Genome@home: users lend idle computer time to run calculations for research
- Genomic Science Program from the U.S. Department of Energy: The next step at the Department of Energy to accelerate understanding of dynamic living systems
- Genomics and Bioinformatics Center, Chinese Academy of Sciences
- Genomics Research and Bioinformatics
- Harvard Department of Molecular and Cellular Biology
- International Society for Computational Biology: dedicated to advancing the scientific understanding of living systems through computation
- KEGG: Kyoto Encyclopedia of Genes and Genomes
- Kolker Lab - Bioinformatics & High-throughput Analysis Lab
- Laboratory for Interdisciplinary Technologies in Bioinformatics (LITBIO): Portal site for bioinformatics
- LAMMPS Molecular Dynamics Simulator
- Molecular Biological Server: computer systems, databases and programs for molecular biology
- Molecular Station: Molecular biology protocols, bioinformatics
- Munich Information Center for Protein Sequences (Mips)
- National Center for Genome Resources
- NCBI Education: tutorials for NCBI's bioinformatics tools
- NIH Center for Molecular Modeling: 3-D structure and physiochemical properties
- NIH Funded Grants and Grant History
- O'Reilly Science Center: books
- PRINTS A compendium of protein fingerprints
- Protein Information Resource: A Division of National Biomedical Research Foundation
- Protein Structure Group, Computational Biosciences: exploring protein threading, ab initio folding, and classification
- Protein Structure Initiative: Better Tools and Better Knowledge for Structural Genomics
- Proteomics Standards Initiative: Aims to define community standards for data representation in proteomics to facilitate data comparison, exchange, and verification.
- Research Abstracts from the DOE Genome Program Contractor-Grantee Workshop IX (2002)
- Research Group in Practical Computer Science
- Sanger Center: a genome research centre set up by the Wellcome Trust
- SignalP: predicts signal peptides cleavage sites in amino acid sequences
- SocBiN -- Society for Bioinformatics in the Nordic countries
- South African National Bioinformatics Institute
- Southwest Biotechnology and Informatics Center (SWBIC): links to biotechnology sites
- Stanford Genomic Resources
- Stein Laboratory : develops software for computational biology and genome bioinformatics
- Swiss Institute of Bioinformatics (SIB)
- SWISS-MODEL: Automated Comparative Protein Modelling Server
- TESS: Transcription Element Search System
- The SEED: an Annotation/Analysis Tool
- U.S. Department of Energy Microbial Genome Program
- U.S. Dept. of Energy Microbial Cell Project (Archive)
- University of Minnesota Computational Biology and Bioinformatics
- University of Pennsylvania Center for Bioinformatics
- University of Pennsylvania's Computational Biology and Informatics Lab
- University of Washington Genome Center
- VigyaanCD: electronic workbench for bioinformatics, computational biology and computational chemistry on live Linux CD
- Virginia Tech Bioinformatics Institute
- WEHI (Walter and Eliza Hall Institute of Medical Research) - Melbourne, Australia
- Weizmann Institute of Science: Genome Science and Bioinformatics
- Wellcome Trust
- XOL Ontology Exchange Language: XML-based for bioinformatics ontologies
- Zhang Lab: Computational Biology and Bioinformatics: Databases
Links Updated 09-Mar-10
