Useful Links

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BLAST Servers | Gene and Protein Analysis for Dicty | Bioinformatics Resources | Molecular Pathways | Protein Family Information | Other Model Organism Databases | Sequencing Center and Bioinformatics Institutes | Scientific Literature Resourcess | Services, Article Research and Delivery | Vendors, Commercial |

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BLAST Servers

• dictyBase BLAST server
• NCBI BLAST server
• UniProt BLAST server

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Resources for Dictyostelium Gene and Protein Analysis

• CBS Prediction Servers: Various prediction programs at the Center for Biological Sequence Analysis
• dictyExpress: Gene expression data visualization in Dictyostelium
• DictyOGlyc 1.1 Server: Predictions for GlcNAc O-glycosylation sites in Dictyostelium discoideum proteins
• The Eumycetozoan Project: Ecology, systematics and evolution of Myxomycetes, Dictyostelids and Protostelids
• Gene Path: A web-enabled intelligent assistant for the analysis of genetic data and for discovery of genetic networks
• Geneid Web Server: Gene prediction server that includes a Dictyostelium trained algorithm
• Kinase.com: The Dictyostelium Kinome
• NCBI's Dictyostelium Genome Resources
• NIH Model Organisms for Biomedical Research: Dictyostelium discoideum
• STKE Connections Map (Science) - STKE summary (dictyBase)
• Swiss-Prot: annotated Dictyostelium proteins
• WWW Virtual Library: Dictyostelium discoideum, a part of the WWW Virtual Library: Biosciences

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Bioinformatics Resources

• AmiGO: Web-based browser for The Gene Ontology
• Apollo: A Java-based application for annotating genomic sequences
• Bioinformatics.ca: Canadian Bioinformatics Resources
• BRENDA: The Comprehensive Enzyme Information System
• ExPASy: The Expert Protein Analysis System proteomics server of the Swiss Institute of Bioinformatics dedicated to the analysis of protein sequences and structures as well as 2-D PAGE
• International Society for Biocuration (ISB): Information and meetings relating to curation of biological data
• Chado: The GMOD database schema
• Gene Ontology (GO) Consortium: The GO project provides a controlled vocabulary to describe gene and gene product attributes in any organism
• GBrowse: The Generic Genome Browser: A combination of database and interactive web page for manipulating and displaying annotations on genomes
• GMOD: Generic software components for model organism databases
• KEGG: Links to Pathway and Other Databases
• InParanoid: Database of eukaryotic ortholog groups
• Open Biomedical Ontologies: Umbrella web address for well-structured controlled vocabularies for shared use across different biological and medical domains, includes the Dictyostelium anatomy ontology
• National Center for Biomedical Ontology: Advancing biomedicine with tools and methodologies for the structured organization of knowledge
• UniProt: Universal Protein Resource

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Molecular Pathways

• ExPASy Biochemical Pathways: Digitized version of the Roche Applied Science "Biochemical Pathways" wall chart
• Gene Path: A web-enabled intelligent assistant for the analysis of genetic data and for discovery of genetic networks
• KEGG: Kyoto Encyclopedia of Genes and Genomes pathway database
• MetaCyc: A database of nonredundant, experimentally elucidated metabolic pathways
• Reactome: A knowledgebase of biological processes
• Science's Signal Transduction Knowledge Environment (STKE): (free registration required)

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Protein Family Information

• CAZY: Carbohydrate-Active enZYmes
• ChromDB: The Plant Chromatin Database
• Cytochrome P450 Homepage
• GPCRDB: Information system for G protein-coupled receptors (GPCRs)
• Kinase.com: Global analysis of protein kinase genes in sequenced genomes
• Kinesins
• The Protein Kinase Resource
• Splicing Related Gene Database

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Other Model Organism Databases

• AgBase: Resource for functional analysis of agricultural plant and animal gene products
• Aspergillus genome resources
• Berkeley Drosophila Genome Project
• CGD: Candida Genome Database
• EcoCyc: Encyclopedia of Escherichia coli K-12 Genes and Metabolism
• Entamoeba histolytica Genome Project
• FlyBase: A database of the Drosophila genome
• Gramene: A resource for comparative grass genomics
• Pathogen Portal
• Human Genome: Summary on wikipedia | NIH National Human Genome Research Institute | ensembl Genome Browser for Human | Human Genome Project Information
• Neurospora genome resources
• MaizeGDB: Maize genetics and genomics database
• MGI: Mouse Genome Informatics
• PlasmoDB: The Plasmodium genome resource
• RGD: Rat Genome Database
• SGD: Saccharomyces Genome Database
• S. pombe: Schizosaccharomyces pombe GeneDB
• TAIR: The Arabidopsis Information Resource
• TGD: Tetrahymena Genome Database
• WormBase: The biology and genome of C. elegans and some related nematodes
• Xenbase: A Xenopus laevis and tropicalis web resource
• ZFIN: The Zebrafish Information Network
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Sequencing Center and Bioinformatics Institutes

• European Bioinformatics Institute
• European Molecular Biology Laboratory (EMBL) which also has an extensive ftp site
• J. Craig Venter Institute (formerly TIGR) Genome Projects
• Joint Genome Institute
• National Center for Biotechnology Information
• Washington University Genome Sequencing Center
• The Wellcome Trust Sanger Institute Sequencing Genomics Projects

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Scientific Literature Resources

• Agricola: Provides citations to agricultural literature
• Nature's genome gateway: A comprehensive web resource devoted to genomics
• PubMed: Provides access to MEDLINE citations back to the mid-1960's
• Science's Signal Transduction Knowledge Environment (STKE): (free registration required)

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Services, Article Research and Delivery

• BioMed Central
• CSIRO
• EBSCO Information services
• HighWire
• Infotrieve
• IngentaSelect
• Ovid
• Public Library of Science (PLoS)
• ProQuest
• ScienceDirect

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Vendors, Commercial

• Becton Dickinson
• Fisher Scientific
• Formedium
• New England Biolabs
• Roche
• Stratagene

These links are solely for the convenience of the user community and the list is not exhaustive or exclusive.

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Last updated: March 4, 2010