GMOD Resources
- Home
- About
- Things a MOD would provide
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- Mailing Lists
- Bug Reports & Feature Requests
- The Software Matrix
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- The Developer's Guide
- Downloads
Demos
Links to Related Projects
- FlyBase
- MGI
- SGD
- WormBase
- TAIR Schemas
- Rat Genome Database
- BioCyc
- Bioperl
- BioJava
- BioXML
- Gene Ontology Software
- DAS
- The Genomics Unified Schema
- Manatee: Manual Annotation Tool Etc, Etc...
- Biocurator.org
- SGD Lite
GMOD is supported by a specific cooperative agreement from the USDA Agricultural Research Service, and by NIH grants co-funded from the National Human Genome Research Institute and the National Institute of General Medical Sciences.
To see the NEW GMOD page, go here.
This is the home page of the Generic Model Organism Project (GMOD), a joint effort by the model organism system databases WormBase, FlyBase, MGI, SGD, Gramene, Rat Genome Database, EcoCyc, and TAIR to develop reusable components suitable for creating new community databases of biology.
Recent News
New GMOD website 2005-11-18 10:24
Read More »PuMA: a tool for enhanced PubMed search 2005-10-29 10:39
Read More »Please take the Gene Ontology survey 2005-10-27 18:48
Read More »pg_dump files for chado-0.003 2005-10-27 18:48
Read More »
Released GMOD Projects
To see the full list of GMOD projects, go here.
Interested in participating? See the project page for mailing lists, the CVS archive and the names of the developers. To become a gmod developer, just set up an account on SourceForge and drop a note to Scott Cain.
| Project | Description | Download | More Info |
|---|---|---|---|
| Genome Visualization and Annotation | |||
| FlashGViewer | A Flash-based whole genome viewer | V0.2 | FlashGViewer summary |
| GBrowse | Web-based feature browser | V1.62 | GBrowse Summary |
| Apollo | Java app for editing features | Apollo download page | Apollo Summary |
| SynBrowse | A synteny browser based on GBrowse | V0.83 | SynBrowse homepage |
| Pathway Tools | Microbial Genome Browser | biocyc.org | Pathway Tools Summary |
| blastGraphic | Simple web BLAST interface | v0.01 | blastGraphic summary |
| Restriction Graph Viewer | Simple restriction map viewer | V0.01 | RestGraph Summary |
| Caryoscope | Java app for viewing gene expression data | V0.03 | Caryoscope homepage |
| Data Management and Processing | |||
| Modular Schema (Chado) | The core of GMOD | gmod-0.003 | Schema Summary |
| Seqdb_engine | Tool for creating customized BLAST databases | V2.1.4 | Seqdb_engine Summary |
| Citrina | Tool for downloading and processing biological databases. | V0.5.1 | Citrina Summary |
| Genetic Mapping | |||
| CMap | Web based map viewer | V0.14 | CMap homepage |
| Gene Expression | |||
| Java TreeView | Java app for visualizing cluster data | V1.0.1 | TreeView summary |
| Pathway Tools | Pathway Tools Omics Viewer | biocyc.org | Pathway Tools Summary |
| Gene Expression Notebook | MS Excel workbook for managing expression data | GEN | GEN homepage |
| GeneXplorer | Web based viewer of clustered microarray data | 0.1 | GeneXplorer summary |
| Caryoscope | Java tools for viewing expression in genome context | 0.3.10 | Caryoscope summary |
| Metabolic pathway visualization and annotation | |||
| Pathway Tools | Tool for creating and managing genome pathway data | biocyc.org | Pathway Tools Summary |
| Web/Data Access | |||
| gmod-web/turnkey | A generic website for a MOD | Downloads page | turnkey homepage |
| BioMart | A query-oriented data integration system | Downloads page | BioMart Homepage |
| LuceGene | a document/object search and retrieval system | LuceGene distr. | LuceGene Summary |
| Utilities | |||
| org.bdgp Toolkit | Set of Java classes | V1.103 | org.bdgp Summary |
| Literature Curation | |||
| PubSearch | Web based literature curation tool | Release 0.68 | PubSearch Summary |
| PubFetch | Literature fetching tool | V0.02 | PubFetch Summary |
| Textpresso | An information retrieval and extraction system for biological literature | 1.0.0 | Textpresso Summary |
| Biological Ontologies | |||
| GO TermFinder | Perl modules for GO visualizaion | From CPAN | TermFinder summary |
| GOView | Web based tool for GO visualizaion | v0.01 | GOView summary |
| Standard Operating Procedures | |||
| LabDoc | POD based SOP manager | V3.01 | LabDoc Homepage |
Interested in participating? See the project page for mailing lists, the CVS archive and the names of the developers. To become a gmod developer, just set up an account on SourceForge and drop a note to Scott Cain.
