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Difference between revisions of "Publications"
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* [http://orygenesdb.cirad.fr/ OryGenesDB]: a database for rice reverse genetics. <ref name=PMID:16381969/> | * [http://orygenesdb.cirad.fr/ OryGenesDB]: a database for rice reverse genetics. <ref name=PMID:16381969/> | ||
* [http://dictybase.org dictyBase], the model organism database for Dictyostelium discoideum. <ref name=PMID:16381903/> | * [http://dictybase.org dictyBase], the model organism database for Dictyostelium discoideum. <ref name=PMID:16381903/> | ||
+ | * [[Galaxy]]: a platform for interactive large-scale genome analysis. <ref name=PMID:16169926/> | ||
* [[SynBrowse]]: a [[Synteny|synteny]] browser for comparative sequence analysis. <ref name=PMID:15994196/> [[Media:3461.pdf|PDF]] | * [[SynBrowse]]: a [[Synteny|synteny]] browser for comparative sequence analysis. <ref name=PMID:15994196/> [[Media:3461.pdf|PDF]] | ||
* [http://www.genome.arizona.edu/ FPC Web tools] for rice, maize, and distribution. <ref name=PMID:15888684/> | * [http://www.genome.arizona.edu/ FPC Web tools] for rice, maize, and distribution. <ref name=PMID:15888684/> |
Revision as of 22:52, 12 July 2012
The following is a partial listing of publications/references describing GMOD components or databases and applications built using GMOD components. For a list of databases see GMOD Users.
An RSS feed is also available of new GMOD articles on PubMed.
Articles
Sorted by PubMed ID, highest (most recent) first.
- AlliumMap-a comparative genomics resource for cultivated Allium vegetables. [1]
- SalmonDB: a bioinformatics resource for Salmo salar and Oncorhynchus mykiss. [2]
- Tripal: a construction toolkit for online genome databases. [3]
- TparvaDB: a database to support Theileria parva vaccine development. [4]
- The GMOD Drupal bioinformatic server framework. [5]
- ParameciumDB in 2011: new tools and new data for functional and comparative genomics of the model ciliate Paramecium tetraurelia. [6]
- The Sol Genomics Network (solgenomics.net): growing tomatoes using Perl. [7]
- Using the Generic Synteny Browser (GBrowse_syn) [8]
- Choosing a genome browser for a Model Organism Database: surveying the Maize community. [9] PDF
- AphidBase: a centralized bioinformatic resource for annotation of the pea aphid genome. [10]
- Next generation transcriptomes for next generation genomes using est2assembly. [11]
- Using the Generic Genome Browser (GBrowse). [12]
- BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum. [13]
- SNP@Evolution: a hierarchical database of positive selection on the human genome. [14] (GBrowse-related)
- TBrowse: an integrative genomics map of Mycobacterium tuberculosis. [15] (GBrowse-related)
- CMap 1.01: a comparative mapping application for the Internet. [16]
- Apollo: a community resource for genome annotation editing. [17]
- PopGenIE: The Populus Genome Integrative Explorer. [18]
- Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. [19]
- GMODWeb: a web framework for the Generic Model Organism Database. [20]
- FishMap: a community resource for zebrafish genomics. [21] (GBrowse-related)
- Using the Generic Genome Browser (GBrowse). [22]
- MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes. [23]
- SmedGD: the Schmidtea mediterranea genome database. [24]
- The Princeton Protein Orthology Database (P-POD): a comparative genomics analysis tool for biologists. [25]
- Analysis of expressed sequence tags of the cyclically parthenogenetic rotifer Brachionus plicatilis. [26]
- A Chado case study: an ontology-based modular schema for representing genome-associated biological information. [27]
- Celsius: a community resource for Affymetrix microarray data [28] PDF
- Genome-Wide Analysis of Nucleotide-Level Variation in Commonly Used Saccharomyces cerevisiae Strains. [29] (See YSB.)
- The development of BAC-end sequence-based microsatellite markers and placement in the physical and genetic maps of soybean. [30]
- AphidBase: a database for aphid genomic resources. [31]
- DroSpeGe: rapid access database for new Drosophila species genomes. [32] PDF
- T1DBase: integration and presentation of complex data for type 1 diabetes research. [33]
- Gbrowse Moby: a Web-based browser for BioMoby Services. [34]
- ParameciumDB: a community resource that integrates the Paramecium tetraurelia genome sequence with genetic data. [35] PDF
- Expanded protein information at SGD: new pages and proteome browser. [36]
- SwissRegulon: a database of genome-wide annotations of regulatory sites. [37]
- KISS: the kinetoplastid RNA editing sequence search tool. [38]
- BeetleBase: the model organism database for Tribolium castaneum. [39] PDF
- Xanthusbase: adapting wikipedia principles to a model organism database. [40]
- SynView: a GBrowse-compatible approach to visualizing comparative genome data. [41]
- OryGenesDB: a database for rice reverse genetics. [42]
- dictyBase, the model organism database for Dictyostelium discoideum. [43]
- Galaxy: a platform for interactive large-scale genome analysis. [44]
- SynBrowse: a synteny browser for comparative sequence analysis. [45] PDF
- FPC Web tools for rice, maize, and distribution. [46]
- Comparing low coverage random shotgun sequence data from Brassica oleracea and Oryza sativa genome sequence for their ability to add to the annotation of Arabidopsis thaliana. [47]
- wFleaBase: the Daphnia genome database. [48] PDF
- The Legume Information System (LIS): an integrated information resource for comparative legume biology. [49]
- Pseudomonas aeruginosa Genome Database and PseudoCAP: facilitating community-based, continually updated, genome annotation. [50]
- Development of an integrated genome informatics, data management and workflow infrastructure: a toolbox for the study of complex disease genetics. [51]
- Caryoscope: an Open Source Java application for viewing microarray data in a genomic context. [52]
- ATIDB: Arabidopsis thaliana insertion database. [53] PDF
- Apollo: a sequence annotation editor. [54] PDF
- The generic genome browser (GBrowse): a building block for a model organism system database. [55] PDF
Bibliography
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Adding Citations
Enter them into the Articles section. References are ordered by PMID, most recent (highest) PMID first; please enter your reference in the appropriate place in the list.
Example:
<ref name=PMID:15752432/>