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Publications
From GMOD
Revision as of 16:09, 16 August 2012 by Girlwithglasses (Talk | contribs)
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. PMID:22559261[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]
- Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. [9]
- Choosing a genome browser for a Model Organism Database: surveying the Maize community. [10] PDF
- AphidBase: a centralized bioinformatic resource for annotation of the pea aphid genome. [11]
- Galaxy: a web-based genome analysis tool for experimentalists". [12]
- Next generation transcriptomes for next generation genomes using est2assembly. [13]
- Using the Generic Genome Browser (GBrowse). [14]
- BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum. [15]
- SNP@Evolution: a hierarchical database of positive selection on the human genome. [16] (GBrowse-related)
- TBrowse: an integrative genomics map of Mycobacterium tuberculosis. [17] (GBrowse-related)
- CMap 1.01: a comparative mapping application for the Internet. [18]
- Apollo: a community resource for genome annotation editing. [19]
- PopGenIE: The Populus Genome Integrative Explorer. [20]
- Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. [21]
- GMODWeb: a web framework for the Generic Model Organism Database. [22]
- FishMap: a community resource for zebrafish genomics. [23] (GBrowse-related)
- Using the Generic Genome Browser (GBrowse). [24]
- MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes. [25]
- SmedGD: the Schmidtea mediterranea genome database. [26]
- The Princeton Protein Orthology Database (P-POD): a comparative genomics analysis tool for biologists. [27]
- Analysis of expressed sequence tags of the cyclically parthenogenetic rotifer Brachionus plicatilis. [28]
- A Chado case study: an ontology-based modular schema for representing genome-associated biological information. [29]
- Celsius: a community resource for Affymetrix microarray data [30] PDF
- Genome-Wide Analysis of Nucleotide-Level Variation in Commonly Used Saccharomyces cerevisiae Strains. [31] (See YSB.)
- The development of BAC-end sequence-based microsatellite markers and placement in the physical and genetic maps of soybean. [32]
- AphidBase: a database for aphid genomic resources. [33]
- DroSpeGe: rapid access database for new Drosophila species genomes. [34] PDF
- T1DBase: integration and presentation of complex data for type 1 diabetes research. [35]
- Gbrowse Moby: a Web-based browser for BioMoby Services. [36]
- ParameciumDB: a community resource that integrates the Paramecium tetraurelia genome sequence with genetic data. [37] PDF
- Expanded protein information at SGD: new pages and proteome browser. [38]
- SwissRegulon: a database of genome-wide annotations of regulatory sites. [39]
- KISS: the kinetoplastid RNA editing sequence search tool. [40]
- BeetleBase: the model organism database for Tribolium castaneum. [41] PDF
- Xanthusbase: adapting wikipedia principles to a model organism database. [42]
- SynView: a GBrowse-compatible approach to visualizing comparative genome data. [43]
- OryGenesDB: a database for rice reverse genetics. [44]
- dictyBase, the model organism database for Dictyostelium discoideum. [45]
- Galaxy: a platform for interactive large-scale genome analysis. [46]
- SynBrowse: a synteny browser for comparative sequence analysis. [47] PDF
- FPC Web tools for rice, maize, and distribution. [48]
- 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. [49]
- wFleaBase: the Daphnia genome database. [50] PDF
- The Legume Information System (LIS): an integrated information resource for comparative legume biology. [51]
- Pseudomonas aeruginosa Genome Database and PseudoCAP: facilitating community-based, continually updated, genome annotation. [52]
- Development of an integrated genome informatics, data management and workflow infrastructure: a toolbox for the study of complex disease genetics. [53]
- Caryoscope: an Open Source Java application for viewing microarray data in a genomic context. [54]
- ATIDB: Arabidopsis thaliana insertion database. [55] PDF
- Apollo: a sequence annotation editor. [56] PDF
- The generic genome browser (GBrowse): a building block for a model organism system database. [57] PDF
Bibliography
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