{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,6]],"date-time":"2025-11-06T19:54:03Z","timestamp":1762458843268},"reference-count":25,"publisher":"Oxford University Press (OUP)","issue":"24","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2172,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,12,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Next-generation sequencing technologies have led to the widespread use of -omic applications. As a result, there is now a pronounced bioinformatic bottleneck. The general model organism database (GMOD) tool kit (http:\/\/gmod.org) has produced a number of resources aimed at addressing this issue. It lacks, however, a robust online solution that can deploy heterogeneous data and software within a Web content management system (CMS).<\/jats:p>\n               <jats:p>Results: We present a bioinformatic framework for the Drupal CMS. It consists of three modules. First, GMOD-DBSF is an application programming interface module for the Drupal CMS that simplifies the programming of bioinformatic Drupal modules. Second, the Drupal Bioinformatic Software Bench (biosoftware_bench) allows for a rapid and secure deployment of bioinformatic software. An innovative graphical user interface (GUI) guides both use and administration of the software, including the secure provision of pre-publication datasets. Third, we present genes4all_experiment, which exemplifies how our work supports the wider research community.<\/jats:p>\n               <jats:p>Conclusion: Given the infrastructure presented here, the Drupal CMS may become a powerful new tool set for bioinformaticians. The GMOD-DBSF base module is an expandable community resource that decreases development time of Drupal modules for bioinformatics. The biosoftware_bench module can already enhance biologists' ability to mine their own data. The genes4all_experiment module has already been responsible for archiving of more than 150 studies of RNAi from Lepidoptera, which were previously unpublished.<\/jats:p>\n               <jats:p>Availability and implementation: Implemented in PHP and Perl. Freely available under the GNU Public License 2 or later from http:\/\/gmod-dbsf.googlecode.com<\/jats:p>\n               <jats:p>Contact: \u00a0alexie@butterflybase.org<\/jats:p>","DOI":"10.1093\/bioinformatics\/btq599","type":"journal-article","created":{"date-parts":[[2010,10,24]],"date-time":"2010-10-24T00:13:41Z","timestamp":1287879221000},"page":"3119-3124","source":"Crossref","is-referenced-by-count":20,"title":["The GMOD Drupal Bioinformatic Server Framework"],"prefix":"10.1093","volume":"26","author":[{"given":"Alexie","family":"Papanicolaou","sequence":"first","affiliation":[{"name":"1 Centre for Conservation and Ecology, University of Exeter in Cornwall, Penryn TR10 9EZ, UK, 2Department of Entomology, Max Planck Institute for Chemical Ecology, Hans-Kn\u00f6ll Str 8, Jena D-07745, Germany and 3CSIRO Ecosystem Sciences, Black Mountain Laboratories, Clunies Ross St, Acton 2601, Australia"},{"name":"1 Centre for Conservation and Ecology, University of Exeter in Cornwall, Penryn TR10 9EZ, UK, 2Department of Entomology, Max Planck Institute for Chemical Ecology, Hans-Kn\u00f6ll Str 8, Jena D-07745, Germany and 3CSIRO Ecosystem Sciences, Black Mountain Laboratories, Clunies Ross St, Acton 2601, Australia"},{"name":"1 Centre for Conservation and Ecology, University of Exeter in Cornwall, Penryn TR10 9EZ, UK, 2Department of Entomology, Max Planck Institute for Chemical Ecology, Hans-Kn\u00f6ll Str 8, Jena D-07745, Germany and 3CSIRO Ecosystem Sciences, Black Mountain Laboratories, Clunies Ross St, Acton 2601, Australia"}]},{"given":"David G.","family":"Heckel","sequence":"additional","affiliation":[{"name":"1 Centre for Conservation and Ecology, University of Exeter in Cornwall, Penryn TR10 9EZ, UK, 2Department of Entomology, Max Planck Institute for Chemical Ecology, Hans-Kn\u00f6ll Str 8, Jena D-07745, Germany and 3CSIRO Ecosystem Sciences, Black Mountain Laboratories, Clunies Ross St, Acton 2601, 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