http://wiki.thebiogrid.org/ 2013-06-18T16:45:02-04:00 http://wiki.thebiogrid.org/ http://wiki.thebiogrid.org/lib/tpl/biogrid3/images/favicon.ico text/html 2013-06-06T20:33:05-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/curation_guide:genetic_experimental_systems?rev=1370565185&do=diff For each interaction entered in the tool, an experimental system must be selected. The experimental systems include genetic analyses. The different types of genetic experimental systems are described in the table below. Genetic Interactions Type Description Dosage Growth Defect Overexpression/increased dosage of one gene causes a growth defect in a strain that is mutated/deleted for another gene (e.g. PMID: 15166139). Dosage Lethality Overexpression/increased dosage of one gen… text/html 2013-06-06T17:52:21-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/experimental_systems?rev=1370555541&do=diff BioGRID interactions are recorded as relationships between two proteins or genes (i.e. they are binary relationships) with an evidence code that supports the interaction and a publication reference. The term “interaction” includes, as well as direct physical binding of two proteins, co-existence in a stable complex and genetic interaction. It should not be assumed that the interaction reported in BioGRID is direct and physical in nature; the experimental system definitions below indicate the n… text/html 2013-06-02T23:56:07-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/biogridrest?rev=1370231767&do=diff Interaction data in BioGRID can be accessed via the BioGRID REST service. Interactions in various formats can be fetched from the BioGRID REST Service over HTTP, programmatically or in a browser, at <http://webservice.thebiogrid.org/interactions/>. You can access interactions using both POST and GET operations depending on your application requirements. text/html 2013-06-01T21:00:43-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/aboutus?rev=1370134843&do=diff The Biological General Repository for Interaction Datasets (BioGRID) is a public database that archives and disseminates genetic and protein interaction data from model organisms and humans (thebiogrid.org). BioGRID currently holds over 680,000 interactions curated from both high-throughput datasets and individual focused studies, as derived from over 40,000 publications in the primary literature. Complete coverage of the entire literature is maintained for budding yeast (S. cerevisiae), fission… text/html 2013-05-31T10:26:37-04:00 rose http://wiki.thebiogrid.org/doku.php/curation_guide:htp_ltp_interaction_tags?rev=1370010397&do=diff Once you have entered all of the necessary interaction information, select one of two interaction tags: 'High Throughput' or 'Low Throughput' to specify the type of experiment. The default is LTP unless the curator makes a call that a dataset is HTP. The HTP tag should be used for experiments involving over 100 interactions using a high-throughput method like affinity capture-MS, SGA, etc.. However, if a small set of interactions is clearly generated by a primary screen and not validated in any … text/html 2013-05-31T01:01:39-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/statistics?rev=1369976499&do=diff This page shows the latest snapshot of statistics for the BioGRID database. All previous snapshots are archived below separated by year. * Raw Interactions - Each unique combination of interactors A and B, experimental system and publication is counted as a single interaction. Reciprocal interactions (A → B and B → A) are counted twice. * Non-Redundant Interactions - Each unique combination of interactors A and B are counted as a single interaction, regardless of directionality, experime… text/html 2013-05-31T01:00:45-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/build_3.2.101?rev=1369976445&do=diff Organism Experiment Type Raw Interactions Non-Redundant Interactions Unique Proteins Unique Publications Anopheles gambiae PHYSICAL 2 1 2 2 GENETIC 0 0 0 0 COMBINED 2 1 2 2 Arabidopsis thaliana PHYSICAL 17120 14027 6044 1239 GENETIC 188 129 107 63 COMBINED 17308 14137 6083 1289 Aspergillus nidulans PHYSICAL 21 13 12 2 GENETIC 6 5 7 3 COMBINED 27 … text/html 2013-05-01T10:23:06-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/build_3.2.100?rev=1367418186&do=diff Organism Experiment Type Raw Interactions Non-Redundant Interactions Unique Proteins Unique Publications Anopheles gambiae PHYSICAL 2 1 2 2 GENETIC 0 0 0 0 COMBINED 2 1 2 2 Arabidopsis thaliana PHYSICAL 17104 14017 6039 1233 GENETIC 188 129 107 63 COMBINED 17292 14127 6078 1283 Aspergillus nidulans PHYSICAL 3 1 2 1 GENETIC 5 4 5 2 COMBINED 8 5 … text/html 2013-04-01T02:41:17-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/build_3.2.99?rev=1364798477&do=diff Organism Experiment Type Raw Interactions Non-Redundant Interactions Unique Proteins Unique Publications Anopheles gambiae PHYSICAL 2 1 2 2 GENETIC 0 0 0 0 COMBINED 2 1 2 2 Arabidopsis thaliana PHYSICAL 17038 13974 6032 1225 GENETIC 188 129 107 63 COMBINED 17226 14084 6071 1275 Aspergillus nidulans PHYSICAL 3 1 2 1 GENETIC 1 1 2 1 COMBINED 4 2 … text/html 2013-03-28T07:08:10-04:00 andreww http://wiki.thebiogrid.org/doku.php/biogridplugin2?rev=1364468890&do=diff BiogridPlugin2 is a plugin for the Cytoscape network visualization tool (<http://www.cytoscape.org>), designed to allow easy import of interactions from BioGRID data files. It is an update of the BiogridPlugin 0.2 release to allow import of data from our new tab2 file format. Additional features of BiogridPlugin2 include filtering of data during import based on gene lists and various interaction attributes, expanding of nodes and saving of networks in tab2 format. The plugin can be downloaded at… text/html 2013-02-08T23:32:49-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=projects%3Aorf.png&ns=projects&rev=1360384369&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/projects:orf.png?w=250&h=220t=1360384369" alt="projects:orf.png" /> text/html 2013-02-08T23:28:00-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=projects%3Auntitled-3.jpg&ns=projects&rev=1360384080&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/projects:untitled-3.jpg?w=500&h=356t=1360384080" alt="projects:untitled-3.jpg" /> text/html 2013-02-08T16:00:23-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=untitled-2.jpg&ns=&rev=1360357223&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/untitled-2.jpg?w=451&h=321t=1360357223" alt="untitled-2.jpg" /> text/html 2012-11-30T21:24:05-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=phosphorylation.jpg&ns=&rev=1354328645&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/phosphorylation.jpg?w=17&h=22t=1354328645" alt="phosphorylation.jpg" /> text/html 2012-03-05T18:33:42-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=universityofmontreal.jpg&ns=&rev=1330990422&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/universityofmontreal.jpg?w=125&h=60t=1330990422" alt="universityofmontreal.jpg" /> text/html 2012-03-05T18:21:59-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=xenbase.jpg&ns=&rev=1330989719&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/xenbase.jpg?w=125&h=60t=1330989719" alt="xenbase.jpg" /> text/html 2012-03-05T18:21:59-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=vectorbase.jpg&ns=&rev=1330989719&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/vectorbase.jpg?w=125&h=60t=1330989719" alt="vectorbase.jpg" /> text/html 2012-03-05T18:21:58-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=cgnc.jpg&ns=&rev=1330989718&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/cgnc.jpg?w=125&h=60t=1330989718" alt="cgnc.jpg" /> text/html 2012-03-05T18:21:58-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=mirbase.jpg&ns=&rev=1330989718&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/mirbase.jpg?w=125&h=60t=1330989718" alt="mirbase.jpg" /> text/html 2012-03-05T18:21:58-04:00 biogridadmin http://wiki.thebiogrid.org/doku.php/?image=maizegdb.jpg&ns=&rev=1330989718&tab_details=history&mediado=diff&do=media <img src="/lib/exe/fetch.php/maizegdb.jpg?w=125&h=60t=1330989718" alt="maizegdb.jpg" />