MIND

MIND 0.2 and 0.5

Membrane-protein Interaction Network Database

MIND contains the results of a binary split ubiquitin interaction screen of Arabidopsis thaliana membrane proteins and proteins curated as signaling proteins. This is the first membrane protein/signaling protein interaction network from any organism.

3/9/11: MIND 0.5 is based on the results from a large-scale interaction screen covering ~6.4 million pairs (3,700 proteins). The database contains ~17,000 potential interaction pairs that tested positive. Work is in progress to retest a significant portion of the putative interaction pairs. The next version of the database, MIND 1.0, will contain the data after this independent verification.

Disclaimer: While a smaller analysis - MIND 0.2 - has been carefully quality-controlled (see below), data in MIND 0.5 are not independently verified. This is work in progress and extensive quality control efforts are currently underway. We make these data available to the community prior to our planned analyses, and we do not consider this data release suitable for genome-wide analyses. This is outlined in detail in the Fort Lauderdale agreement. In brief, small scale analysis, e.g., the analysis of single interaction pairs is an expected use of the data which can be published on without any expectation of coordination. In contrast, large scale analyses of gene families, network analyses etc. is expected to be either coordinated with us in some manner or published after our initial paper has come out. More details on the reasoning for this and details are given in the Fort Lauderdale document.

In recognition of the extensive effort that underlies this interactome project, we ask that you appropriately acknowledge the use of any preliminary data. We offer the following example for acknowledgement: "These data were produced by the Frommer group at the Carnegie Institution for Science, Stanford and can be obtained from www.associomics.org". This recommendation is in accordance with the adopted guidelines by the genome sequencing community in a statement of principles for the distribution and use of large-scale sequencing data: Community Resource Projects and the resulting NHGRI policy statement. If you have any questions regarding the use of this data, please contact us at web address: associomics@stanford.edu. We request that you contact the PI, Wolf B. Frommer, before publishing analyses of the interactome on a larger scale.

We welcome collaborative interaction to provide the community with improved interactome data. If you are able to verify positive interactions independently, we would be grateful if you could provide us with the information. Also, please reference us if you successfully use the data. The database is NOT set up for bulk download intentionally; we will not provide access to the bulk data at this preliminary stage.

NOTE: We do NOT have the capacity to handle any requests for individual clones due to the large number of clones. We are in the process of making them available through ABRC.

MIND 0.2 (a.k.a. AMPv2). MIND 0.2 was a pilot screen with 445 Nub and 206 Cub clones, and a total of 362 interactions were found. More info here: http://www.frontiersin.org/plant_physiology/10.3389/fphys.2010.00024/abstract

Address questions to associomics@stanford.edu.

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