Interactomics Database

NOTE: We do NOT have the capacity to handle any requests for individual clones due to the large number of clones. We will try to make them available through a stock center.

IMPORTANT NOTE: PLEASE READ -- do not just click below

You will find two databases from two split ubiquitin screens:

AMPv2: pilot screen with 445 Nub and 206 Cub clones -- total 362 interactions found
(Lalonde S, Sero A, Pratelli R, Pilot G, Chen J, Sardi MI, Parsa SA, Kim DY, Acharya BR, Stein EV, Hu HC, Villiers F, Takeda K, Yang Y, Han YS, Schwacke R, Chiang W, Kato N, LoquC) D, Assmann SA, Kwak JM, Schroeder JI, Rhee SY and Frommer WB (2010) A membrane protein / signaling protein interaction network for Arabidopsis version AMPv2. Frontiers in Plant Physiology.)

AMPv3: large-scale screen with 2288 Nub and 1421 Cub clones -- total 102,232 interactions found
(Lalonde & Frommer, unpublished)

Disclaimer: While AMPv2 has been carefully quality-controlled, AMPv3 is based on a 'quick and dirty' image analysis (500uM methionine) with arbitrarily set cut-offs. The aim of this analysis was to provide the community with potential leads for interactions for their favorite genes (absolutely no warranty). You can check the corresponding images in the database. The dataset will contain a large number of false positive and negative data; none of the interactions has been verified independently, nor have we checked whether known interactions are present in the database! Each gene should have been tested in duplicate, but there may be plates missing (e.g. due to contamination). We will update the database once we completed the careful image and statistical analysis for 0 and 500uM methionine, and we expect to add new data for AMPv4 in June/July.

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 since this is too preliminary.

We currently work on improving the image analysis and use statistical methods to obtain high quality data. We also perform another screen AMPv4 that will lead to a total coverage of 3800x2400 interaction pairs.

We have a small team and need to complete another 3.4 million interactions until late summer. So please limit questions to important ones. Address all questions to associomics@stanford.edu.