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Nature publication

Nature publication

July 2013

NPC scientists joined an international effort involving many renowned proteomics researchers and cell biologists to contribute to a contaminant repository for protein affinity purifications termed the CRAPome.

The CRAPome aims to create a compendium for all background contaminants derived from negative controls of AP-MS (affinity purification-MS) experiments based on various categories such as epitope tags, beads, cell lines or organisms and experimental protocols used in different labs. Although AP-MS is widely used for identifying protein-protein interactions, discriminating bona fide interactors from the background contaminants is often a daunting task.
In this work, the researchers show that, by aggregating negative controls from multiple AP-MS studies, they increase coverage and improve the characterization of background associated with a given AP-MS protocol.

The current version of the CRAPome comes with online toolkits, which compute scoring functions to guide research community in decision-making. All researchers are also encouraged to contribute their negative controls to the CRAPome so as to make it an even more comprehensive resource. The CRAPome is freely available at http://www.crapome.org/.

The associated article was published in Nature Methods 7th of July 2013 (http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.2557.html).

Defining the background in protein network analysis

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