How does Thermo's Proteome Discovere do protein inference?

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Timo Sachsenberg

Hi Andy,

This paper from Oliver Serang mentions FidoCT as part of PD: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0091507

Though I am not sure if it is the default method in the current version - so better ask him personally.

Andrew Jones

Thanks Timo - I will drop him an email!

best wishes

Andy

Hao Zhang

Dear Andrew,

This is probably very late but have you figured out the way by which PD does protein inference and which score a PD user should pay attention to? If so, could you share the chapter you wrote? Thanks very much indeed!