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  "Title": "Rank Product method for identifying differentially expressed\ngenes with application in meta-analysis",
  "Author": "Francesco Del Carratore\n<francesco.delcarratore@manchester.ac.uk>, Andris Jankevics\n<andris.jankevics@gmail.com> Fangxin Hong\n<fxhong@jimmy.harvard.edu>, Ben Wittner\n<Wittner.Ben@mgh.harvard.edu>, Rainer Breitling\n<rainer.breitling@manchester.ac.uk>, and Florian Battke\n<battke@informatik.uni-tuebingen.de>",
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