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The Sanger Institute used SPAdes in their study of Chlamydia trachomatis

The Sanger Institute used SPAdes in the first large single cell study of clinical pathogens for Chlamydia trachomatis beingresponsible for sexually transmitted infections and the blinding disease trachoma, which affect hundreds of millions of people worldwide.The results obtained by the group of researchers led by Nicholas R. Thomson appeared in Genome Research on March 22, 2013.

http://genome.cshlp.org/content/early/2013/03/21/gr.150037.112