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. Author manuscript; available in PMC: 2012 Mar 4.
Published in final edited form as: J Proteome Res. 2011 Jan 25;10(3):1228–1237. doi: 10.1021/pr1010058

Table 1.

Number of peptides and proteins quantified by MaxQuant and UNiquant, respectively, in the triple SILAC dataset.

MaxQuant UNiquant
No. of peptides No. of proteins No. of peptides No. of proteins
4 hr Rep1 1131 581 4799 1637
4 hr Rep2 854 478 4396 1602
In common 436 319 2421 1225
48 hr Rep1 1177 567 2422 954
48 hr Rep2 1543 730 2523 909
In common 537 386 1237 671