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Table 2 Experimental Reproducibility

From: PPINGUIN: Peptide Profiling Guided Identification of Proteins improves quantitation of iTRAQ ratios

 

Ratio

MASCOT

X!Tandem/OpenMS

PPINGUIN

 

NZO_SD/SJL_SD

0.13

0.12

0.10

CV

NZO_HFD/SJL_SD

0.17

0.16

0.14

 

SJL_HFD/SJL_SD

0.18

0.17

0.15

 

NZO_SD/SJL_SD

0.19

0.17

0.14

StDev log2

NZO_HFD/SJL_SD

0.25

0.22

0.20

 

SJL_HFD/SJL_SD

0.24

0.24

0.21

  1. Experimental reproducibility using the analysis methods investigated (columns). For the 3 experimental ratios (NZO_SD/SJL_SD, NZO_HFD/SJL_SD and SJL_HFD/SJL_SD) the mean coefficient of variation (CV) and the mean standard deviation for log2 quantitation ratios (see Methods) of all proteins are stated.
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BMC Bioinformatics

ISSN: 1471-2105

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