Table 4 Percentage of proteins identified as differentially quantified (p-value < 0.05 and FC >2 or <0.5) by a statistical beta-binomial analysis performed on normalized weighted spectral count values for each comparison of STC versus another protocol.

From: Extended investigation of tube-gel sample preparation: a versatile and simple choice for high throughput quantitative proteomics

Comparison of the Beta-Binomial Test

% of Proteins with p < 0.05 and FC > 2

% of Proteins with p < 0.05 and FC < 0.5

% of proteins differentially quantified with p < 0.05 and FC > 2 or < 0.5

STP vs STC

1

1

2

SGC vs STC

1

1

2

SGP vs STC

1

2

3

CTP vs STC

7

10

17

CUP vs STC

2

4

6

USC vs STC

4

5

9

USP vs STC

3

5

8

NAC vs STC

9

10

19

NAP vs STC

8

10

18

  1. Only proteins with at least 5 spectra over the 4 replicates were used.
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