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Table 3 GME results for the qRT-PCR validated transcripts

From: puma 3.0: improved uncertainty propagation methods for gene and transcript expression analysis

 

Comparisons

qRT-PCR

GME

m a x( P P L R,1− P P L R)

Consistency

11q13+ vs. 11q13-

ORAOV1-201

+

+

1.0000

Y

 

ORAOV1-202

+

+

0.9968

Y

 

NEO1-201

+

+

0.8961

Y

 

NEO1-202

+

+

0.9719

Y

ORAOV1-201 vs. 202

11q13+

+

+

0.9154

Y

 

11q13-

+

+

0.5782

Y

NEO1-201 vs. 202

11q13+

-

-

0.9999

Y

 

11q13-

-

-

1.0000

Y

  1. The expression changes between groups 11q13+ and 11q13- for each transcript, and between two transcripts of the same gene for each group, are examined. The results of qRT-PCR and GME are “+” or “-” for up- and down-regulation in the first comparison component, respectively. Column of max(PPLR,1-PPLR) gives the probability of differential expression. The concordances between qRT-PCR validation and GME results are given in the right-most column.
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BMC Bioinformatics

ISSN: 1471-2105

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