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Table 1 Test set of 20 transcripts that predicted time until BCR

From: Unbiased data mining identifies cell cycle transcripts that predict non-indolent Gleason score 7 prostate cancer

   

Cambridge (n = 111)

Stockholm (n = 92)

MSKCC (n = 140)

Transcript*

Chromosomal location

Fold changec

p value

RP cutoff d

p value

RP cutoff d

p value

RP cutoff d

TPX2

20q11.21

3.0

4.80E-05

< 6.96

5.40E-02

< 6.45

5.10E-07

< 6.38

BUB1

2q13

2.8

1.10E-02

< 6.26

9.10E-03

< 6.36

9.40E-07

< 6.27

CCNA2

4q27

2.5

1.00E-02

< 6.99

8.70E-03

< 7.16

6.70E-06

< 6.91

E2F2

1p36.12

1.9

2.90E-03

< 7.04

4.10E-02

< 6.62

1.40E-02

< 9.99

UBE2C

20q13.12

3.4

1.80E-03

< 7.52

5.80E-03

< 8.15

2.00E-06

< 6.62

NCAPG

4p15.31

2.7

2.70E-02

< 6.63

4.60E-03

< 6.77

5.50E-07

< 6.02

CDK1

10q21.2

2.1

3.70E-03

< 7.13

2.20E-03

< 7.13

1.40E-04

< 4.95

CDKN3

14q22.2

2.4

1.50E-02

< 6.83

4.50E-03

< 7.01

1.60E-07

< 5.12

DLGAP5

14q22.3

3.4

4.90E-03

< 6.61

1.90E-02

< 6.63

2.90E-06

< 5.45

MELK

9p13.2

3.3

2.40E-02

< 6.97

6.60E-04

< 6.45

3.50E-06

< 5.6

CCNB1

5q13.2

1.8

1.60E-02

< 7.05

3.00E-03

< 6.83

4.30E-04

< 6.98

TMEM206

1q32.3

1.3

2.90E-02

< 7.87

1.30E-02

< 7.22

2.50E-03

< 7.66

SHMT2

12q13.3

1.7

3.20E-02

< 10.4

3.50E-02

< 10.1

1.10E-03

< 8.57

ANKMY1 a

2q37.3

1.03

4.90E-02

< 7.77

2.20E-03

> 7.29

2.70E-03

< 8.11

SRD5A2

2p23.1

− 3.7

9.10E-03

> 7.11

1.70E-03

> 6.53

1.60E-07

> 7.05

CSRP1

1q32.1

−2.9

1.60E-02

> 12

2.30E-02

> 10.9

2.00E-05

> 9.55

NFIB

9p23-p22.3

− 1.1

7.30E-03

> 11.5

1.90E-02

> 11.15

1.80E-04

> 9.23

PGM5

9q21.11

−3.6

5.70E-03

> 8.59

9.30E-03

> 10.8

4.10E-07

> 7.97

CNN1

19p13.2

−3.1

1.40E-02

> 8.99

3.00E-02

> 8.72

2.40E-07

> 8.72

DES

2q35

−3.1

2.40E-02

> 9.53

4.70E-02

> 8.32

2.70E-05

> 8.99

MPDZ

9p23

−1.4

1.10E-02

> 8.22

1.10E-02

> 7.44

3.40E-03

> 8.43

ALDH1A2 b

15q21.3

− 3.2

3.30E-02

> 8.47

2.50E-02

> 7.55

6.40E-07

> 7.19

  1. *The 20 transcripts shown in bold text were altered in tumours compared to normal tissue, and predicted time until BCR in Cambridge (Ross-Adams et al., 2015), Stockholm (Ross-Adams et al., 2015), and MSKCC (Taylor et al., 2010) datasets
  2. aANKMY1 was excluded since results were discordant between the datasets
  3. bALDH1A2 was excluded since results were discordant between cBioPortal and camcAPP portals
  4. c total of all isoforms in tumour compared with normal (TCGA-PRAD)
  5. d expression level cutoff for longer time to BCR, determined by recursive partitioning (RP) (Hothorn et al., 2006)
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BMC Urology

ISSN: 1471-2490

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