Table 3 Recurrent copy number losses in chordoma cases by aCGH

Chordoma cases (#)

Cytogenetic location

Frequency

Candidate genes

4b, 5, 7b, 10b, 15a, 16

1pter-p33.2

0.60

RUNX3

4b, 5, 7b, 10b, 15a

1p22.3-p21.3

0.50

3, 4b, 5, 7b, 10b, 13, 14, 16

3p24.1-p14.2

0.80

RBM5, FHIT, PTPRG

4b, 5, 7b, 9, 14

3q11.2-q13.31

0.50

4b, 5, 7b, 9, 14

3q26.1-26.31

0.50

3, 5, 7b,10b, 13, 14, 15a

9pter-p21

0.70

CDKN2A

3, 5, 7b, 13, 15a

9q34.11-qter

0.50

TSC1

4b, 7b, 10b, 14, 15a

10q11.23-q24.2

0.50

PTEN

5, 7b, 10b, 14, 15a

19p13.3-p13.2

0.50

4b, 5, 9, 10b, 15a, 16

22q12.2-qter

0.60

CHEK2