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Table 3 List of ROHs associated with TC

From: Runs of homozygosity and inbreeding in thyroid cancer

ROH

Chr.

Start – End (bp)a

Cases/controls

Chi2

P b

P c

iHS maxd

Fst max e

Fay and Wu’s Hf

Genesg

ROH1

2

167204846–167895993

6 / 15

8,87

0.002

1.44 × 10−4

3.50

0.50

−74.64

XIRP2

ROH2

3

121016843–121689105

10 / 0

6,70

0.009

9.43 × 10−6

2.76

0.50

−37.03

GSK3B, FSTL1, LRRC58, GPR156

ROH3

10

44969326–45928700

5 / 11

5,63

0.01

6.12 × 10−5

1.85

0.35

−57.08

ALOX5, OR13A1, ANUBL1, CTGLF1, MARCH8, OR6D1P, FAM21C, CTGLF10P

ROH4

6

69734043–70381283

2 / 7

5,42

0.01

0.007

2.58

0.27

−31.48

BAI3g

ROH5

9

73966521–74829925

2 / 7

5,42

0.01

1.60 × 10−12

2.05

0.44

−19.76

ALDH1A1, ZFAND5, TMC1

ROH6

1

217208583–218034929

7 / 0

4,67

0.03

0.08

2.17

0.41

−55.42

LYPLAL1, ZC3H11B

ROH7

2

26036646–26765583

7 / 0

4,67

0.03

0.18

2.42

0.61

−64.28

HADHA, HADHB, OTOF, RAB10, SELI, C2orf39, CIB4, FAM59B, PPIL1P1, GPR113, C2orf70

ROH8

2

75174688–76481471

7 / 0

4,67

0.03

0.03

2.78

0.57

−66.54

C2orf3, MRPL19, FAM176A,

ROH9

1

177243354–178385972

6 / 0

4,00

0.04

1.67 × 10−4

2.67

0.38

−56.96

ABL2, SOAT1, NPHS2, CEP350, FAM20B, TOR1AIP1, IFRG15, TOR3A, C1orf125, FAM163A, TDRD5, TOR1AIP2

ROH10

2

112182736–113192306

6 / 0

4,00

0.04

0.02

2.54

0.41

−24.47

SLC20A1, MERTK, ANAPC1, POLR1B, CHCHD5, ZC3H8, TMEM87B, FBLN7, TTL, ZC3H6, RGPD8,

ROH11

2

113858688–114678121

6 / 0

4,00

0.04

0.83

2.37

0.50

−48.23

ACTR3, RABL2A, SLC35F5, RPL23AP7, CBWD2, RP11-395 L14.12, FOXD4L1, WASH2P

ROH12

4

181001922–181547116

6/ 0

4,00

0.04

0.33

2.29

0.53

−36.74

NA

ROH13

4

182307562–182564832

6 / 0

4,00

0.04

0.35

2.09

0.30

−31.12

hCG_2025798

ROH14

4

183848547–184539543

6 / 0

4,00

0.04

1.00 × 10−8

2.09

0.65

−56.96

DCTD, CLDN22, WWC2, C4orf38, FAM92A3, CLDN24

ROH15

9

107008151–108187183

6 / 0

4,00

0.04

0.51

2.75

0.58

−46.35

FKTN, TAL2, SLC44A1, GARNL2P, TMEM38B, FSD1L, DEPDC1P2

ROH16

15

96502627–98965249

6 / 0

4,00

0.04

3.01 × 10−12

3.09

0.65

−110.70

IGF1R, MEF2A, HSP90B2P, SYNM, LINS1, TTC23, LRRC28, LYSMD4, ADAMTS17, C15orf51, LASS3, FAM169B, FLJ42289, PRKXP1

  1. aChromosomal positions derived from the National Center for Biotechnology Information (NCBI), build 36, hg18
  2. bSuggestive significance
  3. cSignificances for testing differences in homozygosity with H0 : μCases = μControls; H1 : μCases > μControls;
  4. dRepresents maximal absolute values for iHS, derived for CEU population ancestry from Haplotter, Phase II (http://haplotter.uchicago.edu/)
  5. eRepresents maximal values for Fst, derived for CEU population ancestry from Haplotter, Phase II
  6. fRepresents minimum values for Fay and Wu’s H, derived for CEU population ancestry from Haplotter, Phase II
  7. gin flanking region
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BMC Cancer

ISSN: 1471-2407

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