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Table 1 Expression phenotypes with the strongest agreement and evidence of linkage for the two normalization procedures

From: The genetics of gene expression: comparison of linkage scans using two phenotype normalization methods

    

Affymetrix

dChip

Genea

Locationb

Probe

Morley et al. p-value

LOD

p-value

Position (cM)

LOD

p-value

Position (cM)

CHI3L2

1p13.3

213060.s.at

10-10

11.6

<10-12

111.8

12.7

<10-13

111.9

ZP3

7q11.23

210910.at

<10-9

13

<10-14

75.6

9.9

<10-11

75.1

PSPH

7p15.2

205048.s.at

<10-10

6.1

<10-7

64.3

7.7

<10-8

64.3

UGT2B17

4q13

207245.at

---c

8.3

<10-9

62.3

9.6

<10-10

62.3

LRAP

5q15

219759.at

---

8.1

<10-9

99

7.6

<10-8

90.2

HLA-DQB1

6p21.3

209480.at

---

9

<10-10

36

12

<10-13

32.9

HLA-DPB1

6p21.3

201137.s.at

---

8.8

<10-10

31.6

8.7

<10-9

31.6

DDX17

22q13

208151.x.at

<10-9

5.9

<10-7

43.5

1.2

<10-2

43.2

IL16

15q26.3

209827.at

<10-9

---c

---

---

---

---

---

ALG6

1p31

219649.at

<10-9

---

---

---

---

---

---

ICAP-1A

2p25

-

<10-11

---

---

---

---

---

---

HOMER1

5q14.2

213793.at

<10-10

---

---

---

---

---

---

HSD17B12

11p11.2

217974.at

<10-10

---

---

---

---

---

---

TM7SF3

12q11-12

217869.at

<10-11

---

---

---

---

---

---

TNFRSF11A

18q22.1

207037.at

<10-9

---

---

---

---

---

---

CBR1

21q22.13

209213.at

<10-10

---

---

---

---

---

---

DSCR2

21q22.3

203405.at

<10-10

---

---

---

---

---

---

  1. a The first group of genes shows agreement between Morley et al. [2] and our findings. The second group represents our significant findings at the level of significance 10-8 or less but not in Morley's. The third group represents significance in Morley's findings and not ours. The fourth group shows findings in Morley that we did not examine (H2 < 0.6). The LOD represents the maximum LOD scores in the chromosome where the genes are located with its respective p-values and positions in cM.
  2. b Location was determined by the file HG-Focus_annot.csv.
  3. c --- indicates either the probes are not published by Morley et al. [2] or are not analyzed by us.