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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.
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BMC Proceedings

ISSN: 1753-6561

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