Results of cis-trans test on putative cis eQTLs
|
#a |
GenBank accessionb |
Peak LOD scorec |
SNP positiond |
Array data ratio (B6/DBA)e |
Sequencing observed ratio (B6/DBA)f |
P-valueg |
CI95h |
|---|---|---|---|---|---|---|---|
| 1 | NM_010381 | 24.2 | 553 | 0.10 | <0.10 (4) | N/A | N/A |
| 2 | NM_026621 | 21.0 | 353 | 0.20 | <0.10 (4) | N/A | N/A |
| 3 | NM_130447 | 35.6 | 1834 | 0.30 | 0.67 ± .02 (6) | <10-4 | .59, .75 |
| 4 | NM_130447 | 35.6 | 1898 | 0.30 | 0.88 ± .01 (6) | 0.005 | .81, .94 |
| 5 | BC019407 | 36.7 | 879 | 0.30 | 0.19 ± .02 (3) | <10-4 | .14, .24 |
| 6 | NM_008514 | 28.2 | 1035 | 0.30 | 0.57 ± .03 (3) | 0.01 | .35, .76 |
| 7 | NM_008620 | 11.8 | 1557 | 0.30 | 0.49 ± .07 (4) | 0.007 | .25, .74 |
| 8 | AK017526 | 10.7 | 1087 | 0.35 | 0.28 ± .02 (4) | <10-4 | .14, .44 |
| 9 | NM_009252 | 9.2 | 282 | 0.37 | 0.72 ± .03 (4) | 0.03 | .49, .94 |
| 10 | BC023898 | 11.8 | 1299 | 0.40 | 0.17 ± .05 (4) | <10-4 | .06, .28 |
| 11 | NM_011424 | 11.5 | 652 | 0.40 | 1.10 ± .04 (4) | 0.35 | .72, 1.48 |
| 12 | NM_026981 | 31.4 | 164 | 0.40 | 0.76 ± .02 (3) | 0.01 | .63, .90 |
| 13 | NM_026981 | 31.4 | 173 | 0.40 | 0.75 ± .02 (3) | 0.008 | .66, .85 |
| 14 | AK003222 | 5.1 | 767 | 0.40 | 0.40 ± .01 (6) | <10-7 | .36, .43 |
| 15 | AK011491 | 16.5 | 716 | 0.40 | 0.95 ± .03 (7) | 0.39 | .85, 1.06 |
| 16 | AV119440 | 6.6 | 610 | 0.40 | 0.57 ± .05 (4) | 0.002 | .41, .71 |
| 17 | AK007567 | 7.5 | 147 | 0.44 | 0.44 ± .02 (4) | 0.002 | .25, .63 |
| 18 | NM_028333 | N/A | 646 | N/A | 0.98 ± .03 (4) | 0.53 | .82, 1.14 |
| 19 | AK011928 | 7.5 | 93 | 1.50 | 0.64 ± .02 (4) | <10-4 | .56, .71 |
| 20 | AK014150 | 13.1 | 1083 | 1.50 | 1.05 ± .02 (8) | 0.13 | .97, 1.15 |
| 21 | NM_008663 | 10.3 | 1430 | 2.31 | DBA absent | N/A | N/A |
| 22 | NM_027134 | 10.5 | 157 | 2.38 | 1.19 ± .06 (4) | 0.06 | .97, 1.37 |
| 23 | NM_025892 | 10.0 | 131 | 2.46 | 0.87 ± .03 (4) | 0.14 | .67, 1.08 |
| 24 | NM_009735 | 15.8 | 104 | 2.50 | 0.62 ± .01 (4) | <10-5 | .58, .65 |
| 25 | NM_031376 | 11.7 | 1898 | 2.60 | 1.00 ± .06 (3) | 0.97 | .51, 1.51 |
| 26 | AF168680 | 11.5 | 4100 | 2.60 | 2.37 ± .12 (4) | 0.001 | 1.94, 2.79 |
| 27 | AF168680 | 11.5 | 4102 | 2.60 | 2.37 ± .13 (4) | 0.003 | 1.90, 2.83 |
| 28 | AK018666 | 11.5 | 2980 | 2.60 | 2.62 ± .15 (4) | 0.001 | 2.12, 3.11 |
| 29 | NM_025938 | 21.9 | 972 | 2.70 | 0.87 ± .02 (3) | 0.47 | .72, 1.03 |
| 30 | NM_146126 | 13.2 | 1203 | 3.60 | 2.24 ± .09 (3) | 0.004 | 1.74, 2.75 |
| 31 | NM_009104 | 13.9 | 1604 | 3.90 | 2.14 ± .04 (3) | 0.003 | 1.83, 2.45 |
| 32
|
NM_053181
|
79.8
|
730
|
0.10
|
3.81 ± .08 (4)
|
<10-4
|
3.43, 4.20
|
-
Allele-specific transcription was assessed in (B6 × DBA)F1 mice.
-
↵a The numbers in the first column refer to those in Figure 2.
-
↵b GenBank accession number for each gene analyzed in column one.
-
↵c The peak cis LOD score for each gene observed in microarray analysis.
-
↵d `SNP position' refers to nucleotide number in the transcript.
-
↵e The results of the microarray experiment.
-
↵f The mean ratio of transcripts ± SE in F1 mice determined using classic cis-trans test. In column 6, the number of F1s used for each assay is given in parenthesis.
-
↵g Each cis-trans result was given a t-test against the null hypothesis that the mean equals 1.0, and the resulting P-value is listed.
-
↵h CI95 refers to the 95% confidence interval for each B6:DBA ratio.
