| Literature DB >> 22558002 |
P Kochunov1, D C Glahn, L E Hong, J Lancaster, J E Curran, M P Johnson, A M Winkler, H H Holcomb, J W Kent, B Mitchell, V Kochunov, R L Olvera, S A Cole, T D Dyer, E K Moses, H Goring, L Almasy, R Duggirala, J Blangero.
Abstract
BACKGROUND ANDEntities:
Keywords: DTI; P-selectin; aging; cerebral atrophy; gene expression; genetics; hypertension
Year: 2012 PMID: 22558002 PMCID: PMC3340599 DOI: 10.3389/fgene.2012.00065
Source DB: PubMed Journal: Front Genet ISSN: 1664-8021 Impact factor: 4.599
Thirteen measurements of gene transcriptions were available for 12 genes located on chromos 1q24 between markers rs137915045 and rs111909575.
| Target ID* | Accession number* | Gene ID** | Protein name | Location** | Length** | Heritability ( |
|---|---|---|---|---|---|---|
| GI_37595556-S | NM_001677.2 | Sodium/potassium-transporting ATPase subunit beta-1 | 169,075,947 | 26,014 | 0.315 (10−10) | |
| GI_37574613-A | NM_197972.1 | Nucleoside diphosphate kinase 7 | 169,101,769 | 235,418 | 0.231 (10−6) | |
| GI_37622354-S | NM_003666.2 | Basic leucine zipper nuclear factor 1 | 169,337,194 | 28,589 | 0.25 (10−10) | |
| GI_27734718-S | NM_006996.1 | Thiamine transporter 1 | 169,433,147 | 22,062 | 0.04 (10−3) | |
| GI_10518500-S | NM_000130.2 | Coagulation factor V | 169,481,192 | 74,578 | 0.35 (10−10) | |
| GI_6031196-S | NM_003005.2 | P-selectin | 169,558,087 | 41,291 | 0.34 (10−10) | |
| GI_5713320-S | NM_000655.2 | L-selectin | 169,659,806 | 21,038 | 0.27 (10−10) | |
| GI_15553096-S | NM_033418.1 | Histidine protein methyltransferase 1 homolog | 169,761,670 | 2362 | 0.44 (10−10) | |
| GI_40254930-S | NM_018186.2 | Uncharacterized protein C1orf112 | 169,764,550 | 57,680 | 0.20 (10−6) | |
| GI_27363466-A | NM_020423.4 | Protein-associating with the carboxyl-terminal domain of ezrin | 169,821,804 | 41,273 | 0.40 (10−10) | |
| GI_41281932-I | NM_181093.1 | Protein-associating with the carboxyl-terminal domain of ezrin | 169,821,804 | 41,273 | 0.12 (10−3) | |
| GI_18105053-S | NM_014970.2 | Kinesin-associated protein 3 | 169,890,470 | 153,410 | 0.32 (10−10) | |
| GI_22748638-S | NM_152281.1 | RAB6-interacting golgin | 170,501,263 | 21,712 | 0.25 (10−7) |
*Illumina ID. **According to GRCh37.p2 primary reference assembly.
Figure 1T1-w image processing pipelines. A T1-w image is skull-stripped, globally spatially normalized, and RF inhomogeneity corrected (A). Next, cerebral hemispheres and cerebellum and identified and tissue classified (B); cortical surfaces for GM and WM are calculated (C,D) and homotopic erosion operation and crevasse detector are used to reconstruct sulcal surface as the medial surface of the two opposing gyral banks (E). Sulcal identification pipeline uses a congregation of 500 artificial neural network-based pattern classifiers to identify (F) sulcal landmarks and to perform gyral segmentation of the cortex (G). GM thickness was calculate as the distance between the pial (C) and GM/WM interface surfaces (H). (I) Average GM thickness was calculated 14 primary cortical gyri.
Figure 2Skeletonized, average FA values are shown on the population average FA image. WM tract labels for nine major tracts are taken from the Johns Hopkins DTI WM atlas. The average FA values were calculated for the following tracts: corona radiata (CR), superior longitudinal fasciculus (SLF), cingulate, external capsule (EC), internal capsule (IC), fronto-occipital (FO), and the genu, body, and splenium of corpus callosum. The population-wise average FA values are color coded on the skeleton of the tract. The location of the axial slices (the Z-coordinate) is provided in the Talairach reference frame. The three segment of Corpus Callosum are shown on the mid-sagittal slice (Talairach X = 0).
Figure 3Genes located under the QTL flanked rs137915045 and rs111909575. Results (−log 10 of the p-value) of the correlation analysis for expression levels for the genes located under the linkage peak are plotted along the x-axis (bottom). The solid line corresponds to the significant evidence value of p = 4 × 10−3. The green line corresponds to the suggestive evidence value of p = 0.05.
Subjects’ demographic and health information including obesity (body mass index >30), the number of subjects with hypercholesterolemia (total cholesterol levels >200 mg/dL) and hyperlipidemia (blood lipids >150 mg/dL), the number of subjects diagnosed with coronary heart disorder, diabetes, hypertension, the number of subjects taking antihypertensive medications, the number of subjects with alcohol dependence (AD), and the number of subject with a lifetime major depression (MD) episode.
| Age | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| 28–30 | 19 (9/10) | 10 | 1 | 0 | 0 | 0 | 1 | 0 | 2 | 3 |
| 31–40 | 117 (56/61) | 32 | 8 | 3 | 0 | 3 | 18 | 3 | 8 | 18 |
| 41–50 | 92 (30/62) | 32 | 22 | 6 | 2 | 19 | 16 | 8 | 7 | 27 |
| 51–60 | 68 (22/46) | 26 | 23 | 4 | 4 | 24 | 15 | 10 | 2 | 24 |
| 61–70 | 54 (22/32) | 16 | 27 | 10 | 7 | 32 | 18 | 10 | 2 | 9 |
| 71–85 | 19 (8/11) | 6 | 10 | 3 | 3 | 12 | 7 | 5 | 0 | 5 |
| Total (%) | 369 (40/60%) | 122 (33%) | 91 (25%) | 26 (7%) | 16 (4%) | 90 (24%) | 75 (20%) | 36 (10%) | 21 (6%) | 86 (23%) |
Results of the bivariate genetic correlation analysis included phenotypic (ρ.
| Target ID | Gene ID | Trait | ρP ( | ρG ( | ρE ( |
|---|---|---|---|---|---|
| GI_6031196-S | GM thickness | −0.21 (10−4) | −0.68 (0.04) | −0.10 (0.65) | |
| GI_6031196-S | FA | −0.19 (4·10−4) | −0.50 (0.04) | −0.05 (0.90) | |
| GI_5713320-S | FA | 0.18 (3·10−4) | 0.01 (0.95) | 0.27 (0.03) | |
| GI_5713320-S | HWM volume | −0.12 (0.02) | 0.02 (1) | −0.25 (0.06) | |
| GI_5713320-S | GM thickness | 0.11 (0.04) | 0.05 (0.95) | 0.24 (0.04) | |
| GI_6031196-S | HWM volume | 0.12 (0.03) | 0.19 (0.20) | 0.21 (0.21) | |
Results of the bivariate genetic correlation analysis for regional measurement of cerebral integrity.
| GI_6031196-S ( | GI_5713320-S ( | |
|---|---|---|
| ρP ( | ρP ( | |
| Sup. frontal gyrus | −0.19 (10−3); −0.55 (0.19); −0.09 (0.47) | 0.12 (0.02); 0.69 (0.25); 0.26 (0.01) |
| Interm. frontal gyrus | −0.16 (0.003); −0.55 (0.17); −0.05 (0.65) | 0.10 (0.07); 0.74 (0.19); 0.25 (0.02) |
| Inf. frontal gyrus | −0.17 (10−3); −0.56 (0.17); −0.07 (0.54) | 0.09 (0.09); 0.68 (0.23); 0.23 (0.03) |
| Pre-central gyrus | −0.18 (10−3); −0.56 (0.07); −0.03 (0.80) | 0.09 (0.10); 0.60 (0.16); 0.27 (0.01) |
| Orbitofrontal cortex | −0.17 (0.002); −0.44 (0.22); −0.08 (0.50) | 0.10 (0.05); 0.85 (0.12); 0.26 (0.01) |
| Post-central gyrus | −0.18 (10−4); −0.59 (0.05); −0.05 (0.70) | 0.07 (0.22); 0.40 (0.33); 0.20 (0.09) |
| Superior parietal lobule | −0.15 (0.004); −0.43 (0.19); −0.04 (0.75) | 0.10 (0.05); 0.14 (0.73); 0.17 (0.13) |
| Inferior parietal lobule | −0.18 (10−3); −0.46 (0.17); −0.08 (0.51) | 0.09 (0.08); 0.18 (0.68); 0.16 (0.15) |
| S. temporal gyrus | −0.20 (10−3); −0.47 (0.11); −0.08 (0.55) | 0.08 (0.12); 0.39 (0.34); 0.21 (0.06) |
| Inf. and interm. temporal gyrus | −0.19 (10−3); −0.43 (0.16); −0.09 (0.47) | 0.10 (0.05); 0.27 (0.49); 0.21 (0.07) |
| Fusiform gyrus | −0.17 (0.002); −0.35 (0.22); −0.08 (0.52) | 0.07 (0.19); 0.58 (0.13); 0.24 (0.03) |
| Lateral occipital cortex | −0.16 (0.003); −0.40 (0.17); −0.04 (0.75) | 0.10 (0.05); 0.25 (0.48); 0.21 (0.07) |
| Medial occipital cortex | −0.19 (10−3); −0.49 (0.12); −0.07 (0.62) | 0.10 (0.06); −30 (0.48); 0.23 (0.05) |
| Cingulate gyrus | −0.15 (0.005); −0.56 (0.16); −0.04 (0.76) | 0.12 (0.02); 0.51 (0.36); 0.26 (0.02) |
| Genu of corpus callosum | −0.18 (0.002); −0.34 (0.09); 0.01 (0.96) | 0.22 (10−5); 0.04 (0.90); 0.40 (0.01) |
| Body of corpus callosum | −0.18 (10−3); −0.48 (0.03); 0.06 (0.69) | 0.18 (10−4); −0.11 (0.70); 0.34 (0.01) |
| Splenium of corpus callosum | −0.12 (0.03); −0.43 (0.07); 0.09 (0.56) | 0.08 (0.13); 0.50 (0.29); 0.37 (0.01) |
| Cingulum | −0.11 (0.03); −0.14 (0.62); −0.09 (0.56) | 0.12 (0.02); 0.12 (0.71); 0.12 (0.38) |
| Corona | −0.14 (0.01); −0.13 (0.58); −0.14 (0.39) | 0.17 (10−3); 0.15 (0.59); 0.18 (0.21) |
| External capsule | −0.17 (10−3); −0.12 (0.68); −0.23 (0.23) | 0.17 (10−3); 0.32 (0.37); 0.11 (0.40) |
| Internal capsule (including thalamic radiation) | −0.12 (0.05); −0.17 (0.52); −0.09 (0.55) | 0.14 (0.01); 0.21 (0.60); 0.11 (0.51) |
| Superior/inferior fronto-occipital fasciculi | −0.15 (0.005); −0.05 (0.83); −0.21 (0.14) | 0.14 (0.01); 0.22 (0.45); 0.11 (0.37) |
| Superior longitudinal fasciculus | −0.13 (0.02); −0.15 (0.51); −0.11 (0.51) | 0.17 (0.002); 0.24 (0.39); 0.13 (0.38) |
| Sagittal stratum | −0.08 (0.09); −0.32 (0.21); 0.06 (0.68) | 0.12 (0.02); 0.34 (0.26); 0.02 (0.87) |
| Subcortical | 0.07 (0.10); 0.27 (0.10); 0.28 (0.10) | −0.14 (0.01); 0.08 (0.79); −0.25 (0.05) |
| Periventricular | 0.06 (0.25); 0.02 (0.95); 0.05 (0.75) | −0.06 (0.26); 0.15 (0.62); −0.17 (0.24) |