| Literature DB >> 23346098 |
Anatoliy I Yashin1, Konstantin G Arbeev, Deqing Wu, Liubov S Arbeeva, Alexander Kulminski, Igor Akushevich, Irina Culminskaya, Eric Stallard, Svetlana V Ukraintseva.
Abstract
BACKGROUND ANDEntities:
Keywords: age trajectories; genetic dose; integrative genetic mortality model; longevity genes; physiological variables
Year: 2013 PMID: 23346098 PMCID: PMC3551204 DOI: 10.3389/fgene.2013.00003
Source DB: PubMed Journal: Front Genet ISSN: 1664-8021 Impact factor: 4.599
Figure 1Distribution of the numbers of pro-survival alleles out of 27 of such alleles selected in Yashin et al. (.
Essential characteristics of the 27 pro-survival SNPs from Yashin et al. (.
| rs4648884 | 27.7 | 1 | INTRONIC | 0 | RUNX3: runt-related transcription factor 3 | Can either activate or suppress transcription; interacts with other transcription factors | Apoptosis; tumor suppression; immune response; asthma |
| rs3120819 | 42.1 | 1 | INTERGENIC | −84906 | RP11-149P14.1 | Pseudogene | |
| rs1974676 | 35.4 | 2 | INTRONIC | 0 | HPCAL1: hippocalcin-like 1 | Member of neuron-specific calcium-binding proteins family | Brain information processing; CVD, asthma (?) |
| rs432203 | 38.0 | 2 | INTRONIC | 0 | TGF alpha: transforming growth factor, alpha | A mitogenic polypeptide able to bind to the EGF receptor and act synergistically with TGF beta to promote cell proliferation | Cell proliferation; brain response to damage; cancer; stroke (?) |
| rs12623542 | 36.7 | 2 | NON CODING | 0 | AC131097.3 | ||
| rs13008689 | 23.2 | 2 | INTERGENIC | −153466 | AC011747.3 | ||
| rs1834497 | 44.7 | 3 | INTRONIC | 0 | CLSTN2: calsyntenin 2 | Postsynaptic membrane proteins with highest levels in GABAergic neurons; expressed in the medial temporal lobe | Brain information processing; memory formation; AD |
| rs9876781 | 34.9 | 3 | NON CODING | 0 | RP11-24C3.2 | Closest gene: ATR interacting protein (ATRIP) | Cell cycle arrest/ replicative senescence |
| rs10937739 | 41.9 | 4 | INTRONIC | 0 | PPP2R2C: protein phosphatase 2, regulatory subunit B, gamma | Serine/threonine phosphatase 2; is abundant in brain; can modify MAPK activity; | Apoptosis; memory; brain disorders; cancer, CVDs (?) |
| rs1205035 | 36.2 | 6 | INTERGENIC | −109050 | RP1-223B1.1 | ||
| rs3800358 | 25.9 | 6 | 3PRIME_UTR | 0 | BTBD9: BTB domain containing 9 | Involved in protein-protein interactions | Sleep disorders |
| rs10256972 | 36.5 | 7 | INTRONIC | 0 | C7orf50: chr7 open reading frame 50 | ||
| rs1327533 | 25.3 | 9 | INTRONIC | 0 | SVEP1: EGF and pentraxin domain containing 1 | A multi-domain protein: Sushi, CCP, vWF-A, EGF/EGF-like calcium binding, and pentraxin domains | Cell adhesion; muscle growth and regeneration |
| rs2590504 | 37.3 | 9 | DOWN-STREAM | −6153 | KIAA0649 | Is a 1A6/DRIM ("Down-regulated in Metastasis") interacting protein with oncogenic characteristics | Cell proliferation; cancer |
| rs10819510 | 26.5 | 9 | INTERGENIC | −37267 | RP11-65J3.3 | ||
| rs739401 | 32.4 | 11 | INTRONIC | 0 | CARS: cysteinyl-tRNA synthetase | Catalyzes tRNA aminoacylation; located near imprinted gene domain in a tumor-suppressor gene region | Cancer; diabetes |
| rs2370413 | 35.2 | 12 | INTRONIC | 0 | CACNA1C: alpha 1C subunit of L-type voltage-gated calcium channel | Mediates the entry of calcium ions into cells; involved in variety of calcium-dependent processes | Calcium-depend. processes; brain volume, memory; brain disorders; CVD |
| rs9517320 | 30.8 | 13 | INTRONIC | 0 | STK24: serine/threonine kinase 24 | Participates in the mitogen-activated protein kinase (MAPK) cascade | Brain regeneration; memory; possibly PD and cancer |
| rs4148544 | 24.6 | 13 | INTRONIC | 0 | ABCC4: ATP-binding cassette transporters family | Transport various molecules across extra- and intra-cellular membranes | Transport of xenobiotics, detoxification; cancer |
| rs41383 | 25.0 | 16 | INTRONIC | 0 | NLRC5: NLR family, CARD domain containing 5 | IFN-gamma-inducible nuclear transcriptional regulator of the NF-kappaB and type I interferon signaling | Innate immunity; inflammation; viral infection |
| rs16975963 | 46.7 | 19 | NON CODING | 0 | AC016582.2 | ||
| rs2024714 | 26.8 | 20 | INTRONIC | 0 | CDH4: R-cadherin (retinal) | Participates in calcium-dependent cell-cell adhesion | Cell adhesion; brain volume, brain aging; cancer |
| rs2826891 | 36.50 | 21 | INTRONIC | 0 | NCAM2: neural cell adhesion molecule 2 | Brain protein, superfamily of the immunoglobulin; one of plasma membrane-anchored proteins | Neural cell adhesion; cancer, brain disorders (?) |
| rs139170 | 34.7 | 22 | INTRONIC | 0 | PARVG: parvin, gamma | Actin-binding proteins associated with focal adhesion | Cell adhesion; tumor suppression |
| rs5771675 | 30.9 | 22 | INTRONIC | 0 | FAM19A5: member of TAFA family | Related to MIP-1alpha, a member of the CC-chemokine family. | Regulation of brain inflammation and neuronal survival (?) |
| rs9616906 | 22.7 | 22 | UP-STREAM | −3552 | AC000050.2 | ||
| rs13053175 | 28.0 | 22 | UP-STREAM | −7992 | RAC2: ras-related C3 botul. toxin substrate 2 | GTPase of the RAS superfamily regulating cell growth, cytoskelet, and the protein kinases activation | Cell growth/ proliferation; cell adhesion; immunity, inflammation |
Expanded table with references is provided in Yashin et al. (2012c).
Note: Abbreviations: AD, Alzheimer's disease; CVD, cardiovascular diseases; PD, Parkinson's disease. MAF, minor (pro-survival) allele frequency % at baseline ages (60–75).
Effects of polygenic score on total and cause-specific mortality in the Cox model.
| Total | 1267 | 204 | −0.057 | 0.007 | 2.7E-18 | 0.94 (0.93; 0.96) |
| CVD | 368 | 1103 | −0.047 | 0.012 | 0.0001 | 0.95 (0.93; 0.98) |
| Cancer | 243 | 1228 | −0.030 | 0.015 | 0.041 | 0.97 (0.94; 0.99) |
| Other | 656 | 815 | −0.071 | 0.009 | 1.9E-15 | 0.93 (0.92; 0.95) |
Notes: “Cause” denotes the cause of death (Total—all causes, CVD, cancer, and Other—all other causes or unknown cause); “Events #” shows the number of deaths from specific cause; “Cens. #” indicates the number of censored cases; “Beta” shows the estimate of the regression coefficient for the polygenic score variable in the Cox model; “SE” is a standard error for Beta; “p-value” characterizes the significance of the estimate; “HR” shows the estimate of hazard ratio per one SNP (pro-survival allele), 95% confidence intervals are shown in parentheses.
Characteristics of study subjects.
| 44.1 | 8.60 | 28 | 62 | 55.2% | 5209 | |
| Short-lived | 44.0 | 8.35 | 28 | 62 | 42.4% | 1801 |
| Long-lived | 47.8 | 6.58 | 37 | 62 | 85.0% | 100 |
| “unhealthy” | 44.1 | 8.61 | 28 | 62 | 52.7% | 4291 |
| “healthy” | 44.2 | 8.55 | 29 | 62 | 66.4% | 788 |
| <14 | 42.0 | 7.32 | 30 | 61 | 54.4% | 721 |
| ≥14 | 36.0 | 4.50 | 29 | 55 | 65.7% | 750 |
| e4 | 37.9 | 5.96 | 28 | 57 | 66.1% | 277 |
| not e4 | 37.6 | 5.66 | 29 | 57 | 63.1% | 981 |
| “unhealthy”, <14 | 41.8 | 7.27 | 30 | 61 | 52.3% | 637 |
| “unhealthy”, ≥14 | 35.9 | 4.46 | 29 | 54 | 63.4% | 658 |
Notes: Short-lived are those dying at ages below 75, long-lived are those with 100 longest life spans; see details in the text. “Unhealthy” are those who had onset of at least one of the three diseases (cancer, CVD, diabetes) during the follow-up period; “healthy” are those free of such disease during the follow-up period; see more details on calculations of average trajectories in “unhealthy” and “healthy” individuals in the text. Carriers of different numbers of pro-survival alleles are defined based on the 27 SNPs identified in Yashin et al. (2012c); see details on the selection procedure in the text.
Figure 9Estimates of the logarithm of the baseline hazard rates in the stochastic process model (Yashin et al., Estimates for body mass index (BMI); (B) estimates for diastolic blood pressure (DBP); (C) estimates for cholesterol (SCH); (D) estimates for ventricular rate (VR). P-values are for the null hypotheses on the equality of baseline hazards in the two groups. See more details about the model in section “Advanced statistical analyses using the stochastic process model.”
Figure 11Estimates of mean allostatic trajectories in the stochastic process model (Yashin et al., Estimates for body mass index (BMI); (B) estimates for diastolic blood pressure (DBP); (C) estimates for cholesterol (SCH); (D) estimates for ventricular rate (VR). P-values are for the null hypotheses on the equality of mean allostatic trajectories in the two groups. See more details about the model in section “Advanced statistical analyses using the stochastic process model.”
Figure 2Average trajectories (±standard errors) of four physiological variables in the Framingham Heart Study (original cohort, pooled data from exams 1–28). (A) Body mass index; (B) diastolic blood pressure; (C) cholesterol; (D) ventricular rate.
Figure 3Average trajectories (±standard errors) of four physiological variables in groups of short-lived individuals (“LS < 75,” i.e., those dying at ages 75 or earlier; censored individuals are excluded from this group) and 100 longest lived individuals in the Framingham Heart Study (original cohort, pooled data from exams 1–28). (A) Body mass index; (B) diastolic blood pressure; (C) cholesterol; (D) ventricular rate. Symbols above the curves correspond to p-values for testing the null hypotheses on equality of means in respective age groups: no symbol: p ≥ 0.05; *: 0.01 ≤ p < 0.05; #: 0.001 ≤ p < 0.01; !: 0.0001 ≤ p < 0.001; !!: p < 0.0001.
Figure 4Individual trajectories of four physiological variables in groups of short-lived individuals (“SL,” those dying at ages 75 or earlier; censored individuals are excluded from this group) and 100 longest lived (“LL”) individuals in the Framingham Heart Study (original cohort, pooled data from exams 1–28). (A) Body mass index; (B) diastolic blood pressure; (C) cholesterol; (D) ventricular rate.
Figure 5Average trajectories (±standard errors) of four physiological variables for “unhealthy” and “healthy” individuals in the Framingham Heart Study (original cohort, pooled data from exams 1–28). (A) Body mass index; (B) diastolic blood pressure; (C) cholesterol; (D) ventricular rate. Note: “unhealthy” individuals are those with cancer, CVD or diabetes; “healthy” are those free of these three diseases. Measurements of physiological indices before the onset of any of these diseases contribute to the “healthy” trajectory and those after the onset of any of the diseases contribute to the “unhealthy” trajectory. Symbols above the curves correspond to p-values for testing the null hypotheses on equality of means in respective age groups: no symbol: p ≥ 0.05; *: 0.01 ≤ p < 0.05; #: 0.001 ≤ p < 0.01; !: 0.0001 ≤ p < 0.001; !!: p < 0.0001.
Figure 6Average trajectories (±standard errors) of four physiological variables in the Framingham Heart Study (original cohort, pooled data from exams 1–28) for individuals carrying different number of pro-survival alleles (<14 and ≥14) out of the 27 such alleles identified in Yashin et al. ( Body mass index; (B) diastolic blood pressure; (C) cholesterol; (D) ventricular rate. Symbols above the curves correspond to p-values for testing the null hypotheses on equality of means in respective age groups: no symbol: p ≥ 0.05; *: 0.01 ≤ p < 0.05; #: 0.001 ≤ p < 0.01; !: 0.0001 ≤ p < 0.001; !!: p < 0.0001.
Figure 7Average trajectories (±standard errors) of four physiological variables for carriers (“e4”) and non-carriers (“not e4”) of the APOE e4 allele in the Framingham Heart Study (original cohort, pooled data from exams 1–28). (A) Body mass index; (B) diastolic blood pressure; (C) cholesterol; (D) ventricular rate. Symbols above the curves correspond to p-values for testing the null hypotheses on equality of means in respective age groups: no symbol: p ≥ 0.05; *: 0.01 ≤ p < 0.05; #: 0.001 ≤ p < 0.01; !: 0.0001 ≤ p < 0.001; !!: p < 0.0001.
Figure 8Average trajectories (±standard errors) of four physiological variables in the Framingham Heart Study (original cohort, pooled data from exams 1–28) for “unhealthy” individuals carrying different number of pro-survival alleles (<14 and ≥14) out of the 27 such alleles identified in Yashin et al. ( Body mass index; (B) diastolic blood pressure; (C) cholesterol; (D) ventricular rate. Note: “unhealthy” individuals are those with cancer, CVD, or diabetes; “healthy” are those free of these three diseases. Measurements of physiological indices before the onset of any of these diseases contribute to the “healthy” trajectory and those after the onset of any of the diseases contribute to the “unhealthy” trajectory. Symbols above the curves correspond to p-values for testing the null hypotheses on equality of means in respective age groups: no symbol: p ≥ 0.05; *: 0.01 ≤ p < 0.05; #: 0.001 ≤ p < 0.01; !: 0.0001 ≤ p < 0.001; !!: p < 0.0001.
Figure 10Estimates of adaptive capacity in the stochastic process model (Yashin et al., Estimates for body mass index (BMI); (B) estimates for diastolic blood pressure (DBP); (C) estimates for cholesterol (SCH); (D) estimates for ventricular rate (VR). P-values are for the null hypotheses on the equality of adaptive capacities in the two groups. See more details about the model in section “Advanced statistical analyses using the stochastic process model.”