| Literature DB >> 30046743 |
Veronica H Flood1,2,3, Jill M Johnsen4,5, Caroline Kochelek3, Tricia L Slobodianuk3, Pamela A Christopherson3, Sandra L Haberichter1,2,3, Rupa Udani6, Daniel B Bellissimo7, Kenneth D Friedman3, Robert R Montgomery1,2,3.
Abstract
BACKGROUND: Genetic variation in the VWF gene is associated with von Willebrand factor (VWF) and factor VIII (FVIII) levels in healthy individuals.Entities:
Keywords: factor VIII; genetics; hemostasis; von Willebrand disease; von Willebrand factor
Year: 2018 PMID: 30046743 PMCID: PMC5974909 DOI: 10.1002/rth2.12077
Source DB: PubMed Journal: Res Pract Thromb Haemost ISSN: 2475-0379
Figure 1FVIII and VWF levels for healthy control subjects with or without variant c.2880G>A. Data are shown as a box and whisker plot with box representing 25th to 75th percentile. Purple bars represent subjects with the c.2880G>A variant and blue bars represent subjects without the c.2880G>A variant. VWF and FVIII levels are first shown for all healthy controls combined, and then shown for only African Americans and only European Americans. Levels of both FVIII and VWF were higher when the c.2880G>A variant was present
Characteristics of VWF variants associated with higher VWF levels
|
| c.2365G>A | c.2385C>T | c.2880G>A |
|---|---|---|---|
| Genomic annotation | |||
| Chr position (Hg19) | 12:6153534 | 12:6153514 | 12:6138595 |
| Genomic variant | T/C | A/G | C/T |
| rsID | rs1063856 | rs1063857 | rs1800380 |
| Predicted VWF protein | p.Thr789Ala | p.Tyr795Tyr | p.Arg960Arg |
| ExAC allele frequencies | |||
| Total | 0.3232 | 0.3231 | 0.2081 |
| African | 0.5805 | 0.5797 | 0.315 |
| European (Finnish) | 0.3648 | 0.3639 | 0.2539 |
| European (Non‐Finnish) | 0.3561 | 0.3563 | 0.2524 |
| Latino | 0.1654 | 0.1655 | 0.1129 |
| East Asian | 0.07398 | 0.07391 | 0.0008096 |
| South Asian | 0.2522 | 0.2519 | 0.1179 |
| Other | 0.3293 | 0.3293 | 0.2192 |
| Predictive Tools | |||
| PolyPhen | 0 | unknown | unknown |
| Grantham Score | 58 | NA | NA |
| PhastCons Score | 0.995 | 0.766 | 0.113 |
| GERP Score | 2.17 | −5.47 | −5.07 |
| CADD Score | 3.009 | 10.4 | 7.277 |
Chr, chromosome; Hg, human genome browser hg19 assembly; rsID, reference SNP cluster ID; ExAC, Exome Aggregation Consortium (http://exac.broadinstitute.org/).
PolyPhen (http://genetics.bwh.harvard.edu/pph2/) uses a scoring system of 0 to 1 with 0 representing a benign variant and 1 representing a damaging variant.31
Grantham Score uses a scoring system from 15 (least radical change) to 200 (most radical change).32
PhastCons Score (http://genome.ucsc.edu provides a conservation score using values between 0 and 1.33
GERP Score (http://mendel.stanford.edu/SidowLab/downloads/gerp/) assesses conservation with higher scores representing greater degree of conservation.34
CADD Score (http://cadd.gs.washington.edu/) also has higher scores representing more likely deleterious variants.35
Figure 2FVIII and VWF levels by variant status for healthy control subjects with or without variants c.2365A>G and c.2385T>C. Data are shown as a box and whisker plot with box representing 25th to 75th percentile (the box and whisker plot graphs the median value). Green bars represent subjects with the c.2365A>G and c.2385T>C variants and blue bars represent subjects without the c.2365A>G and c.2385T>C variants. VWF and FVIII levels are first shown for all healthy controls combined, and then shown for only African Americans and only European Americans. Levels of both FVIII and VWF were higher when the c.2365A>G and c.2385T>C variants were present
Demographic data and VWF variant frequencies in healthy control subjects as compared to type 1 VWD subjects
| Healthy Control Subjects (n = 256) | Type 1 VWD Subjects (n = 97) | |
|---|---|---|
| Race | ||
| African American | 26% | 10% |
| European American | 54% | 81% |
| Asian | 17% | 1% |
| Other | 3% | 7% |
| Ethnicity | ||
| Hispanic | 18% | 7% |
| Sex (% female: % male) | 52:48 | 57:43 |
| Age (years, ±1 SD) | 38 ± 11 | 19 ± 17 |
| c.2880G>A | 36% | 20% |
| heterozygote | 30% | 16% |
| homozygote | 6% | 3% |
| c.2365A>G(;)c.2385T>C | 50% | 34% |
| heterozygote | 33% | 28% |
| homozygote | 18% | 6% |
| c.2880G>A (African American only) | 61% | 10% |
| c.2880G>A (European American only) | 36% | 23% |
| c.2365A>G(;)c.2385T>C (African American only) | 88% | 40% |
| c.2365A>G(;)c.2385T>C (European American only) | 49% | 33% |
Includes American Indian/Alaskan native, Hawaiian or other Pacific Islander, Middle Eastern, multiple races, and unknown/refused to answer (<5 subjects each).
Figure 3FVIII and VWF levels by variant status for type 1 VWD subjects with or without variant c.2880G>A and variants c.2365A>G and c.2385T>C. Data are shown as a box and whisker plot with box representing 25th to 75th percentile. Yellow bars represent VWF and FVIII levels for subjects with the indicated variant(s) and blue bars represent VWF and FVIII levels for subjects without the indicated variant(s). No difference was seen in type 1 subjects when those with the D′D3 region variants were compared to those subjects without the variants
Higher mean VWF and FVIII levels in healthy control subjects with variant VWF alleles
| c.2880G>A | Homozygous (n = 15) | Heterozygous (n = 76) | Wild‐type (n = 165) |
|---|---|---|---|
| FVIII | 118 ± 36 | 116 ± 32 | 103 ± 31 |
| VWF:Ag | 162 ± 86 | 147 ± 58 | 107 ± 47 |
| VWFpp | 103 ± 32 | 97 ± 22 | 88 ± 25 |
| FVIII/VWF:Ag ratio | 0.79 ± 0.19 | 0.84 ± 0.20 | 1.04 ± 0.28 |
| VWFpp/VWF:Ag ratio | 0.72 ± 0.25 | 0.71 ± 0.19 | 0.90 ± 0.27 |
All data are given in IU/dL and represent the mean ± 1 SD.
P < 0.005 as compared to wild‐type.
P < 0.05 as compared to wild‐type.
Figure 4Recombinant VWF containing the candidate variants under study did not show differences in VWF secretion or FVIII binding. Each variant was expressed individually and in combination and compared to wild‐type recombinant VWF (‘WT’) and an empty vector negative control (‘mock’). Results for VWF secretion as measured by VWF:Ag are shown with the red bars and FVIII binding with the gray bars. N ≥ 3 for each assay on 3 separate transfections. Error bars represent one standard deviation. No difference was seen when for any of the variants as compared to WT VWF. 2365 = c.2365G, 2385 = c.2385C, 2880 = c.2880A, 65/85 = combined c.2365G and c.2385C, 65/85/80 = combined c.2365G and c.2385C and c.2880A