Related Experiment Video
Updated: May 14, 2026

Determining the Likelihood of Variant Pathogenicity Using Amino Acid-level Signal-to-Noise Analysis of Genetic Variation
Published on: January 16, 2019
Genetic variants associated with protein C levels.
C Y Vossen1, B P Koeleman, S J Hasstedt
1Department of Medical Genetics, University Medical Center Utrecht, Utrecht, Netherlands.
Researchers identified four genes at chromosome 5q14.1 that may influence normal protein C (PC) levels. BHMT2 is a likely candidate for regulating PC levels through homocysteine, impacting thrombin inhibition.
Area of Science:
- Genetics
- Molecular Biology
- Thrombosis Research
Background:
- Normal protein C (PC) plasma levels exhibit wide variation.
- Factors influencing PC levels are linked to venous thrombosis risk.
- Genetic variants affecting normal PC levels are largely unknown.
Purpose of the Study:
- To conduct a genome scan to identify genes regulating normal protein C (PC) levels.
- To explore the genetic basis of PC plasma level variability.
- To identify genetic variants associated with normal PC levels and thrombosis risk.
Main Methods:
- Variance components linkage analysis in a large family (275 individuals).
- Next-generation sequencing of candidate genes within a linkage peak.
- Re-evaluation of linkage conditional on genotype effects and replication in the Leiden Thrombophilia Study (LETS).
Main Results:
- A quantitative trait locus on chromosome 5q14.1 associated with PC level variability was identified.
- Four single nucleotide polymorphisms (SNPs) in BHMT2, ACOT12, SSBP2, and XRCC4 were found to increase PC levels in the studied family.
- Replication in the LETS cohort was unsuccessful, potentially due to genetic background differences.
Conclusions:
- Four genes located at chromosome 5q14.1 may influence normal protein C (PC) levels.
- BHMT2 is a strong candidate for regulating PC levels, possibly via homocysteine's interaction with thrombin.
- Discrepancies in replication suggest variations in genetic background and linkage disequilibrium between study populations.
More Related Videos
09:34Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
Published on: April 4, 2018
07:26High-resolution Melting PCR for Complement Receptor 1 Length Polymorphism Genotyping: An Innovative Tool for Alzheimer's Disease Gene Susceptibility Assessment
Published on: July 18, 2017
Related Concept Videos
Pharmacogenetic Phenotypes: Alterations in Pharmacokinetics, Drug Targets and Biologic Milieu
Principles of Pharmacogenetics: Types of Genetic Variants
Comparing Copy Number Variations and SNPs
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
Pharmacogenomics: Identification of New Drug Targets
Pharmacogenetics of Drug Transporters: P-Glycoprotein and Solute Carrier Transporters
Pharmacogenetics of Phase I Enzymes: Cytochrome P450 Isozymes