Use of single-nucleotide polymorphisms (SNPs) to distinguish gene expression subtypes of chronic fatigue syndrome/myalgic encephalomyelitis (CFS/ME)
Methods To identify SNP allele associations with CFS/ME and CFS/ME subtypes, we tested genomic DNA of patients with CFS/ME (n=108), patients with endogenous depression (n=17) and normal blood donors (n=68) for 504 human SNP alleles located within 88 CFS-associated human genes using the SNP Genotypin...
- Autores:
- Tipo de recurso:
- Fecha de publicación:
- 2014
- Institución:
- Universidad del Rosario
- Repositorio:
- Repositorio EdocUR - U. Rosario
- Idioma:
- eng
- OAI Identifier:
- oai:repository.urosario.edu.co:10336/22308
- Acceso en línea:
- https://doi.org/10.1136/jclinpath-2014-202597
https://repository.urosario.edu.co/handle/10336/22308
- Palabra clave:
- Genomic DNA
Transcription factor
Transcriptome
Adult
Allele
Article
Asian
Binding site
Blood donor
Caucasian
Chronic fatigue syndrome
Controlled study
Diagnostic test
Endogenous depression
Female
Gene expression
Genetic association
Genotype
Human
Major clinical study
Male
Phenotype
Sequence analysis
Single nucleotide polymorphism
Chronic fatigue syndrome
Classification
Cluster analysis
Depression
Genetic predisposition
Genetics
Middle aged
Single nucleotide polymorphism
Adult
Cluster Analysis
Depression
Female
Genetic Predisposition to Disease
Genotype
Humans
Male
Middle Aged
Transcriptome
Chronic
Single Nucleotide
Fatigue Syndrome
Polymorphism
- Rights
- License
- Abierto (Texto Completo)
Summary: | Methods To identify SNP allele associations with CFS/ME and CFS/ME subtypes, we tested genomic DNA of patients with CFS/ME (n=108), patients with endogenous depression (n=17) and normal blood donors (n=68) for 504 human SNP alleles located within 88 CFS-associated human genes using the SNP Genotyping GoldenGate Assay (Illumina, San Diego, California, USA). 360 ancestry informative markers (AIM) were also examined.Aims We have reported gene expression changes in patients with chronic fatigue syndrome/myalgic encephalomyelitis (CFS/ME) and the fact that such gene expression data can be used to identify subtypes of CFS/ME with distinct clinical phenotypes. Due to the difficulties in using a comparative gene expression method as an aid to CFS/ME disease and subtype-specific diagnosis, we have attempted to develop such a method based on single-nucleotide polymorphism (SNP) analysis.Conclusions This study provides evidence that human SNPs located within CFS/ME associated genes are associated with particular genomic subtypes of CFS/ME. Further work is required to develop this into a clinically useful subtype-specific diagnostic test.Results 21 SNPs were significantly associated with CFS/ME compared with depression and normal groups. 148 SNP alleles had a significant association with one or more CFS/ME subtypes. For each subtype, associated SNPs tended to be grouped together within particular genes. AIM SNPs indicated that 4 subjects were of Asian origin while the remainder were Caucasian. Hierarchical clustering of AIM data revealed the relatedness between 2 couples of patients with CFS only and confirmed the overall heterogeneity of all subjects. |
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