ID
45553
Beschrijving
Principal Investigator: Boon Peng Hoh, Institute of Medical Molecular Biology, (IMMB), Faculty of Medicine, Universiti Teknologi MARA, Sg Buloh Campus, Malaysia MeSH: https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000664 Copy number variation (CNV) has been recognized as a major contributor to human genome diversity. It plays an important role in determining phenotypes and has been associated with a number of common and complex diseases. However the CNV data from diverse populations is rather limited. Here we report the first investigation of copy number variation (CNV) in the indigenous populations from Peninsular Malaysia. We genotyped 34 Negrito genomes from Peninsular Malaysia using the Affymetrix SNP 6.0 microarray and identified 62 putative novel CNVs, consisting of 25 gains and 37 losses. These CNVs appear unique to the Negrito population and were absent in the DGV, HapMap3 and Singapore Genome Variation Project (SGVP) datasets. Analysis of gene ontology revealed that genes within these CNVs were enriched in the immune system (GO:0002376), response to stimulus mechanisms (GO:0050896), as well as the metabolic pathways (GO:0001852). Copy number gains in CNVRs enriched with genes were significantly higher than the losses (P value 0.001). Therefore, in view of the small population size, relative isolation and semi-normadic lifestyles of this community, we speculate that these CNVs may be attributed to recent local adaptation of Negritos from Peninsular Malaysia.
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Versies (1)
- 09-01-23 09-01-23 - Simon Heim
Houder van rechten
Boon Peng Hoh, Institute of Medical Molecular Biology, (IMMB), Faculty of Medicine, Universiti Teknologi MARA, Sg Buloh Campus, Malaysia
Geüploaded op
9 januari 2023
DOI
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Licentie
Creative Commons BY 4.0
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dbGaP phs000664 Genome Variations Among the Aboriginals in Malaysia
Eligibility Criteria
- StudyEvent: SEV1
- Eligibility Criteria
- This data table contains subject IDs, consent information and affection status.
- This data table contains mapping of study subject IDs to sample IDs. Samples are the final preps submitted for genotyping, sequencing, and/or expression data. For example, if one patient (subject ID) gave one sample, and that sample was processed differently to generate 2 sequencing runs, there would be two rows, both using the same subject ID, but having 2 unique sample IDs. The data table also includes sample aliases and sample use.
- This subject phenotype table includes race and gender.
- This sample attributes table includes body site where sample was extracted, analyte type, tumor status, histological type, and genotyping center.
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Eligibility Criteria
- StudyEvent: SEV1
- Eligibility Criteria
- This data table contains subject IDs, consent information and affection status.
- This data table contains mapping of study subject IDs to sample IDs. Samples are the final preps submitted for genotyping, sequencing, and/or expression data. For example, if one patient (subject ID) gave one sample, and that sample was processed differently to generate 2 sequencing runs, there would be two rows, both using the same subject ID, but having 2 unique sample IDs. The data table also includes sample aliases and sample use.
- This subject phenotype table includes race and gender.
- This sample attributes table includes body site where sample was extracted, analyte type, tumor status, histological type, and genotyping center.
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