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Article: Identification of genes with allelic imbalance on 6p associated with nasopharyngeal carcinoma in Southern Chinese
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TitleIdentification of genes with allelic imbalance on 6p associated with nasopharyngeal carcinoma in Southern Chinese
 
AuthorsLi, Y1
Fu, L1
Wong, AMG1
Fan, YH1
Li, MX1
Bei, JX2
Jia, WH2
Zeng, YX2
Chan, D1
Cheung, KMC1
Sham, P1
Chua, D1
Guan, XY1
Song, YQ1
 
Issue Date2011
 
PublisherPublic Library of Science. The Journal's web site is located at http://www.plosone.org/home.action
 
CitationPlos One, 2011, v. 6 n. 1 [How to Cite?]
DOI: http://dx.doi.org/10.1371/journal.pone.0014562
 
AbstractNasopharyngeal carcinoma (NPC) is a malignancy of epithelial origin. The etiology of NPC is complex and includes multiple genetic and environmental factors. We employed case-control analysis to study the association of chromosome 6p regions with NPC. In total, 360 subjects and 360 healthy controls were included, and 233 single nucleotide polymorphisms (SNPs) on 6p were examined. Significant single-marker associations were found for SNPs rs2267633 (p = 4.49610 -5), rs2076483 (most significant, p = 3.36610 -5), and rs29230 (p = 1.43610 -4). The highly associated genes were the gamma-amino butyric acid B receptor 1 (GABBR1), human leukocyte antigen (HLA-A), and HLA complex group 9 (HCG9). Haplotypic associations were found for haplotypes AAA (located within GABBR1, p-value = 6.46610 -5) and TT (located within HLA-A, p = 0.0014). Further investigation of the homozygous genotype frequencies between cases and controls suggested that micro-deletion regions occur in GABBR1 and neural precursor cell expressed developmentally down-regulated 9 (NEDD9). Quantitative real-time polymerase chain reaction (qPCR) using 11 pairs of NPC biopsy samples confirmed the significant decline in GABBR1 and NEDD9 mRNA expression in the cancer tissues compared to the adjacent non-tumor tissue (p<0.05). Our study demonstrates that multiple chromosome 6p susceptibility loci contribute to the risk of NPC, possibly though GABBR1 and NEDD9 loss of function. © 2011 Li et al.
 
ISSN1932-6203
2012 Impact Factor: 3.73
2012 SCImago Journal Rankings: 1.512
 
DOIhttp://dx.doi.org/10.1371/journal.pone.0014562
 
PubMed Central IDPMC3024318
 
ISI Accession Number IDWOS:000286522200005
Funding AgencyGrant Number
Research Fund for the Control of Infectious Diseases (RFCID)08070652
AO Foundation (AOSPINE)AOSBRC-07-02
Funding Information:

The study is supported by a grant from the Research Fund for the Control of Infectious Diseases (RFCID: http://www.fhb.gov.hk/grants/english/funds/funds_rfcid/funds_rfcid_abt/funds_rfcid_abt.html) (no. 08070652, YQS) and AO Foundation (AOSPINE (AOSBRC-07-02; http://www.aospine.org/history.aspx). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

 
ReferencesReferences in Scopus
 
GrantsFine mapping candidate loci for nasopharyngeal carcinoma (NPC) in southern Chinese specifically linked to EBV aetiopathogenesis
 
DC FieldValue
dc.contributor.authorLi, Y
 
dc.contributor.authorFu, L
 
dc.contributor.authorWong, AMG
 
dc.contributor.authorFan, YH
 
dc.contributor.authorLi, MX
 
dc.contributor.authorBei, JX
 
dc.contributor.authorJia, WH
 
dc.contributor.authorZeng, YX
 
dc.contributor.authorChan, D
 
dc.contributor.authorCheung, KMC
 
dc.contributor.authorSham, P
 
dc.contributor.authorChua, D
 
dc.contributor.authorGuan, XY
 
dc.contributor.authorSong, YQ
 
dc.date.accessioned2011-07-27T01:26:02Z
 
dc.date.available2011-07-27T01:26:02Z
 
dc.date.issued2011
 
dc.description.abstractNasopharyngeal carcinoma (NPC) is a malignancy of epithelial origin. The etiology of NPC is complex and includes multiple genetic and environmental factors. We employed case-control analysis to study the association of chromosome 6p regions with NPC. In total, 360 subjects and 360 healthy controls were included, and 233 single nucleotide polymorphisms (SNPs) on 6p were examined. Significant single-marker associations were found for SNPs rs2267633 (p = 4.49610 -5), rs2076483 (most significant, p = 3.36610 -5), and rs29230 (p = 1.43610 -4). The highly associated genes were the gamma-amino butyric acid B receptor 1 (GABBR1), human leukocyte antigen (HLA-A), and HLA complex group 9 (HCG9). Haplotypic associations were found for haplotypes AAA (located within GABBR1, p-value = 6.46610 -5) and TT (located within HLA-A, p = 0.0014). Further investigation of the homozygous genotype frequencies between cases and controls suggested that micro-deletion regions occur in GABBR1 and neural precursor cell expressed developmentally down-regulated 9 (NEDD9). Quantitative real-time polymerase chain reaction (qPCR) using 11 pairs of NPC biopsy samples confirmed the significant decline in GABBR1 and NEDD9 mRNA expression in the cancer tissues compared to the adjacent non-tumor tissue (p<0.05). Our study demonstrates that multiple chromosome 6p susceptibility loci contribute to the risk of NPC, possibly though GABBR1 and NEDD9 loss of function. © 2011 Li et al.
 
dc.description.naturepublished_or_final_version
 
dc.identifier.citationPlos One, 2011, v. 6 n. 1 [How to Cite?]
DOI: http://dx.doi.org/10.1371/journal.pone.0014562
 
dc.identifier.doihttp://dx.doi.org/10.1371/journal.pone.0014562
 
dc.identifier.epagee14562
 
dc.identifier.hkuros188460
 
dc.identifier.isiWOS:000286522200005
Funding AgencyGrant Number
Research Fund for the Control of Infectious Diseases (RFCID)08070652
AO Foundation (AOSPINE)AOSBRC-07-02
Funding Information:

The study is supported by a grant from the Research Fund for the Control of Infectious Diseases (RFCID: http://www.fhb.gov.hk/grants/english/funds/funds_rfcid/funds_rfcid_abt/funds_rfcid_abt.html) (no. 08070652, YQS) and AO Foundation (AOSPINE (AOSBRC-07-02; http://www.aospine.org/history.aspx). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

 
dc.identifier.issn1932-6203
2012 Impact Factor: 3.73
2012 SCImago Journal Rankings: 1.512
 
dc.identifier.issue1
 
dc.identifier.pmcidPMC3024318
 
dc.identifier.pmid21283797
 
dc.identifier.scopuseid_2-s2.0-79251649127
 
dc.identifier.spagee14562
 
dc.identifier.urihttp://hdl.handle.net/10722/135019
 
dc.identifier.volume6
 
dc.languageeng
 
dc.publisherPublic Library of Science. The Journal's web site is located at http://www.plosone.org/home.action
 
dc.publisher.placeUnited States
 
dc.relation.ispartofPLoS ONE
 
dc.relation.projectFine mapping candidate loci for nasopharyngeal carcinoma (NPC) in southern Chinese specifically linked to EBV aetiopathogenesis
 
dc.relation.referencesReferences in Scopus
 
dc.rightsCreative Commons: Attribution 3.0 Hong Kong License
 
dc.subject.meshAllelic Imbalance
 
dc.subject.meshChina - epidemiology
 
dc.subject.meshChromosomes, Human, Pair 6 - genetics
 
dc.subject.meshGene Expression Regulation, Neoplastic
 
dc.subject.meshNasopharyngeal Neoplasms - genetics
 
dc.titleIdentification of genes with allelic imbalance on 6p associated with nasopharyngeal carcinoma in Southern Chinese
 
dc.typeArticle
 
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<description.abstract>Nasopharyngeal carcinoma (NPC) is a malignancy of epithelial origin. The etiology of NPC is complex and includes multiple genetic and environmental factors. We employed case-control analysis to study the association of chromosome 6p regions with NPC. In total, 360 subjects and 360 healthy controls were included, and 233 single nucleotide polymorphisms (SNPs) on 6p were examined. Significant single-marker associations were found for SNPs rs2267633 (p = 4.49610 -5), rs2076483 (most significant, p = 3.36610 -5), and rs29230 (p = 1.43610 -4). The highly associated genes were the gamma-amino butyric acid B receptor 1 (GABBR1), human leukocyte antigen (HLA-A), and HLA complex group 9 (HCG9). Haplotypic associations were found for haplotypes AAA (located within GABBR1, p-value = 6.46610 -5) and TT (located within HLA-A, p = 0.0014). Further investigation of the homozygous genotype frequencies between cases and controls suggested that micro-deletion regions occur in GABBR1 and neural precursor cell expressed developmentally down-regulated 9 (NEDD9). Quantitative real-time polymerase chain reaction (qPCR) using 11 pairs of NPC biopsy samples confirmed the significant decline in GABBR1 and NEDD9 mRNA expression in the cancer tissues compared to the adjacent non-tumor tissue (p&lt;0.05). Our study demonstrates that multiple chromosome 6p susceptibility loci contribute to the risk of NPC, possibly though GABBR1 and NEDD9 loss of function. &#169; 2011 Li et al.</description.abstract>
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Author Affiliations
  1. The University of Hong Kong Li Ka Shing Faculty of Medicine
  2. Sun Yat-Sen University