Quantitative candidate gene association studies of metabolic traits in Han Chinese type 2 diabetes patients

Wei, Fengjiang; Cai, C. Y.; Yu, Pei; Lv, Jia; Ling, Chao; Shi, Wentao; Jiao, Hongxiao; Chang, Baocheng; Yang, Fuhua; Tian, Yuan; Li, M.S.; Wang, Y.H.; Zou, Lei; Shi, Jianying; Chen, L.M.; Li, W.D.

doi:10.4238/2015.november.30.25

Cited by 22 publications

(16 citation statements)

References 36 publications

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“…The complex of the SFI1 gene product and the centrin protein (CETN2) forms contractile filaments that attach to centrosomes during cell division [ 54 ]. In humans, an association of SNPs in the SFI1 gene with levels of glycosylated hemoglobin (a marker for average blood glucose level) has been demonstrated [ 55 ].…”

Section: Discussionmentioning

confidence: 99%

A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments

2017

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BackgroundMany mammals are well adapted to surviving in extremely cold environments. These species have likely accumulated genetic changes that help them efficiently cope with low temperatures. It is not known whether the same genes related to cold adaptation in one species would be under selection in another species. The aims of this study therefore were: to create a compendium of mammalian genes related to adaptations to a low temperature environment; to identify genes related to cold tolerance that have been subjected to independent positive selection in several species; to determine promising candidate genes/pathways/organs for further empirical research on cold adaptation in mammals.ResultsAfter a search for publications containing keywords: “whole genome”, “transcriptome or exome sequencing data”, and “genome-wide genotyping array data” authors looked for information related to genetic signatures ascribable to positive selection in Arctic or Antarctic mammalian species. Publications related to Human, Arctic fox, Yakut horse, Mammoth, Polar bear, and Minke whale were chosen. The compendium of genes that potentially underwent positive selection in >1 of these six species consisted of 416 genes. Twelve of them showed traces of positive selection in three species. Gene ontology term enrichment analysis of 416 genes from the compendium has revealed 13 terms relevant to the scope of this study. We found that enriched terms were relevant to three major groups: terms associated with collagen proteins and the extracellular matrix; terms associated with the anatomy and physiology of cilium; terms associated with docking. We further revealed that genes from compendium were over-represented in the lists of genes expressed in the lung and liver.ConclusionsA compendium combining mammalian genes involved in adaptation to cold environment was designed, based on the intersection of positively selected genes from six Arctic and Antarctic species. The compendium contained 416 genes that have been positively selected in at least two species. However, we did not reveal any positively selected genes that would be related to cold adaptation in all species from our list. But, our work points to several strong candidate genes involved in mechanisms and biochemical pathways related to cold adaptation response in different species.Electronic supplementary materialThe online version of this article (10.1186/s12863-017-0580-9) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 99%

A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments

2017

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“…T2DM is a complex, polygenic disease that results from the interplay of environmental and genetic factors. Candidate gene association high-throughput methods have been carried out to uncover the genetic aspects of the pathogenesis of T2DM ( 6 – 8 ).…”

Section: Introductionmentioning

confidence: 99%

Identification of potential markers for type 2 diabetes mellitus via bioinformatics analysis

Lü

2020

Mol Med Rep

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Type 2 diabetes mellitus (T2dM) is a multifactorial and multigenetic disease, and its pathogenesis is complex and largely unknown. in the present study, microarray data (GSe201966) of β-cell enriched tissue obtained by laser capture microdissection were downloaded, including 10 control and 10 type 2 diabetic subjects. a comprehensive bioinformatics analysis of microarray data in the context of protein-protein interaction (PPi) networks was employed, combined with subcellular location information to mine the potential candidate genes for T2dM and provide further insight on the possible mechanisms involved. First, differential analysis screened 108 differentially expressed genes. Then, 83 candidate genes were identified in the layered network in the context of PPi via network analysis, which were either directly or indirectly linked to T2dM. of those genes obtained through literature retrieval analysis, 27 of 83 were involved with the development of T2dM; however, the rest of the 56 genes need to be verified by experiments. The functional analysis of candidate genes involved in a number of biological activities, demonstrated that 46 upregulated candidate genes were involved in 'inflammatory response' and 'lipid metabolic process', and 37 downregulated candidate genes were involved in 'positive regulation of cell death' and 'positive regulation of cell proliferation'. These candidate genes were also involved in different signaling pathways associated with 'Pi3K/akt signaling pathway', 'Rap1 signaling pathway', 'Ras signaling pathway' and 'MAPK signaling pathway', which are highly associated with the development of T2dM. Furthermore, a microrna (mir)-target gene regulatory network and a transcription factor-target gene regulatory network were constructed based on mirnet and networkanalyst databases, respectively. notably, hsa-mir-192-5p, hsa-mir-124-5p and hsa-mir-335-5p appeared to be involved in T2dM by potentially regulating the expression of various candidate genes, including procollagen c-endopeptidase enhancer 2, connective tissue growth factor and family with sequence similarity 105, member a, protein phosphatase 1 regulatory inhibitor subunit 1 a and cc motif chemokine receptor 4. Smad5 and Bcl6, as transcription factors, are regulated by ankyrin repeat domain 23 and transmembrane protein 37, respectively, which might also be used in the molecular diagnosis and targeted therapy of T2dM. Taken together, the results of the present study may offer insight for future genomic-based individualized treatment of T2dM and help determine the underlying molecular mechanisms that lead to T2dM.

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“…Environmental and genetic factors both contribute to the development of type 2 diabetes mellitus (Mrozikiewicz-Rakowska et al, 2015;Pearson, 2015). Previous genome-wide association studies have implicated many loci in the onset, prognosis, and severity of type 2 diabetes mellitus (Adeyemo et al, 2015;Wei et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

Association between transcription factor 7-like 2 genetic polymorphisms and development of type 2 diabetes in a Chinese population

Jia

2016

Genet. Mol. Res.

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ABSTRACT. We conducted a hospital-based case-control study to evaluate the relationship between the transcription factor 7-like 2 (TCF7L2) rs7903146 polymorphism and type 2 diabetes mellitus risk in a Chinese population. Genotyping of TCF7L2 rs7903146 was carried out using the polymerase chain reaction-restriction fragment length polymorphism method. A chi-square test revealed a statistically significant difference between the distributions of rs7903146 genotypes in type 2 diabetes mellitus patient and control groups (chi-square = 10.49, P = 0.005). Using unconditional logistic regression analysis, we observed that the TT genotype of this polymorphism was significantly correlated with increased risk of developing type 2 diabetes mellitus compared to the CC genotype [odds ratio (OR) = 2.31, 95% confidence interval (CI) = 1.33-4.04]. Furthermore, we found that the rs7903146 sequence variation was also significantly associated with susceptibility to this disease under dominant (OR = 1.58, 95%CI = 1.09-2.28) and recessive models (OR = 2.11, 95%CI = 1.25-3.62). We conclude that the TCF7L2 rs7903146 genetic polymorphism is independently associated with the risk of developing type 2 diabetes mellitus under co-dominant, dominant, and recessive models.

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Quantitative candidate gene association studies of metabolic traits in Han Chinese type 2 diabetes patients

Cited by 22 publications

References 36 publications

A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments

A compendium and functional characterization of mammalian genes involved in adaptation to Arctic or Antarctic environments

Identification of potential markers for type 2 diabetes mellitus via bioinformatics analysis

Association between transcription factor 7-like 2 genetic polymorphisms and development of type 2 diabetes in a Chinese population

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