Integrated analysis of different microarray studies to identify candidate genes in type 1 diabetes

2016 ◽  
Vol 9 (2) ◽  
pp. 149-157 ◽  
Author(s):  
Xiaowei Jia ◽  
Haotian Yu ◽  
Hui Zhang ◽  
Yanfang Si ◽  
Dengmei Tian ◽  
...  
2016 ◽  
Vol 2016 ◽  
pp. 1-8 ◽  
Author(s):  
Caroline A. Brorsson ◽  
Lotte B. Nielsen ◽  
Marie Louise Andersen ◽  
Simranjeet Kaur ◽  
Regine Bergholdt ◽  
...  

Genome-wide association studies (GWAS) have identified over 40 type 1 diabetes risk loci. The clinical impact of these loci onβ-cell function during disease progression is unknown. We aimed at testing whether a genetic risk score could predict glycemic control and residualβ-cell function in type 1 diabetes (T1D). As gene expression may represent an intermediate phenotype between genetic variation and disease, we hypothesized that genes within T1D loci which are expressed in islets and transcriptionally regulated by proinflammatory cytokines would be the best predictors of disease progression. Two-thirds of 46 GWAS candidate genes examined were expressed in human islets, and 11 of these significantly changed expression levels following exposure to proinflammatory cytokines (IL-1β+ IFNγ+ TNFα) for 48 h. Using the GWAS single nucleotide polymorphisms (SNPs) from each locus, we constructed a genetic risk score based on the cumulative number of risk alleles carried in children with newly diagnosed T1D. With each additional risk allele carried, HbA1c levels increased significantly within first year after diagnosis. Network and gene ontology (GO) analyses revealed that several of the 11 candidate genes have overlapping biological functions and interact in a common network. Our results may help predict disease progression in newly diagnosed children with T1D which can be exploited for optimizing treatment.


2009 ◽  
Vol 19 (1) ◽  
pp. 135-146 ◽  
Author(s):  
Maikel L. Colli ◽  
Fabrice Moore ◽  
Esteban N. Gurzov ◽  
Fernanda Ortis ◽  
Decio L. Eizirik

Genomics Data ◽  
2015 ◽  
Vol 5 ◽  
pp. 184-188 ◽  
Author(s):  
Gregory J. Berry ◽  
Christine Frielle ◽  
Robert M. Brucklacher ◽  
Anna C. Salzberg ◽  
Hanspeter Waldner

Author(s):  
Rachana Haliyur ◽  
John T Walker ◽  
May Sanyoura ◽  
Conrad V Reihsmann ◽  
Shristi Shrestha ◽  
...  

Abstract Clinical and pathologic heterogeneity in type 1 diabetes is increasingly being recognized. Findings in the islets and pancreas of a 22-year-old male with 8 years of type 1 diabetes were discordant with expected results and clinical history (islet autoantibodies negative, A1C 11.9%) and led to comprehensive investigation to define the functional, molecular, genetic, and architectural features of the islets and pancreas in order to understand the cause of the donor’s diabetes. Examination of the donor’s pancreatic tissue found substantial, but reduced, β cell mass with some islets devoid of β cells (29.3% of 311 islets) while other islets had many β cells. Surprisingly, isolated islets from the donor pancreas had substantial insulin secretion that is uncommon for type 1 diabetes of this duration. Targeted and whole genome sequencing and analysis did not uncover monogenic causes of diabetes but did identify high-risk HLA haplotypes and a genetic risk score suggestive of type 1 diabetes. Further review of pancreatic tissue found islet inflammation and some previously described α cell molecular features seen in type 1 diabetes. By integrating analysis of isolated islets, histological evaluation of the pancreas, and genetic information, we concluded that the donor’s clinical insulin deficiency was most likely the result autoimmune-mediated β cell loss, but that the constellation of findings was not typical for type 1 diabetes. This report highlights the pathologic and functional heterogeneity that can be present in type 1 diabetes.


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