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Islet Gene View-a tool to facilitate islet research

Asplund, Olof LU ; Storm, Petter LU orcid ; Chandra, Vikash ; Hatem, Gad LU ; Ottosson-Laakso, Emilia LU ; Mansour-Aly, Dina LU ; Krus, Ulrika LU ; Ibrahim, Hazem ; Ahlqvist, Emma LU and Tuomi, Tiinamaija LU orcid , et al. (2022) In Life Science Alliance 5(12).
Abstract

Characterization of gene expression in pancreatic islets and its alteration in type 2 diabetes (T2D) are vital in understanding islet function and T2D pathogenesis. We leveraged RNA sequencing and genome-wide genotyping in islets from 188 donors to create the Islet Gene View (IGW) platform to make this information easily accessible to the scientific community. Expression data were related to islet phenotypes, diabetes status, other islet-expressed genes, islet hormone-encoding genes and for expression in insulin target tissues. The IGW web application produces output graphs for a particular gene of interest. In IGW, 284 differentially expressed genes (DEGs) were identified in T2D donor islets compared with controls. Forty percent of... (More)

Characterization of gene expression in pancreatic islets and its alteration in type 2 diabetes (T2D) are vital in understanding islet function and T2D pathogenesis. We leveraged RNA sequencing and genome-wide genotyping in islets from 188 donors to create the Islet Gene View (IGW) platform to make this information easily accessible to the scientific community. Expression data were related to islet phenotypes, diabetes status, other islet-expressed genes, islet hormone-encoding genes and for expression in insulin target tissues. The IGW web application produces output graphs for a particular gene of interest. In IGW, 284 differentially expressed genes (DEGs) were identified in T2D donor islets compared with controls. Forty percent of DEGs showed cell-type enrichment and a large proportion significantly co-expressed with islet hormone-encoding genes; glucagon (GCG, 56%), amylin (IAPP, 52%), insulin (INS, 44%), and somatostatin (SST, 24%). Inhibition of two DEGs, UNC5D and SERPINE2, impaired glucose-stimulated insulin secretion and impacted cell survival in a human β-cell model. The exploratory use of IGW could help designing more comprehensive functional follow-up studies and serve to identify therapeutic targets in T2D.

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organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Life Science Alliance
volume
5
issue
12
article number
e202201376
publisher
Rockefeller University Press
external identifiers
  • pmid:35948367
  • scopus:85136339230
ISSN
2575-1077
DOI
10.26508/lsa.202201376
language
English
LU publication?
yes
additional info
© 2022 Asplund et al.
id
6578fb3c-e71f-4d4b-ae6e-4d28314eebe8
date added to LUP
2022-08-12 16:08:51
date last changed
2024-06-27 08:51:32
@article{6578fb3c-e71f-4d4b-ae6e-4d28314eebe8,
  abstract     = {{<p>Characterization of gene expression in pancreatic islets and its alteration in type 2 diabetes (T2D) are vital in understanding islet function and T2D pathogenesis. We leveraged RNA sequencing and genome-wide genotyping in islets from 188 donors to create the Islet Gene View (IGW) platform to make this information easily accessible to the scientific community. Expression data were related to islet phenotypes, diabetes status, other islet-expressed genes, islet hormone-encoding genes and for expression in insulin target tissues. The IGW web application produces output graphs for a particular gene of interest. In IGW, 284 differentially expressed genes (DEGs) were identified in T2D donor islets compared with controls. Forty percent of DEGs showed cell-type enrichment and a large proportion significantly co-expressed with islet hormone-encoding genes; glucagon (GCG, 56%), amylin (IAPP, 52%), insulin (INS, 44%), and somatostatin (SST, 24%). Inhibition of two DEGs, UNC5D and SERPINE2, impaired glucose-stimulated insulin secretion and impacted cell survival in a human β-cell model. The exploratory use of IGW could help designing more comprehensive functional follow-up studies and serve to identify therapeutic targets in T2D.</p>}},
  author       = {{Asplund, Olof and Storm, Petter and Chandra, Vikash and Hatem, Gad and Ottosson-Laakso, Emilia and Mansour-Aly, Dina and Krus, Ulrika and Ibrahim, Hazem and Ahlqvist, Emma and Tuomi, Tiinamaija and Renström, Erik and Korsgren, Olle and Wierup, Nils and Ibberson, Mark and Solimena, Michele and Marchetti, Piero and Wollheim, Claes and Artner, Isabella and Mulder, Hindrik and Hansson, Ola and Otonkoski, Timo and Groop, Leif and Prasad, Rashmi B}},
  issn         = {{2575-1077}},
  language     = {{eng}},
  number       = {{12}},
  publisher    = {{Rockefeller University Press}},
  series       = {{Life Science Alliance}},
  title        = {{Islet Gene View-a tool to facilitate islet research}},
  url          = {{http://dx.doi.org/10.26508/lsa.202201376}},
  doi          = {{10.26508/lsa.202201376}},
  volume       = {{5}},
  year         = {{2022}},
}