Islet Gene View-a tool to facilitate islet research

Olof Asplund; Petter Storm; Vikash Chandra; Gad Hatem; Emilia Ottosson-Laakso; Dina Mansour-Aly; Ulrika Krus; Hazem Ibrahim; Emma Ahlqvist; Tiinamaija Tuomi; Erik Renström; Olle Korsgren; Nils Wierup; Mark Ibberson; Michele Solimena; Piero Marchetti; Claes Wollheim; Isabella Artner; Hindrik Mulder; Ola Hansson; Timo Otonkoski; Leif Groop; Rashmi B Prasad

doi:10.26508/lsa.202201376

Islet Gene View-a tool to facilitate islet research

Olof Asplund, Petter Storm, Vikash Chandra, Gad Hatem, Emilia Ottosson-Laakso, Dina Mansour-Aly, Ulrika Krus, Hazem Ibrahim, Emma Ahlqvist, Tiinamaija Tuomi, Erik Renström, Olle Korsgren, Nils Wierup, Mark Ibberson, Michele Solimena, Piero Marchetti, Claes Wollheim, Isabella Artner, Hindrik Mulder, Ola HanssonTimo Otonkoski, Leif Groop, Rashmi B Prasad

Forskningsoutput: Tidskriftsbidrag › Artikel i vetenskaplig tidskrift › Peer review

Sammanfattning

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.

Originalspråk	engelska
Artikelnummer	e202201376
Tidskrift	Life Science Alliance
Volym	5
Nummer	12
Tidigt onlinedatum	2022
DOI	https://doi.org/10.26508/lsa.202201376
Status	Published - 2022

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Ämnesklassifikation (UKÄ)

Endokrinologi och diabetes

FN:s Globala mål

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10.26508/lsa.202201376Licens: CC BY

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Asplund, O., Storm, P., Chandra, V., Hatem, G., Ottosson-Laakso, E., Mansour-Aly, D., Krus, U., Ibrahim, H., Ahlqvist, E., Tuomi, T., Renström, E., Korsgren, O., Wierup, N., Ibberson, M., Solimena, M., Marchetti, P., Wollheim, C., Artner, I., Mulder, H., ... Prasad, R. B. (2022). Islet Gene View-a tool to facilitate islet research. Life Science Alliance, 5(12), Artikel e202201376. https://doi.org/10.26508/lsa.202201376

@article{6578fb3ce71f4d4bae6e4d28314eebe8,

title = "Islet Gene View-a tool to facilitate islet research",

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 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.",

author = "Olof Asplund and Petter Storm and Vikash Chandra and Gad Hatem and Emilia Ottosson-Laakso and Dina Mansour-Aly and Ulrika Krus and Hazem Ibrahim and Emma Ahlqvist and Tiinamaija Tuomi and Erik Renstr{\"o}m and Olle Korsgren and Nils Wierup and Mark Ibberson and Michele Solimena and Piero Marchetti and Claes Wollheim and Isabella Artner and Hindrik Mulder and Ola Hansson and Timo Otonkoski and Leif Groop and Prasad, {Rashmi B}",

note = "{\textcopyright} 2022 Asplund et al.",

year = "2022",

doi = "10.26508/lsa.202201376",

language = "English",

volume = "5",

journal = "Life Science Alliance",

issn = "2575-1077",

publisher = "Rockefeller University Press",

number = "12",

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Asplund, O , Storm, P, Chandra, V, Hatem, G, Ottosson-Laakso, E, Mansour-Aly, D, Krus, U, Ibrahim, H, Ahlqvist, E , Tuomi, T , Renström, E, Korsgren, O, Wierup, N, Ibberson, M, Solimena, M, Marchetti, P, Wollheim, C , Artner, I , Mulder, H , Hansson, O, Otonkoski, T, Groop, L & Prasad, RB 2022, 'Islet Gene View-a tool to facilitate islet research', Life Science Alliance, vol. 5, nr. 12, e202201376. https://doi.org/10.26508/lsa.202201376

TY - JOUR

T1 - Islet Gene View-a tool to facilitate islet research

AU - Asplund, Olof

AU - Storm, Petter

AU - Chandra, Vikash

AU - Hatem, Gad

AU - Ottosson-Laakso, Emilia

AU - Mansour-Aly, Dina

AU - Krus, Ulrika

AU - Ibrahim, Hazem

AU - Ahlqvist, Emma

AU - Tuomi, Tiinamaija

AU - Renström, Erik

AU - Korsgren, Olle

AU - Wierup, Nils

AU - Ibberson, Mark

AU - Solimena, Michele

AU - Marchetti, Piero

AU - Wollheim, Claes

AU - Artner, Isabella

AU - Mulder, Hindrik

AU - Hansson, Ola

AU - Otonkoski, Timo

AU - Groop, Leif

AU - Prasad, Rashmi B

PY - 2022

Y1 - 2022

N2 - 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.

AB - 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.

U2 - 10.26508/lsa.202201376

DO - 10.26508/lsa.202201376

M3 - Article

C2 - 35948367

SN - 2575-1077

VL - 5

JO - Life Science Alliance

JF - Life Science Alliance

IS - 12

M1 - e202201376

ER -

Islet Gene View-a tool to facilitate islet research

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Bibliografisk information

Ämnesklassifikation (UKÄ)

FN:s Globala mål

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