Type 1 diabetes risk genes mediate pancreatic beta cell survival in response to proinflammatory cytokines.
3D chromatin interactions
CRISPR screen
accessible chromatin
beta cell
functional genomics
gene expression
high-throughput reporter assay
human genetics
proinflammatory cytokines
type 1 diabetes
Journal
Cell genomics
ISSN: 2666-979X
Titre abrégé: Cell Genom
Pays: United States
ID NLM: 9918284260106676
Informations de publication
Date de publication:
14 Dec 2022
14 Dec 2022
Historique:
received:
27
12
2021
revised:
17
06
2022
accepted:
15
10
2022
entrez:
13
2
2023
pubmed:
14
2
2023
medline:
14
2
2023
Statut:
epublish
Résumé
We combined functional genomics and human genetics to investigate processes that affect type 1 diabetes (T1D) risk by mediating beta cell survival in response to proinflammatory cytokines. We mapped 38,931 cytokine-responsive candidate
Identifiants
pubmed: 36778047
doi: 10.1016/j.xgen.2022.100214
pii: S2666-979X(22)00167-7
pmc: PMC9903835
doi:
Types de publication
Journal Article
Langues
eng
Pagination
100214Subventions
Organisme : NIDDK NIH HHS
ID : R01 DK122607
Pays : United States
Informations de copyright
© 2022.
Déclaration de conflit d'intérêts
K.J.G. is a consultant of Genentech and holds stock in Neurocrine Biosciences. B.R. is a consultant of Arima Genomics and a co-founder of Epigenome Technologies. P.B. is an employee of Shoreline Bioscience. N.N. is an employee of Guardant Health. E.B. is an employee and shareholder of Aetion. K.K. is an employee of Cartography Bio. Y.Q. is an employee of Sana Biotechnology. M.D. is an employee and shareholder of Seer. J.C. is an employee and shareholder of Pfizer.
Références
Ann N Y Acad Sci. 2013 Apr;1281:16-35
pubmed: 23323860
Genome Biol. 2014;15(12):550
pubmed: 25516281
Oncogene. 2012 Mar 29;31(13):1723-32
pubmed: 21841823
PLoS Comput Biol. 2019 Apr 15;15(4):e1006982
pubmed: 30986246
J Biol Chem. 2021 Jan-Jun;296:100122
pubmed: 33239359
Mol Cell. 2018 Sep 6;71(5):858-871.e8
pubmed: 30078726
Cell. 2014 Jun 19;157(7):1577-90
pubmed: 24949970
Bioinformatics. 2009 Jul 15;25(14):1754-60
pubmed: 19451168
Nat Commun. 2020 Sep 30;11(1):4912
pubmed: 32999275
PLoS One. 2012;7(12):e52249
pubmed: 23284954
Metabolites. 2020 Nov 24;10(12):
pubmed: 33255484
Nat Genet. 2021 Apr;53(4):455-466
pubmed: 33795864
Curr Diab Rep. 2014 Jun;14(6):492
pubmed: 24740729
Bioinformatics. 2014 Apr 1;30(7):923-30
pubmed: 24227677
Bioinformatics. 2011 Jun 15;27(12):1696-7
pubmed: 21486936
Mutat Res. 1992 Sep;275(3-6):405-14
pubmed: 1383781
Cold Spring Harb Perspect Med. 2012 Nov 01;2(11):
pubmed: 23125199
Nucleic Acids Res. 2016 Jul 8;44(W1):W160-5
pubmed: 27079975
Cell Rep. 2019 Jan 15;26(3):788-801.e6
pubmed: 30650367
PLoS Genet. 2016 Dec 9;12(12):e1006466
pubmed: 27935966
Mol Metab. 2019 Jul;25:95-106
pubmed: 31023625
Cell Syst. 2016 Jul;3(1):95-8
pubmed: 27467249
Science. 2017 May 5;356(6337):
pubmed: 28473536
PLoS Genet. 2021 May 13;17(5):e1009531
pubmed: 33983929
Diabetes. 2020 May;69(5):940-953
pubmed: 32086291
J Appl Toxicol. 2019 Apr;39(4):556-570
pubmed: 30484873
PLoS Genet. 2014 Sep 11;10(9):e1004633
pubmed: 25211022
Genome Biol. 2018 Feb 6;19(1):15
pubmed: 29409532
Nat Genet. 2015 Apr;47(4):381-6
pubmed: 25751624
Oncogene. 2007 Mar 15;26(12):1681-92
pubmed: 16983338
Circulation. 2019 Jan 29;139(5):679-693
pubmed: 30586711
Nat Methods. 2019 Dec;16(12):1289-1296
pubmed: 31740819
Results Probl Cell Differ. 1999;23:209-28
pubmed: 9950035
Diabetes. 2011 Dec;60(12):3279-88
pubmed: 21984578
JCI Insight. 2020 Dec 17;5(24):
pubmed: 33232298
Diabetes. 2019 May;68(5):988-1001
pubmed: 30833470
Endocrinology. 1990 Jul;127(1):126-32
pubmed: 2163307
Nature. 2021 Jun;594(7863):398-402
pubmed: 34012112
Nat Commun. 2016 Nov 24;7:13496
pubmed: 27882918
Bioinformatics. 2015 Dec 1;31(23):3847-9
pubmed: 26272984
Nat Rev Endocrinol. 2009 Apr;5(4):219-26
pubmed: 19352320
Diabetes. 2019 Apr;68(4):733-746
pubmed: 30626610
Am J Hum Genet. 2014 Feb 6;94(2):186-97
pubmed: 24439111
Nat Protoc. 2019 Mar;14(3):756-780
pubmed: 30710114
Diabetes. 2015 Oct;64(10):3475-84
pubmed: 26085571
Biochem J. 2019 Nov 15;476(21):3211-3226
pubmed: 31652307
Transplant Proc. 2010 Sep;42(7):2658-61
pubmed: 20832564
Nature. 2021 Mar;591(7848):147-151
pubmed: 33505025
Diabetes. 2009 Jun;58(6):1283-91
pubmed: 19336676
Diabetes. 2010 Feb;59(2):358-74
pubmed: 19934004
Biochem Pharmacol. 1998 Apr 15;55(8):1139-49
pubmed: 9719467
BMC Bioinformatics. 2011 Aug 04;12:323
pubmed: 21816040
Cell. 2013 Jan 17;152(1-2):327-39
pubmed: 23332764
Proc Natl Acad Sci U S A. 2003 May 27;100(11):6688-93
pubmed: 12750472
PLoS Genet. 2018 Apr 5;14(4):e1007275
pubmed: 29621232
Nature. 2012 Sep 6;489(7414):57-74
pubmed: 22955616
Mol Pharm. 2010 Oct 4;7(5):1655-66
pubmed: 20677802
Diabetes. 2018 Sep;67(9):1807-1815
pubmed: 30084829
Bioinformatics. 2010 Jan 1;26(1):139-40
pubmed: 19910308
Nat Methods. 2017 Jun;14(6):629-635
pubmed: 28417999
Nat Commun. 2021 Sep 2;12(1):5242
pubmed: 34475398
Proc Natl Acad Sci U S A. 2005 Oct 25;102(43):15545-50
pubmed: 16199517
Nat Methods. 2017 Oct;14(10):975-978
pubmed: 28825706
Genome Biol. 2008;9(9):R137
pubmed: 18798982
Am J Physiol Endocrinol Metab. 2016 Jul 1;311(1):E186-201
pubmed: 27221116
Nat Commun. 2020 May 22;11(1):2584
pubmed: 32444635
Nat Methods. 2014 Aug;11(8):783-784
pubmed: 25075903
Mol Cell. 2010 May 28;38(4):576-89
pubmed: 20513432
Genome Res. 2012 Sep;22(9):1760-74
pubmed: 22955987
Endocrinology. 2011 Feb;152(2):447-56
pubmed: 21190961
Genome Res. 2010 Jun;20(6):861-73
pubmed: 20378718
Methods Enzymol. 2011;490:71-92
pubmed: 21266244
Bioinformatics. 2013 Jan 1;29(1):15-21
pubmed: 23104886
Diabetologia. 2019 Mar;62(3):459-472
pubmed: 30478640
Nat Methods. 2015 Oct;12(10):931-4
pubmed: 26301843
Nucleic Acids Res. 2018 Jan 4;46(D1):D343-D347
pubmed: 29087517
Diabetologia. 2015 Oct;58(10):2307-16
pubmed: 26099855
iScience. 2019 Nov 22;21:681-694
pubmed: 31733514
Front Biosci (Landmark Ed). 2009 Jan 01;14(2):644-56
pubmed: 19273092
Mol Cell Biol. 2004 Jul;24(13):5721-32
pubmed: 15199129
J Endocrinol. 2017 Jun;233(3):369-379
pubmed: 28438776
Semin Cell Dev Biol. 2011 Oct;22(8):898-905
pubmed: 21821141
Nat Biotechnol. 2018 Jan;36(1):89-94
pubmed: 29227470
Cell Mol Life Sci. 2010 Apr;67(8):1371-81
pubmed: 20127388
Am J Hum Genet. 2007 Sep;81(3):559-75
pubmed: 17701901
Nat Commun. 2018 Apr 19;9(1):1558
pubmed: 29674694
Nat Genet. 2021 Jul;53(7):962-971
pubmed: 34127860
Cell Stem Cell. 2015 Apr 2;16(4):386-99
pubmed: 25842977
Diabetes. 2006 May;55(5):1197-204
pubmed: 16644673
Front Genet. 2020 Sep 01;11:983
pubmed: 33088281
Endocrinology. 2014 Mar;155(3):758-68
pubmed: 24424032
Nat Genet. 2016 May;48(5):519-27
pubmed: 26998692
Bioinformatics. 2009 Aug 15;25(16):2078-9
pubmed: 19505943
Apoptosis. 1998;3(1):1-7
pubmed: 14646512
J Immunol. 2004 May 1;172(9):5714-21
pubmed: 15100317
Nat Genet. 2019 Nov;51(11):1588-1595
pubmed: 31676868
Mol Metab. 2019 Sep;27S:S60-S68
pubmed: 31500832
Hum Mol Genet. 2018 Nov 7;:
pubmed: 30407494
PLoS Genet. 2012;8(3):e1002552
pubmed: 22412385
Endocrinology. 2008 Apr;149(4):1654-65
pubmed: 18187551
J Diabetes Res. 2016;2016:2846570
pubmed: 27843953
Diabetologia. 2009 Nov;52(11):2374-2384
pubmed: 19756487