A Microglial Signature Directing Human Aging and Neurodegeneration-Related Gene Networks.
Alzheimer
Parkinson
WGCNA
aging
bioinformatics
gene networks
microglia
neurodegeneration
Journal
Frontiers in neuroscience
ISSN: 1662-4548
Titre abrégé: Front Neurosci
Pays: Switzerland
ID NLM: 101478481
Informations de publication
Date de publication:
2019
2019
Historique:
received:
31
08
2018
accepted:
03
01
2019
entrez:
9
2
2019
pubmed:
9
2
2019
medline:
9
2
2019
Statut:
epublish
Résumé
Aging is regarded as a major risk factor for neurodegenerative diseases. Thus, a better understanding of the similarities between the aging process and neurodegenerative diseases at the cellular and molecular level may reveal better understanding of this detrimental relationship. In the present study, we mined publicly available gene expression datasets from healthy individuals and patients affected by neurodegenerative diseases (Alzheimer's disease, Parkinson's disease, and Huntington's disease) across a broad age spectrum and compared those with mouse aging and mouse cell-type specific gene expression profiles. We performed weighted gene co-expression network analysis (WGCNA) and found a gene network strongly related with both aging and neurodegenerative diseases. This network was significantly enriched with a microglial signature as imputed from cell type-specific sequencing data. Since mouse models are extensively used for the study of human diseases, we further compared these human gene regulatory networks with age-specific mouse brain transcriptomes. We discovered significantly preserved networks with both human aging and human disease and identified 17 shared genes in the top-ranked immune/microglia module, among which we found five human hub genes
Identifiants
pubmed: 30733664
doi: 10.3389/fnins.2019.00002
pmc: PMC6353788
doi:
Types de publication
Journal Article
Langues
eng
Pagination
2Subventions
Organisme : NEI NIH HHS
ID : T32 EY007092
Pays : United States
Références
Essays Biochem. 2000;35:33-42
pubmed: 12471888
Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17973-8
pubmed: 17101986
Bioinformatics. 2007 Jul 15;23(14):1846-7
pubmed: 17496320
Mamm Genome. 2007 Jul;18(6-7):463-72
pubmed: 17668265
Nat Cell Biol. 2007 Sep;9(9):993-9
pubmed: 17762889
PLoS Genet. 2007 Sep;3(9):1724-35
pubmed: 17907809
Bioinformatics. 2008 Jul 1;24(13):1547-8
pubmed: 18467348
BMC Bioinformatics. 2008 Dec 29;9:559
pubmed: 19114008
Bioinformatics. 2009 May 1;25(9):1105-11
pubmed: 19289445
Bioinformatics. 2009 Aug 15;25(16):2078-9
pubmed: 19505943
PLoS Genet. 2009 Sep;5(9):e1000642
pubmed: 19750004
Hum Mol Genet. 2009 Oct 15;18(R2):R137-45
pubmed: 19808789
Bioinformatics. 2010 Jan 1;26(1):139-40
pubmed: 19910308
Proc Natl Acad Sci U S A. 2010 Jul 13;107(28):12698-703
pubmed: 20616000
Ageing Res Rev. 2010 Nov;9 Suppl 1:S36-46
pubmed: 20732460
Nucleic Acids Res. 2011 Jan;39(Database issue):D19-21
pubmed: 21062823
Philos Trans R Soc Lond B Biol Sci. 2011 Jan 12;366(1561):64-70
pubmed: 21115531
PLoS Comput Biol. 2011 Jan 20;7(1):e1001057
pubmed: 21283776
Amino Acids. 2011 May;40(5):1297-303
pubmed: 21390530
J Leukoc Biol. 2012 Jan;91(1):35-46
pubmed: 21965174
Database (Oxford). 2011 Nov 13;2011:bar049
pubmed: 22083790
Bioinformatics. 2012 Mar 15;28(6):882-3
pubmed: 22257669
Nat Protoc. 2012 Mar 01;7(3):562-78
pubmed: 22383036
Front Plant Sci. 2011 Jul 25;2:34
pubmed: 22645531
Commun Integr Biol. 2012 May 1;5(3):294-6
pubmed: 22896797
Curr Biol. 2012 Sep 11;22(17):R741-52
pubmed: 22975005
Nature. 2012 Sep 20;489(7416):391-399
pubmed: 22996553
Neurobiol Aging. 2013 Apr;34(4):1199-209
pubmed: 23177596
Cell. 2013 Apr 25;153(3):707-20
pubmed: 23622250
Am J Neurodegener Dis. 2013 Sep 18;2(3):145-75
pubmed: 24093081
Prog Neurobiol. 2014 Jun;117:20-40
pubmed: 24548606
Mol Syst Biol. 2014 Jul 30;10:743
pubmed: 25080494
J Neurosci. 2014 Sep 3;34(36):11929-47
pubmed: 25186741
Bioinformatics. 2015 Jan 15;31(2):166-9
pubmed: 25260700
Front Cell Neurosci. 2014 Nov 13;8:373
pubmed: 25431548
Biomed Res Int. 2014;2014:543673
pubmed: 25525598
Nucleic Acids Res. 2015 Apr 20;43(7):e47
pubmed: 25605792
PLoS Biol. 2016 Jan 11;14(1):e1002342
pubmed: 26752627
Annu Rev Pathol. 2016 May 23;11:221-50
pubmed: 26907528
Aging Dis. 2016 Mar 15;7(2):111-3
pubmed: 27114843
Ageing Res Rev. 2016 Dec;32:2-12
pubmed: 27125853
Front Genet. 2016 Sep 28;7:169
pubmed: 27733864
Front Aging Neurosci. 2017 Jan 31;9:8
pubmed: 28197095
Ann Neurol. 2017 Apr;81(4):479-484
pubmed: 28198092
Int J Mol Sci. 2017 Mar 09;18(3):
pubmed: 28282924
BMC Genomics. 2017 Mar 16;18(1):237
pubmed: 28302071
Nat Rev Neurosci. 2017 Jul;18(7):419-434
pubmed: 28515434
Trends Genet. 2017 Jul;33(7):436-447
pubmed: 28528721
J Neurotrauma. 2018 Jan 1;35(1):118-129
pubmed: 28599600
Bioinformatics. 2017 Jun 9;:null
pubmed: 28605449
Cell. 2017 Jun 15;169(7):1177-1186
pubmed: 28622505
Handb Clin Neurol. 2017;145:309-323
pubmed: 28987179
Nucleic Acids Res. 2018 Jan 4;46(D1):D754-D761
pubmed: 29155950
Lancet Neurol. 2018 Jun;17(6):548-558
pubmed: 29724592
Cell Metab. 2018 Jun 5;27(6):1176-1199
pubmed: 29874566
Mol Psychiatry. 2018 Oct 3;:null
pubmed: 30283032