Identification of hub genes associated with postmenopausal osteoporosis by Gibbs sampling method.
Gibbs sampling
Markov chain
hub gene
pathway gene set
postmenopausal osteoporosis
Journal
Experimental and therapeutic medicine
ISSN: 1792-0981
Titre abrégé: Exp Ther Med
Pays: Greece
ID NLM: 101531947
Informations de publication
Date de publication:
Apr 2019
Apr 2019
Historique:
received:
04
06
2018
accepted:
03
01
2019
entrez:
26
3
2019
pubmed:
25
3
2019
medline:
25
3
2019
Statut:
ppublish
Résumé
Underlying pivotal pathways were identified to reveal potential key genes correlated with postmenopausal osteoporosis (PMOP). The pathways were enriched by Kyoto Encyclopedia of Genes and Genomes (KEGG) with genes intersection greater than 5 based on gene expression profile data, and the acquired pathways were then transformed to Markov chain (MC). Gibbs sampling was conducted to obtain a new MC. Moreover, the average probabilities of each pathway in normal and PMOP were computed via an MC Monte Carlo (MCMC) algorithm, and differential pathways were identified based on probabilities more than 0.7. In addition, frequencies of appearance of pathway genes were counted via MCMC and the hub genes were achieved with the probabilities of gene expression efficiencies in two states. Judging by the gene intersection more than 5, overall 280 pathways were determined. After Gibbs sampling, 2 differential pathways were obtained on the basis of probabilities more than 0.7. Moreover, the hub genes comprising
Identifiants
pubmed: 30906457
doi: 10.3892/etm.2019.7231
pii: ETM-0-0-7231
pmc: PMC6425251
doi:
Types de publication
Journal Article
Langues
eng
Pagination
2675-2681Références
Br J Pharmacol. 2004 May;142(1):89-96
pubmed: 15023859
J Bone Miner Res. 2005 Nov;20(11):1912-20
pubmed: 16234963
Osteoporos Int. 2007 Apr;18(4):505-12
pubmed: 17109061
Climacteric. 2007 Feb;10 Suppl 1:19-24
pubmed: 17364594
Arch Orthop Trauma Surg. 2008 Oct;128(10):1073-9
pubmed: 18193436
Endocrinology. 2009 Aug;150(8):3735-41
pubmed: 19342458
J Biol Chem. 2009 Jul 10;284(28):19090-100
pubmed: 19439414
Bone. 2010 Mar;46(3):604-12
pubmed: 19922823
Korean Circ J. 2010 Nov;40(11):573-80
pubmed: 21217934
Biomark Med. 2012 Apr;6(2):141-50
pubmed: 22448788
Cell Motil Cytoskeleton. 1990;17(3):250-63
pubmed: 2268876
Heart. 2013 Apr;99(8):528-33
pubmed: 23315610
Biomed Rep. 2013 Jan;1(1):129-133
pubmed: 24648908
Clin Cases Miner Bone Metab. 2014 May;11(2):117-9
pubmed: 25285139
Mol Med Rep. 2015 Nov;12(5):6584-90
pubmed: 26329309
Aging Clin Exp Res. 2016 Dec;28(6):1067-1074
pubmed: 26676054
Mol Med Rep. 2016 Mar;13(3):2485-91
pubmed: 26846191
Rom J Morphol Embryol. 2016;57(1):121-30
pubmed: 27151697
Genet Mol Res. 2016 Apr 28;15(2):
pubmed: 27173293
Ginekol Pol. 2016;87(5):347-52
pubmed: 27304650
Endocrinol Metab Clin North Am. 2017 Mar;46(1):207-219
pubmed: 28131134
Front Physiol. 2017 Feb 09;8:70
pubmed: 28232805
Taiwan J Obstet Gynecol. 2017 Apr;56(2):165-170
pubmed: 28420501
Med Arch. 2017 Feb;71(1):25-28
pubmed: 28428669
Curr Proteomics. 2017 Jun;14(2):130-137
pubmed: 28579927
Gene. 2017 Sep 5;627:549-555
pubmed: 28669927
Fam Cancer. 2018 Oct;17(4):577-585
pubmed: 29116431
Nucleic Acids Res. 1999 Jan 1;27(1):29-34
pubmed: 9847135