Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature

Saik, Olga V, Demenkov PS, Ivanisenko, Timofey V, Bragina EY, Freidin MB, Dosenko VE, Zolotareva O, Choynzonov EL, Hofestädt R, Ivanisenko VA (2018)
JOURNAL OF INTEGRATIVE BIOINFORMATICS 15(4): 20180054.

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Zeitschriftenaufsatz | Veröffentlicht | Englisch
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Abstract / Bemerkung
Comorbid states of diseases significantly complicate diagnosis and treatment. Molecular mechanisms of comorbid states of asthma and hypertension are still poorly understood. Prioritization is a way for identifying genes involved in complex phenotypic traits. Existing methods of prioritization consider genetic, expression and evolutionary data, molecular-genetic networks and other. In the case of molecular-genetic networks, as a rule, protein-protein interactions and KEGG networks are used. ANDSystem allows reconstructing associative gene networks, which include more than 20 types of interactions, including protein-protein interactions, expression regulation, transport, catalysis, etc. In this work, a set of genes has been prioritized to find genes potentially involved in asthma and hypertension comorbidity. The prioritization was carried out using well-known methods (ToppGene and Endeavor) and a cross-talk centrality criterion, calculated by analysis of associative gene networks from ANDSystem. The identified genes, including ILIA, CD40LG, STAT3, IL15, FAS, APP, TLR2, C3, IL13 and CXCL10, may be involved in the molecular mechanisms of comorbid asthma/hypertension. An analysis of the dynamics of the frequency of mentioning the most priority genes in scientific publications revealed that the top 100 priority genes are significantly enriched with genes with increased positive dynamics, which may be a positive sign for further studies of these genes.
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Zeitschriftentitel
JOURNAL OF INTEGRATIVE BIOINFORMATICS
Band
15
Ausgabe
4
Art.-Nr.
20180054
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PUB-ID

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Saik, Olga V, Demenkov PS, Ivanisenko, Timofey V, et al. Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature. JOURNAL OF INTEGRATIVE BIOINFORMATICS. 2018;15(4): 20180054.
Saik, Olga, V., Demenkov, P. S., Ivanisenko, Timofey, V., Bragina, E. Y., Freidin, M. B., Dosenko, V. E., Zolotareva, O., et al. (2018). Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature. JOURNAL OF INTEGRATIVE BIOINFORMATICS, 15(4), 20180054. doi:10.1515/jib-2018-0054
Saik, Olga, V., Demenkov, P. S., Ivanisenko, Timofey, V., Bragina, E. Y., Freidin, M. B., Dosenko, V. E., Zolotareva, O., Choynzonov, E. L., Hofestädt, R., and Ivanisenko, V. A. (2018). Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature. JOURNAL OF INTEGRATIVE BIOINFORMATICS 15:20180054.
Saik, Olga, V., et al., 2018. Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature. JOURNAL OF INTEGRATIVE BIOINFORMATICS, 15(4): 20180054.
V. Saik, Olga, et al., “Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature”, JOURNAL OF INTEGRATIVE BIOINFORMATICS, vol. 15, 2018, : 20180054.
Saik, Olga, V., Demenkov, P.S., Ivanisenko, Timofey, V., Bragina, E.Y., Freidin, M.B., Dosenko, V.E., Zolotareva, O., Choynzonov, E.L., Hofestädt, R., Ivanisenko, V.A.: Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature. JOURNAL OF INTEGRATIVE BIOINFORMATICS. 15, : 20180054 (2018).
Saik, Olga, V, Demenkov, Pavel S., Ivanisenko, Timofey, V, Bragina, Elena Yu, Freidin, Maxim B., Dosenko, Victor E., Zolotareva, Olga, Choynzonov, Evgeniy L., Hofestädt, Ralf, and Ivanisenko, Vladimir A. “Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature”. JOURNAL OF INTEGRATIVE BIOINFORMATICS 15.4 (2018): 20180054.

45 References

Daten bereitgestellt von Europe PubMed Central.

Year in review 2016: Chronic obstructive pulmonary disease and asthma.
Lim TK, Ko FW, Benton MJ, Berge MV, Mak J., Respirology 22(4), 2017
PMID: 28371172
Advances in the Genetics of Hypertension: The Effect of Rare Variants.
Russo A, Di Gaetano C, Cugliari G, Matullo G., Int J Mol Sci 19(3), 2018
PMID: 29495593
The comorbidity burden of the treated asthma patient population in British Columbia.
Prosser R, Carleton B, Smith A., Chronic Dis Can 30(2), 2010
PMID: 20302685
Asthma predicts cardiovascular disease events: the multi-ethnic study of atherosclerosis.
Tattersall MC, Guo M, Korcarz CE, Gepner AD, Kaufman JD, Liu KJ, Barr RG, Donohue KM, McClelland RL, Delaney JA, Stein JH., Arterioscler. Thromb. Vasc. Biol. 35(6), 2015
PMID: 25908767
Prevalence of Comorbidities in Asthma and Nonasthma Patients: A Meta-analysis.
Su X, Ren Y, Li M, Zhao X, Kong L, Kang J., Medicine (Baltimore) 95(22), 2016
PMID: 27258489
Excessive leukotriene B4 in nucleus tractus solitarii is prohypertensive in spontaneously hypertensive rats.
Waki H, Hendy EB, Hindmarch CC, Gouraud S, Toward M, Kasparov S, Murphy D, Paton JF., Hypertension 61(1), 2012
PMID: 23172924
Hypertension as an autoimmune and inflammatory disease.
Solak Y, Afsar B, Vaziri ND, Aslan G, Yalcin CE, Covic A, Kanbay M., Hypertens. Res. 39(8), 2016
PMID: 27053010
Treatment of allergic rhinitis can improve blood pressure control.
Magen E, Yosefy C, Viskoper RJ, Mishal J., J Hum Hypertens 20(11), 2006
PMID: 16967045
Polymorphisms in signal transducer and activator of transcription 3 and lung function in asthma.
Litonjua AA, Tantisira KG, Lake S, Lazarus R, Richter BG, Gabriel S, Silverman ES, Weiss ST., Respir. Res. 6(), 2005
PMID: 15935090
Airway epithelial STAT3 is required for allergic inflammation in a murine model of asthma.
Simeone-Penney MC, Severgnini M, Tu P, Homer RJ, Mariani TJ, Cohn L, Simon AR., J. Immunol. 178(10), 2007
PMID: 17475846
Coronary artery abnormalities in Hyper-IgE syndrome.
Freeman AF, Avila EM, Shaw PA, Davis J, Hsu AP, Welch P, Matta JR, Hadigan C, Pettigrew RI, Holland SM, Gharib AM., J. Clin. Immunol. 31(3), 2011
PMID: 21494893
Genetic susceptibility to salt-sensitive hypertension in a Han Chinese population: a validation study of candidate genes.
Liu Z, Qi H, Liu B, Liu K, Wu J, Cao H, Zhang J, Yan Y, He Y, Zhang L., Hypertens. Res. 40(10), 2017
PMID: 28446801
Identification of allelic variants of pendrin (SLC26A4) with loss and gain of function.
Dossena S, Bizhanova A, Nofziger C, Bernardinelli E, Ramsauer J, Kopp P, Paulmichl M., Cell. Physiol. Biochem. 28(3), 2011
PMID: 22116359
STAT6 links IL-4/IL-13 stimulation with pendrin expression in asthma and chronic obstructive pulmonary disease.
Nofziger C, Vezzoli V, Dossena S, Schonherr T, Studnicka J, Nofziger J, Vanoni S, Stephan S, Silva ME, Meyer G, Paulmichl M., Clin. Pharmacol. Ther. 90(3), 2011
PMID: 21814192
Resistance to hypertension and high Cl- excretion in humans with SLC26A4 mutations.
Kim BG, Yoo TH, Yoo JE, Seo YJ, Jung J, Choi JY., Clin. Genet. 91(3), 2016
PMID: 27090054
Novel candidate genes important for asthma and hypertension comorbidity revealed from associative gene networks.
Saik OV, Demenkov PS, Ivanisenko TV, Bragina EY, Freidin MB, Goncharova IA, Dosenko VE, Zolotareva OI, Hofestaedt R, Lavrik IN, Rogaev EI, Ivanisenko VA., BMC Med Genomics 11(Suppl 1), 2018
PMID: 29504915
ANDVisio: a new tool for graphic visualization and analysis of literature mined associative gene networks in the ANDSystem.
Demenkov PS, Ivanisenko TV, Kolchanov NA, Ivanisenko VA., In Silico Biol. (Gedrukt) 11(3-4), 2011
PMID: 22935968
ANDSystem: an Associative Network Discovery System for automated literature mining in the field of biology.
Ivanisenko VA, Saik OV, Ivanisenko NV, Tiys ES, Ivanisenko TV, Demenkov PS, Kolchanov NA., BMC Syst Biol 9 Suppl 2(), 2015
PMID: 25881313
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources.
Huang da W, Sherman BT, Lempicki RA., Nat Protoc 4(1), 2009
PMID: 19131956
Improved human disease candidate gene prioritization using mouse phenotype.
Chen J, Xu H, Aronow BJ, Jegga AG., BMC Bioinformatics 8(), 2007
PMID: 17939863
Candidate gene prioritization with Endeavour.
Tranchevent LC, Ardeshirdavani A, ElShal S, Alcaide D, Aerts J, Auboeuf D, Moreau Y., Nucleic Acids Res. 44(W1), 2016
PMID: 27131783
AmiGO: online access to ontology and annotation data.
Carbon S, Ireland A, Mungall CJ, Shu S, Marshall B, Lewis S; AmiGO Hub; Web Presence Working Group, Ireland A, Lomax J, Carbon S, Mungall C, Hitz B, Balakrishnan R, Dolan M, Wood V, Hong E, Gaudet P., Bioinformatics 25(2), 2008
PMID: 19033274
Heme mediated STAT3 activation in severe malaria.
Liu M, Amodu AS, Pitts S, Patrickson J, Hibbert JM, Battle M, Ofori-Acquah SF, Stiles JK., PLoS ONE 7(3), 2012
PMID: 22479586
Cooperation between STAT3 and c-jun suppresses Fas transcription.
Ivanov VN, Bhoumik A, Krasilnikov M, Raz R, Owen-Schaub LB, Levy D, Horvath CM, Ronai Z., Mol. Cell 7(3), 2001
PMID: 11463377
TLR2 ligation induces the production of IL-23/IL-17 via IL-6, STAT3 and NF-kB pathway in patients with primary Sjogren's syndrome.
Kwok SK, Cho ML, Her YM, Oh HJ, Park MK, Lee SY, Woo YJ, Ju JH, Park KS, Kim HY, Park SH., Arthritis Res. Ther. 14(2), 2012
PMID: 22417709
Characterization of IL-4 and IL-13 signals dependent on the human IL-13 receptor alpha chain 1: redundancy of requirement of tyrosine residue for STAT3 activation.
Umeshita-Suyama R, Sugimoto R, Akaiwa M, Arima K, Yu B, Wada M, Kuwano M, Nakajima K, Hamasaki N, Izuhara K., Int. Immunol. 12(11), 2000
PMID: 11058569
IL-15 and IL-17F are differentially regulated and expressed in mycosis fungoides (MF).
Willerslev-Olsen A, Litvinov IV, Fredholm SM, Petersen DL, Sibbesen NA, Gniadecki R, Zhang Q, Bonefeld CM, Wasik MA, Geisler C, Zhou Y, Woetmann A, Sasseville D, Krejsgaard T, Odum N., Cell Cycle 13(8), 2014
PMID: 24621498
Genetic variations in IL1A and IL1RN are associated with the risk of preeclampsia in Chinese Han population.
Li J, Liu M, Zong J, Tan P, Wang J, Wang X, Ye Y, Liu S, Liu X., Sci Rep 4(), 2014
PMID: 24918527
Association of IL-1α gene polymorphism with susceptibility to type 1 diabetes in Chinese children.
Zhou X, Ca JG, Peng H, Wang JL, Li GM., Genet. Mol. Res. 15(3), 2016
PMID: 27706611
Role of Axl in early kidney inflammation and progression of salt-dependent hypertension.
Batchu SN, Hughson A, Gerloff J, Fowell DJ, Korshunov VA., Hypertension 62(2), 2013
PMID: 23774230
Research progress on signaling pathways in cirrhotic portal hypertension.
Xu W, Liu P, Mu YP., World J Clin Cases 6(10), 2018
PMID: 30283796
Serum interleukin-15 concentration in patients with essential hypertension.
Kaibe M, Ohishi M, Ito N, Yuan M, Takagi T, Terai M, Tatara Y, Komai N, Rakugi H, Ogihara T., Am. J. Hypertens. 18(8), 2005
PMID: 16109314
Cerebrovascular gene expression in spontaneously hypertensive rats.
Grell AS, Frederiksen SD, Edvinsson L, Ansar S., PLoS ONE 12(9), 2017
PMID: 28880918
Hypomethylation of the Toll-like receptor-2 gene increases the risk of essential hypertension.
Mao S, Gu T, Zhong F, Fan R, Zhu F, Ren P, Yin F, Zhang L., Mol Med Rep 16(1), 2017
PMID: 28560381
Complement 3 is involved in the synthetic phenotype and exaggerated growth of vascular smooth muscle cells from spontaneously hypertensive rats.
Lin ZH, Fukuda N, Jin XQ, Yao EH, Ueno T, Endo M, Saito S, Matsumoto K, Mugishima H., Hypertension 44(1), 2004
PMID: 15136559
Involvement of complement 3 in the salt-sensitive hypertension by activation of renal renin-angiotensin system in spontaneously hypertensive rats.
Negishi E, Fukuda N, Otsuki T, Katakawa M, Komatsu K, Chen L, Tanaka S, Kobayashi H, Hatanaka Y, Ueno T, Endo M, Mashimo T, Nishiyama A, Abe M., Am. J. Physiol. Renal Physiol. 315(6), 2018
PMID: 30256128
The role of chemokines in hypertension.
Martynowicz H, Janus A, Nowacki D, Mazur G., Adv Clin Exp Med 23(3), 2014
PMID: 24979502
High serum levels of CXC (CXCL10) and CC (CCL2) chemokines in untreated essential hypertension.
Antonelli A, Fallahi P, Ferrari SM, Ghiadoni L, Virdis A, Mancusi C, Centanni M, Taddei S, Ferrannini E., Int J Immunopathol Pharmacol 25(2), 2012
PMID: 22697070
Protein Tyrosine Phosphatases as Potential Regulators of STAT3 Signaling.
Kim M, Morales LD, Jang IS, Cho YY, Kim DJ., Int J Mol Sci 19(9), 2018
PMID: 30208623
STAT3 and apoptosis challenges in cancer.
Fathi N, Rashidi G, Khodadadi A, Shahi S, Sharifi S., Int. J. Biol. Macromol. 117(), 2018
PMID: 29782972

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