Volume 8 Issue 2-3
Oct.  2020
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Cheng XUE, Chen-chen ZHOU, Jing XU, Bo YANG, Cheng-gang XU, Bing DAI, Ya-wei LIU, Li-jun SUN, Xiang GAO, Sheng-qiang YU, Chang-lin MEI. Bioinformatic Analysis of Microarray Data of Autosomal Dominant Polycystic Kidney Disease[J]. Medical Journal of Peking Union Medical College Hospital, 2017, 8(2-3): 171-177. doi: 10.3969/j.issn.1674-9081.2017.03.016
Citation: Cheng XUE, Chen-chen ZHOU, Jing XU, Bo YANG, Cheng-gang XU, Bing DAI, Ya-wei LIU, Li-jun SUN, Xiang GAO, Sheng-qiang YU, Chang-lin MEI. Bioinformatic Analysis of Microarray Data of Autosomal Dominant Polycystic Kidney Disease[J]. Medical Journal of Peking Union Medical College Hospital, 2017, 8(2-3): 171-177. doi: 10.3969/j.issn.1674-9081.2017.03.016

Bioinformatic Analysis of Microarray Data of Autosomal Dominant Polycystic Kidney Disease

doi: 10.3969/j.issn.1674-9081.2017.03.016
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  • Corresponding author: MEI Chang-lin   Tel: 021-81885411, Email:chlmei1954@126.com
  • Received Date: 2017-05-01
  • Publish Date: 2020-10-30
  •   Objective      The microarray data of autosomal dominant polycystic kidney disease(ADPKD) was downloaded from the Gene Expression Omnibus (GEO) and analyzed to identify the differential expression genes (DEGs) and to explore the possible signal pathways and protein interaction mechanisms in ADPKD by bioinformatics analysis.  Methods      Two microarray datasets (GSE7869 and GSE35831)of renal cyst tissue of ADPKD patients and dataset of normal controlled tissue were downloaded and screened from GEO database. The DAVID database and Funrich software were used to analyze biological information and signal pathway analysis, and the STRING database was used to analyze protein interaction mechanisms.  Results      There were 3970 DEGs in GES7869 and 147 DEGs in GSE35831. There were 28 up-regulated genes in the two groups of DEGs and 24 identical down-regulated genes. Up-regulated of DEGs focused on ion channel-related pathways, enriched in autophagy relted pathways, such as mTOR and PI3K/Akt pathways, growth factors and integrin-related pathways, and down-regulated of DEGs focused on energy metabolism and related signaling pathways.  Conclusions      Analysis of the 52 DEGs and related enrichment signal pathways of the ADPKD could provide potential biomarkers and directions for the future study of ADPKD. Regulation of renal cell autophagy to delay cystic progression might become a new research focus in ADPKD.
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  • [1] Neumann HP, Jilg C, Bacher J, et al. Epidemiology of autosomal-dominant polycystic kidney disease:an in-depth clinical study for south-western Germany[J]. Nephrol Dial Transplant, 2013, 28:1472-1487. doi:  10.1093/ndt/gfs551
    [2] Xue C, Zhou CC, Wu M, et al. The clinical manifestation and management of autosomal dominant polycystic kidney disease in China[J]. Kidney Dis (Basel), 2016, 2:111-119. doi:  10.1159/000449030
    [3] Ong AC, Devuyst O, Knebelmann B, et al. Autosomal dominant polycystic kidney disease:the changing face of clinical management[J]. Lancet, 2015, 385:1993-2002. doi:  10.1016/S0140-6736(15)60907-2
    [4] Sommerer C, Zeier M. Clinical manifestation and management of ADPKD in Western countries[J]. Kidney Dis (Basel), 2016, 2:120-127. doi:  10.1159/000449394
    [5] Ong AC, Harris PC. Molecular pathogenesis of ADPKD:the polycystin complex gets complex[J]. Kidney Int, 2005, 67:1234-1247. doi:  10.1111/j.1523-1755.2005.00201.x
    [6] Song X, Di Giovanni V, He N, et al. Systems biology of autosomal dominant polycystic kidney disease (ADPKD):computational identification of gene expression pathways and integrated regulatory networks[J]. Hum Mol Genet, 2009, 18:2328-2343. doi:  10.1093/hmg/ddp165
    [7] Husson H,Manavalan P,Akmaev VR, et al. New insights into ADPKD molecular pathways using combination of SAGE and microarray technologies[J]. Genomics, 2004, 84:497-510. doi:  10.1016/j.ygeno.2004.03.009
    [8] Pandey P,Qin S,Ho J,et al.Systems biology approach to identify transcriptome reprogramming and candidate microRNA targets during the progression of polycystic kidney disease[J]. BMC Syst Biol, 2011, 5:56. doi:  10.1186/1752-0509-5-56
    [9] Menezes LF,Zhou F,Patterson AD, et al. Network analysis of a Pkd1-mouse model of autosomal dominant polycystic kidney disease identifies HNF4 alpha as a disease modifier[J]. PLoS Genet, 2012, 8:e1003053. doi:  10.1371/journal.pgen.1003053
    [10] Allen E,Piontek KB,Garrett-Mayer E, et al. Loss of polycystin-1 or polycystin-2 results in dysregulated apolipoprotein expression in murine tissues via alterations in nuclear hormone receptors[J]. Hum Mol Genet, 2006, 15:11-21. doi:  10.1093/hmg/ddi421
    [11] Hsu PP,Sabatini DM. Cancer cell metabolism:Warburg and beyond[J]. Cell, 2008, 134:703-707. doi:  10.1016/j.cell.2008.08.021
    [12] Boletta A. Emerging evidence of a link between the polycystins and the mTOR pathways[J]. Pathogenetics, 2009, 2:6. doi:  10.1186/1755-8417-2-6
    [13] Zhou JX,Fan LX,Li X, et al. TNF alpha signaling regulates cystic epithelial cell proliferation through Akt/mTOR and ERK/MAPK/Cdk2 mediated Id2 signaling[J]. PLoS One, 2015, 10:e0131043. doi:  10.1371/journal.pone.0131043
    [14] Xue C,Dai B,Mei C. Long-term treatment with mammalian target of rapamycin inhibitor does not benefit patients with autosomal dominant polycystic kidney disease:a meta-analysis[J]. Nephron Clin Pract, 2013, 124:10-16. doi:  10.1159/000354398
    [15] Zhu P,Sieben CJ,Xu X, et al. Autophagy activators suppress cystogenesis in an autosomal dominant polycystic kidney disease model[J]. Hum Mol Genet, 2017, 26:158-172. http://www.wanfangdata.com.cn/details/detail.do?_type=perio&id=3bc0fa82c621469cc504c7efba4690a5
    [16] Aguilar A. Polycystic kidney disease:Autophagy boost to treat ADPKD?[J]. Nat Rev Nephrol, 2017, 13:134. http://www.ncbi.nlm.nih.gov/pubmed/28090082
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