Spandidos Publications Logo
  • About
    • About Spandidos
    • Aims and Scopes
    • Abstracting and Indexing
    • Editorial Policies
    • Reprints and Permissions
    • Job Opportunities
    • Terms and Conditions
    • Contact
  • Journals
    • All Journals
    • Oncology Letters
      • Oncology Letters
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Oncology
      • International Journal of Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular and Clinical Oncology
      • Molecular and Clinical Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Experimental and Therapeutic Medicine
      • Experimental and Therapeutic Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Molecular Medicine
      • International Journal of Molecular Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Biomedical Reports
      • Biomedical Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Reports
      • Oncology Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular Medicine Reports
      • Molecular Medicine Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • World Academy of Sciences Journal
      • World Academy of Sciences Journal
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Functional Nutrition
      • International Journal of Functional Nutrition
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Epigenetics
      • International Journal of Epigenetics
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Medicine International
      • Medicine International
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
  • Articles
  • Information
    • Information for Authors
    • Information for Reviewers
    • Information for Librarians
    • Information for Advertisers
    • Conferences
  • Language Editing
Spandidos Publications Logo
  • About
    • About Spandidos
    • Aims and Scopes
    • Abstracting and Indexing
    • Editorial Policies
    • Reprints and Permissions
    • Job Opportunities
    • Terms and Conditions
    • Contact
  • Journals
    • All Journals
    • Biomedical Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Experimental and Therapeutic Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Epigenetics
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Functional Nutrition
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Molecular Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Medicine International
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular and Clinical Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular Medicine Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Letters
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • World Academy of Sciences Journal
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
  • Articles
  • Information
    • For Authors
    • For Reviewers
    • For Librarians
    • For Advertisers
    • Conferences
  • Language Editing
Login Register Submit
  • This site uses cookies
  • You can change your cookie settings at any time by following the instructions in our Cookie Policy. To find out more, you may read our Privacy Policy.

    I agree
Search articles by DOI, keyword, author or affiliation
Search
Advanced Search
presentation
Experimental and Therapeutic Medicine
Join Editorial Board Propose a Special Issue
Print ISSN: 1792-0981 Online ISSN: 1792-1015
Journal Cover
April-2019 Volume 17 Issue 4

Full Size Image

Sign up for eToc alerts
Recommend to Library

Journals

International Journal of Molecular Medicine

International Journal of Molecular Medicine

International Journal of Molecular Medicine is an international journal devoted to molecular mechanisms of human disease.

International Journal of Oncology

International Journal of Oncology

International Journal of Oncology is an international journal devoted to oncology research and cancer treatment.

Molecular Medicine Reports

Molecular Medicine Reports

Covers molecular medicine topics such as pharmacology, pathology, genetics, neuroscience, infectious diseases, molecular cardiology, and molecular surgery.

Oncology Reports

Oncology Reports

Oncology Reports is an international journal devoted to fundamental and applied research in Oncology.

Experimental and Therapeutic Medicine

Experimental and Therapeutic Medicine

Experimental and Therapeutic Medicine is an international journal devoted to laboratory and clinical medicine.

Oncology Letters

Oncology Letters

Oncology Letters is an international journal devoted to Experimental and Clinical Oncology.

Biomedical Reports

Biomedical Reports

Explores a wide range of biological and medical fields, including pharmacology, genetics, microbiology, neuroscience, and molecular cardiology.

Molecular and Clinical Oncology

Molecular and Clinical Oncology

International journal addressing all aspects of oncology research, from tumorigenesis and oncogenes to chemotherapy and metastasis.

World Academy of Sciences Journal

World Academy of Sciences Journal

Multidisciplinary open-access journal spanning biochemistry, genetics, neuroscience, environmental health, and synthetic biology.

International Journal of Functional Nutrition

International Journal of Functional Nutrition

Open-access journal combining biochemistry, pharmacology, immunology, and genetics to advance health through functional nutrition.

International Journal of Epigenetics

International Journal of Epigenetics

Publishes open-access research on using epigenetics to advance understanding and treatment of human disease.

Medicine International

Medicine International

An International Open Access Journal Devoted to General Medicine.

Journal Cover
April-2019 Volume 17 Issue 4

Full Size Image

Sign up for eToc alerts
Recommend to Library

  • Article
  • Citations
    • Cite This Article
    • Download Citation
    • Create Citation Alert
    • Remove Citation Alert
    • Cited By
  • Similar Articles
    • Related Articles (in Spandidos Publications)
    • Similar Articles (Google Scholar)
    • Similar Articles (PubMed)
  • Download PDF
  • Download XML
  • View XML
Article Open Access

Constructing differential co‑expression network to predict key pathways for myocardial infarction

  • Authors:
    • Su‑Zhen Guo
    • Wen‑Jie Liu
  • View Affiliations / Copyright

    Affiliations: Department of Cardiology, Tianjin First Central Hospital, Tianjin 300192, P.R. China, Department of Geriatrics, Chendong Hospital, Quanzhou First Hospital, Fujian Medical University, Quanzhou, Fujian 362000, P.R. China
    Copyright: © Guo et al. This is an open access article distributed under the terms of Creative Commons Attribution License.
  • Pages: 3029-3034
    |
    Published online on: February 26, 2019
       https://doi.org/10.3892/etm.2019.7321
  • Expand metrics +
Metrics: Total Views: 0 (Spandidos Publications: | PMC Statistics: )
Metrics: Total PDF Downloads: 0 (Spandidos Publications: | PMC Statistics: )
Cited By (CrossRef): 0 citations Loading Articles...

This article is mentioned in:



Abstract

New thoughts are warranted to develop efficient diagnosis and optimal therapeutics to combat unstable angina (UA)/myocardial infarction (MI). Therefore, the gene data of patients with UA or MI were used in this study to identify the optimal pathways which can provide comprehensive information for UA/MI development. Differentially expressed genes (DEGs) between UA and MI were detected using LIMMA package, and pathway enrichment analysis was conducted for the DEGs, based on the DAVID tool, to detect the significant pathways. Then, differential co‑expression network (DCN) and sub‑DCN for the DEGs were constructed. Subsequently, informative pathways were extracted using guilt‑by‑association (GBA) principle relying on the area under the curve (AUC), and the pathway categories with AUC >0.8 were defined as the informative pathways. Finally, we selected the optimal pathways based on the traditional pathway analysis and the sub‑DCN‑based‑GBA pathway prediction method. A total of 203 and 266 DEGs were identified from the expression profile of blood of MI samples comparing with UAs in the time‑point 1 and time‑point 2 groups. Moreover, 7 and 10 informative pathway terms were identified based on AUC>0.8. Significantly, cytokine‑cytokine receptor interaction, as well as MAPK signaling pathway were the common optimal pathways in the two groups. Calcium signaling pathway was unique to the whole blood of patients with acute coronary syndrome (ACS) taken at 30 days post‑ACS. In conclusion, the optimal pathways (MAPK signaling pathway, cytokine‑cytokine receptor interaction, and calcium signaling pathway) might play important roles in the progression of UA/MI.
View Figures

Figure 1

Figure 2

Figure 3

Figure 4

View References

1 

Mozaffarian D, Benjamin EJ, Go AS, Arnett DK, Blaha MJ, Cushman M, de Ferranti SD, Després JP, Fullerton HJ, Howard VJ, et al American Heart Association Statistics Committee and Stroke Statistics Subcommittee, : Heart disease and stroke statistics – 2015 update: A report from the American Heart Association. Circulation. 131:e29–322. 2015. View Article : Google Scholar : PubMed/NCBI

2 

Wright RS, Anderson JL, Adams CD, Bridges CR, Casey DE Jr, Ettinger SM, Fesmire FM, Ganiats TG, Jneid H, Lincoff AM, et al: 2011 ACCF/AHA focused update of the Guidelines for the Management of Patients with Unstable Angina/Non-ST-Elevation Myocardial Infarction (updating the 2007 guideline): A report of the American College of Cardiology Foundation/American Heart Association Task Force on Practice Guidelines developed in collaboration with the American College of Emergency Physicians, Society for Cardiovascular Angiography and Interventions, and Society of Thoracic Surgeons. J Am Coll Cardiol. 57:1920–1959. 2011. View Article : Google Scholar : PubMed/NCBI

3 

Yeh RW, Sidney S, Chandra M, Sorel M, Selby JV and Go AS: Population trends in the incidence and outcomes of acute myocardial infarction. N Engl J Med. 362:2155–2165. 2010. View Article : Google Scholar : PubMed/NCBI

4 

Van de Werf F, Ardissino D, Betriu A, Cokkinos DV, Falk E, Fox KA, Julian D, Lengyel M, Neumann FJ, Ruzyllo W, et al Task Force on the Management of Acute Myocardial Infarction of the European Society of Cardiology, : Management of acute myocardial infarction in patients presenting with ST-segment elevation. The Task Force on the Management of Acute Myocardial Infarction of the European Society of Cardiology. Eur Heart J. 24:28–66. 2003. View Article : Google Scholar : PubMed/NCBI

5 

Louwen F, Muschol-Steinmetz C, Reinhard J, Reitter A and Yuan J: A lesson for cancer research: Placental microarray gene analysis in preeclampsia. Oncotarget. 3:759–773. 2012. View Article : Google Scholar : PubMed/NCBI

6 

Wang B, Huang DS and Jiang C: A new strategy for protein interface identification using manifold learning method. IEEE Trans Nanobioscience. 13:118–123. 2014. View Article : Google Scholar : PubMed/NCBI

7 

Xia JF, Zhao XM, Song J and Huang DS: APIS: Accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility. BMC Bioinformatics. 11:1742010. View Article : Google Scholar : PubMed/NCBI

8 

Lee HK, Hsu AK, Sajdak J, Qin J and Pavlidis P: Coexpression analysis of human genes across many microarray data sets. Genome Res. 14:1085–1094. 2004. View Article : Google Scholar : PubMed/NCBI

9 

van Noort V, Snel B and Huynen MA: The yeast coexpression network has a small-world, scale-free architecture and can be explained by a simple model. EMBO Rep. 5:280–284. 2004. View Article : Google Scholar : PubMed/NCBI

10 

Stuart JM, Segal E, Koller D and Kim SK: A gene-coexpression network for global discovery of conserved genetic modules. Science. 302:249–255. 2003. View Article : Google Scholar : PubMed/NCBI

11 

Tilford CA and Siemers NO: Gene set enrichment analysis. Methods Mol Biol. 563:99–121. 2009. View Article : Google Scholar : PubMed/NCBI

12 

Curtis RK, Oresic M and Vidal-Puig A: Pathways to the analysis of microarray data. Trends Biotechnol. 23:429–435. 2005. View Article : Google Scholar : PubMed/NCBI

13 

Zhang T, Zhao LL, Zhang ZR, Fu PD, Su ZD, Qi LC, Li XQ and Dong YM: Interaction network analysis revealed biomarkers in myocardial infarction. Mol Biol Rep. 41:4997–5003. 2014. View Article : Google Scholar : PubMed/NCBI

14 

Bu X, Wang B, Wang Y, Wang Z, Gong C, Qi F and Zhang C: Pathway-related modules involved in the application of sevoflurane or propofol in off-pump coronary artery bypass graft surgery. Exp Ther Med. 14:97–106. 2017. View Article : Google Scholar : PubMed/NCBI

15 

Donato M, Xu Z, Tomoiaga A, Granneman JG, Mackenzie RG, Bao R, Than NG, Westfall PH, Romero R and Draghici S: Analysis and correction of crosstalk effects in pathway analysis. Genome Res. 23:1885–1893. 2013. View Article : Google Scholar : PubMed/NCBI

16 

Sharan R, Ulitsky I and Shamir R: Network-based prediction of protein function. Mol Syst Biol. 3:88. 2007. View Article : Google Scholar : PubMed/NCBI

17 

Zuberi K, Franz M, Rodriguez H, Montojo J, Lopes CT, Bader GD and Morris Q: GeneMANIA prediction server 2013 update. Nucleic Acids Res. 41:W115–W122. 2013. View Article : Google Scholar : PubMed/NCBI

18 

Gautier L, Cope L, Bolstad BM and Irizarry RA: affy - analysis of Affymetrix GeneChip data at the probe level. Bioinformatics. 20:307–315. 2004. View Article : Google Scholar : PubMed/NCBI

19 

Benjamini Y, Drai D, Elmer G, Kafkafi N and Golani I: Controlling the false discovery rate in behavior genetics research. Behav Brain Res. 125:279–284. 2001. View Article : Google Scholar : PubMed/NCBI

20 

Huang W, Sherman BT and Lempicki RA: Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 4:44–57. 2009. View Article : Google Scholar : PubMed/NCBI

21 

Ford G, Xu Z, Gates A, Jiang J and Ford BD: Expression Analysis Systematic Explorer (EASE) analysis reveals differential gene expression in permanent and transient focal stroke rat models. Brain Res. 1071:226–236. 2006. View Article : Google Scholar : PubMed/NCBI

22 

Ruan J, Dean AK and Zhang W: A general co-expression network- based approach to gene expression analysis: Comparison and applications. BMC Syst Biol. 4:82010. View Article : Google Scholar : PubMed/NCBI

23 

Gillis J and Pavlidis P: The role of indirect connections in gene networks in predicting function. Bioinformatics. 27:1860–1866. 2011. View Article : Google Scholar : PubMed/NCBI

24 

Mulvihill NT, Foley JB, Murphy R, Crean P and Walsh M: Evidence of prolonged inflammation in unstable angina and non-Q wave myocardial infarction. J Am Coll Cardiol. 36:1210–1216. 2000. View Article : Google Scholar : PubMed/NCBI

25 

Wang Y: Mitogen-activated protein kinases in heart development and diseases. Circulation. 116:1413–1423. 2007. View Article : Google Scholar : PubMed/NCBI

26 

Indolfi C, Avvedimento EV, Di Lorenzo E, Esposito G, Rapacciuolo A, Giuliano P, Grieco D, Cavuto L, Stingone AM, Ciullo I, et al: Activation of cAMP-PKA signaling in vivo inhibits smooth muscle cell proliferation induced by vascular injury. Nat Med. 3:775–779. 1997. View Article : Google Scholar : PubMed/NCBI

27 

Indolfi C, Gasparri C, Vicinanza C, De Serio D, Boncompagni D, Mongiardo A, Spaccarotella C, Agosti V, Torella D and Curcio A: Mitogen-activated protein kinases activation in T lymphocytes of patients with acute coronary syndromes. Basic Res Cardiol. 106:667–679. 2011. View Article : Google Scholar : PubMed/NCBI

28 

Ozaki K and Leonard WJ: Cytokine and cytokine receptor pleiotropy and redundancy. J Biol Chem. 277:29355–29358. 2002. View Article : Google Scholar : PubMed/NCBI

29 

Bernard GR, Artigas A, Brigham KL, Carlet J, Falke K, Hudson L, Lamy M, Legall JR, Morris A and Spragg R: Report of the American-European Consensus conference on acute respiratory distress syndrome: definitions, mechanisms, relevant outcomes, and clinical trial coordination. Consensus Committee. J Crit Care. 9:72–81. 1994. View Article : Google Scholar : PubMed/NCBI

30 

Boekholdt SM, Peters RJ, Hack CE, Day NE, Luben R, Bingham SA, Wareham NJ, Reitsma PH and Khaw KT: IL-8 plasma concentrations and the risk of future coronary artery disease in apparently healthy men and women: The EPIC-Norfolk prospective population study. Arterioscler Thromb Vasc Biol. 24:1503–1508. 2004. View Article : Google Scholar : PubMed/NCBI

31 

Ruiz-Meana M, Garcia-Dorado D, Juliá M, Inserte J, Siegmund B, Ladilov Y, Piper M, Tritto FP, González MA and Soler-Soler J: Protective effect of HOE642, a selective blocker of Na+-H+ exchange, against the development of rigor contracture in rat ventricular myocytes. Exp Physiol. 85:17–25. 2000. View Article : Google Scholar : PubMed/NCBI

32 

Siegmund B, Ladilov YV and Piper HM: Importance of sodium for recovery of calcium control in reoxygenated cardiomyocytes. Am J Physiol. 267:H506–H513. 1994.PubMed/NCBI

33 

Sánchez JA, Rodríguez-Sinovas A, Fernández-Sanz C, Ruiz-Meana M and García-Dorado D: Effects of a reduction in the number of gap junction channels or in their conductance on ischemia-reperfusion arrhythmias in isolated mouse hearts. Am J Physiol Heart Circ Physiol. 301:H2442–H2453. 2011. View Article : Google Scholar : PubMed/NCBI

34 

Garcia-Dorado D, Ruiz-Meana M, Inserte J, Rodriguez-Sinovas A and Piper HM: Calcium-mediated cell death during myocardial reperfusion. Cardiovasc Res. 94:168–180. 2012. View Article : Google Scholar : PubMed/NCBI

Related Articles

  • Abstract
  • View
  • Download
  • Twitter
Copy and paste a formatted citation
Spandidos Publications style
Guo SZ and Liu WJ: Constructing differential co‑expression network to predict key pathways for myocardial infarction. Exp Ther Med 17: 3029-3034, 2019.
APA
Guo, S., & Liu, W. (2019). Constructing differential co‑expression network to predict key pathways for myocardial infarction. Experimental and Therapeutic Medicine, 17, 3029-3034. https://doi.org/10.3892/etm.2019.7321
MLA
Guo, S., Liu, W."Constructing differential co‑expression network to predict key pathways for myocardial infarction". Experimental and Therapeutic Medicine 17.4 (2019): 3029-3034.
Chicago
Guo, S., Liu, W."Constructing differential co‑expression network to predict key pathways for myocardial infarction". Experimental and Therapeutic Medicine 17, no. 4 (2019): 3029-3034. https://doi.org/10.3892/etm.2019.7321
Copy and paste a formatted citation
x
Spandidos Publications style
Guo SZ and Liu WJ: Constructing differential co‑expression network to predict key pathways for myocardial infarction. Exp Ther Med 17: 3029-3034, 2019.
APA
Guo, S., & Liu, W. (2019). Constructing differential co‑expression network to predict key pathways for myocardial infarction. Experimental and Therapeutic Medicine, 17, 3029-3034. https://doi.org/10.3892/etm.2019.7321
MLA
Guo, S., Liu, W."Constructing differential co‑expression network to predict key pathways for myocardial infarction". Experimental and Therapeutic Medicine 17.4 (2019): 3029-3034.
Chicago
Guo, S., Liu, W."Constructing differential co‑expression network to predict key pathways for myocardial infarction". Experimental and Therapeutic Medicine 17, no. 4 (2019): 3029-3034. https://doi.org/10.3892/etm.2019.7321
Follow us
  • Twitter
  • LinkedIn
  • Facebook
About
  • Spandidos Publications
  • Careers
  • Cookie Policy
  • Privacy Policy
How can we help?
  • Help
  • Live Chat
  • Contact
  • Email to our Support Team