eISSN: 1509-572x
ISSN: 1641-4640
Folia Neuropathologica
Current issue Archive Manuscripts accepted About the journal Special Issues Editorial board Reviewers Abstracting and indexing Subscription Contact Instructions for authors Ethical standards and procedures
Editorial System
Submit your Manuscript
SCImago Journal & Country Rank
2/2024
vol. 62
 
Share:
Share:
Original paper

Construction of a diagnostic model for ischemic stroke based on immune-related genes

Yingfeng Weng
1
,
Bin Liu
2
,
Zhibin Chen
1
,
Yangbo Hou
1
,
Dan Wu
3
,
Lin Ma
4
,
Guoyi Li
1

  1. Department of Neurology, Putuo Hospital, Shanghai University of Traditional Chinese Medicine, Shanghai, China
  2. Department of Neurology, Shanghai Shuguang Hospital, Shanghai University of Traditional Chinese Medicine, Shanghai, China
  3. Department of Radiology, Putuo Hospital, Shanghai University of Traditional Chinese Medicine, Shanghai, China
  4. Department of Interventional Radiology, Shanghai Tongji Hospital, Tongji University School of Medicine, Shanghai, China
Folia Neuropathol 2024; 62 (2): 171-186
Online publish date: 2024/07/12
Article file
- Construction.pdf  [0.63 MB]
Get citation
 
PlumX metrics:
 
1. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT. Gene ontology: tool for the unification of biology. Nat Genet 2000; 25: 25-29.
2. Barrett T, Suzek TO, Troup DB, Wilhite SE, Ngau W-C, Ledoux P, Rudnev D, Lash AE, Fujibuchi W, Edgar R. NCBI GEO: mining millions of expression profiles – database and tools. Nucleic Acids Res 2005; 33: D562-D566.
3. Bindea G, Mlecnik B, Hackl H, Charoentong P, Tosolini M, Kirilovsky A, Fridman WH, Pagès F, Trajanoski Z, Galon J. ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks. Bioinformatics 2009; 25: 1091-1093.
4. Chen B, Khodadoust MS, Liu CL, Newman AM, Alizadeh AA. Profiling tumor infiltrating immune cells with CIBERSORT. Methods Mol Biol 2018; 1711: 243-259.
5. Chen D, Xiong XQ, Zang YH, Tong Y, Zhou B, Chen Q, Li YH, Gao XY,Kang YM, Zhu GQ. BCL6 attenuates renal inflammation via negative regulation of NLRP3 transcription. Cell Death Dis 2017; 8: e3156-e3156.
6. Chu HX, Kim HA, Lee S, Moore JP, Chan CT, Vinh A, Gelderblom M,Arumugam TV, Broughton BR, Drummond GR. Immune cell infiltration in malignant middle cerebral artery infarction: comparison with transient cerebral ischemia. J Cereb Blood Flow Metab 2014; 34: 450-459.
7. D Fann Y-W, Lee S, Manzanero S, Tang S-C, Gelderblom M, Chunduri P, Bernreuther C, Glatzel M, Cheng Y-L, Thundyil J. Intravenous immunoglobulin suppresses NLRP1 and NLRP3 inflammasome-mediated neuronal death in ischemic stroke. Cell Death Dis 2013; 4: e790-e790.
8. Deb P, Sharma S, Hassan KM. Pathophysiologic mechanisms of acute ischemic stroke: An overview with emphasis on therapeutic significance beyond thrombolysis. Pathophysiology 2010; 17: 197-218.
9. Dziedzic T. Systemic inflammation as a therapeutic target in acute ischemic stroke. Expert Rev Neurother 2015; 15: 523-531.
10. Hasan TF, Rabinstein AA, Middlebrooks EH, Haranhalli N, Silliman SL, Meschia JF, Tawk RG. Diagnosis and management of acute ischemic stroke. Mayo Clin Proc 2018; 93: 523-538.
11. Iadecola C, Buckwalter MS, Anrather J. Immune responses to stroke: mechanisms, modulation, and therapeutic potential. J Clin Invest 2020; 130: 2777-2788.
12. Javidi E, Magnus T. Autoimmunity after ischemic stroke and brain injury. Front Immunol 2019; 10: 686.
13. Jayaraj RL, Azimullah S, Beiram R, Jalal FY, Rosenberg GA. Neuroinflammation: friend and foe for ischemic stroke. J Neuroinflammation 2019; 16: 142.
14. Jian Z, Liu R, Zhu X, Smerin D, Zhong Y, Gu L, Fang W, Xiong X. The involvement and therapy target of immune cells after ischemic stroke. Front Immunol 2019; 10: 2167.
15. Jiang B, Sun P, Tang J, Luo B. Glmnet: Graph learning-matching networks for feature matching. arXiv preprint arXiv:191107681, 2019.
16. Jin F, Xing J. Circulating pro-angiogenic and anti-angiogenic microRNA expressions in patients with acute ischemic stroke and their association with disease severity. Neurol Sci 2017; 38: 2015-2023.
17. Kanehisa M, Goto S. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res 2000; 28: 27-30.
18. Kawabori M, Yenari MA. Inflammatory responses in brain ischemia. Curr Med Chem 2015; 22: 1258-1277.
19. Kohl M, Wiese S, Warscheid B. Cytoscape: software for visualization and analysis of biological networks. Methods Mol Biol 2011; 696: 291-303.
20. Krishnan S, Lawrence CB. Old dog new tricks; revisiting how stroke modulates the systemic immune landscape. Front Neurol 2019; 10: 718.
21. Langfelder P, Horvath S. WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics 2008; 9: 1-13.
22. Laskowitz DT, Kasner SE, Saver J, Remmel KS, Jauch EC. Clinical usefulness of a biomarker-based diagnostic test for acute stroke: the Biomarker Rapid Assessment in Ischemic Injury (BRAIN) study. Stroke 2009; 40: 77-85.
23. Lo EH, Dalkara T, Moskowitz MA. Mechanisms, challenges and opportunities in stroke. Nat Rev Neurosci 2003; 4: 399-415.
24. Lu P, Chen J, Zhao H, Gao Y, Luo L, Zuo X, Shi Q, Yang Y, Yi J, Wang W. In silico syndrome prediction for coronary artery disease in traditional Chinese medicine. Evid Based Complement Alternat Med 2012; 2012: 142584.
25. Ma Y, Yabluchanskiy A, Iyer RP, Cannon PL, Flynn ER, Jung M, Henry J, Cates CA, Deleon-Pennell KY, Lindsey ML. Temporal neutrophil polarization following myocardial infarction. Cardiovasc Res 2016; 110: 51-61.
26. Maida CD, Norrito RL, Daidone M, Tuttolomondo A, Pinto A. Neuroinflammatory mechanisms in ischemic stroke: focus on cardioembolic stroke, background, and therapeutic approaches. Int J Mol Sci 2020; 21: 6454.
27. Mering C, Huynen M, Jaeggi D, Schmidt S, Bork P, Snel B. STRING: a database of predicted functional associations between proteins. Nucleic Acids Res 2003; 31: 258-261.
28. Radak D, Katsiki N, Resanovic I, Jovanovic A, Sudar-Milovanovic E,Zafirovic S, Mousad SA, R Isenovic E. Apoptosis and acute brain ischemia in ischemic stroke. Curr Vasc Pharmacol 2017; 15: 115-122.
29. Schober A, Nazari-Jahantigh M, Wei Y, Bidzhekov K, Gremse F, Grommes J, Megens RT, Heyll K, Noels H, Hristov M. MicroRNA-126-5p promotes endothelial proliferation and limits atherosclerosis by suppressing Dlk1. Nat Med 2014; 20: 368-376.
30. Sherman BT, Hao M, Qiu J, Jiao X, Baseler MW, Lane HC, Imamichi T, Chang W. DAVID: a web server for functional enrichment analysis and functional annotation of gene lists (2021 update). Nucleic Acids Res 2022; 50: W216-W221.
31. Smyth GK, Ritchie M, Thorne N, Wettenhall J. LIMMA: linear models for microarray data. In: Bioinformatics and Computational Biology Solutions Using R and Bioconductor. Statistics for Biology and Health, 2005.
32. Sticht C, De La Torre C, Parveen A, Gretz N. miRWalk: an online resource for prediction of microRNA binding sites. PLoS One 2018; 13: e0206239.
33. Stubbe T, Ebner F, Richter D, Engel OR, Klehmet J, Royl G, Meisel A, Nitsch R, Meisel C, Brandt C. Regulatory T cells accumulate and proliferate in the ischemic hemisphere for up to 30 days after MCAO. J Cereb Blood Flow Metab 2013; 33: 37-47.
34. Tang Y, Li M, Wang J, Pan Y, Wu FX. CytoNCA: a cytoscape plugin for centrality analysis and evaluation of protein interaction networks. Biosystems 2015; 127: 67-72.
35. Tuttolomondo A, Pinto A, Corrao S, Di Raimondo D, Fernandez P, Di Sciacca R, Arnao V, Licata G. Immuno-inflammatory and thrombotic/fibrinolytic variables associated with acute ischemic stroke diagnosis. Atherosclerosis 2009; 203: 503-508.
36. Uemura Y, Kowall NW, Moskowitz MA. Focal ischemia in rats causes time-dependent expression of c-fos protein immunoreactivity in widespread regions of ipsilateral cortex. Brain Res 1991; 552: 99-105.
37. Wang R, Bao H, Zhang S, Li R, Chen L, Zhu Y. miR-186-5p promotes apoptosis by targeting IGF-1 in SH-SY5Y OGD/R model. Int J Biol Sci 2018; 14: 1791-1799.
38. Wei X, Han M, Yang F, Wei G, Liang Z, Yao H, Ji C, Xie R, Gong C, Tian Y. Biological significance of miR-126 expression in atrial fibrillation and heart failure. Braz J Med Biol Res 2015; 48: 983-989.
39. Zhang S. Microglial activation after ischaemic stroke. Stroke Vasc Neurol 2019; 4: 71-74.
40. Zhang SR, Phan TG, Sobey CG. Targeting the Immune System for Ischemic Stroke. Trends Pharmacol Sci 2021; 42: 96-105.
41. Zheng Y, Gardner SE, Clarke MC. Cell death, damage-associated molecular patterns, and sterile inflammation in cardiovascular disease. Arterioscler Thromb Vasc Biol 2011; 31: 2781-2786.
42. Zhou ZW, Ren X, Zhou WS, Li AP, Zheng LJ. LncRNA NEAT1 alleviates ischemic stroke via transcriptional inhibition of NLRP3 mediated by the miR 10b 5p/BCL6 axis. Acta Neurobiol Exp (Wars) 2022; 82: 12-21.
Copyright: © 2024 Mossakowski Medical Research Centre Polish Academy of Sciences and the Polish Association of Neuropathologists. This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) License (http://creativecommons.org/licenses/by-nc-sa/4.0/), allowing third parties to copy and redistribute the material in any medium or format and to remix, transform, and build upon the material, provided the original work is properly cited and states its license.
Quick links
© 2024 Termedia Sp. z o.o.
Developed by Bentus.