Iranian journal of Pediatric Hematology and Oncology
Iranian journal of Pediatric Hematology and Oncology
Iran J Ped Hematol Oncol
Medical Sciences
http://ijpho.ssu.ac.ir
1
admin
2008-8892
2228-6993
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8888
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jalali
1401
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gregorian
2023
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en
Study of Gene Expression Signatures for the Diagnosis of Pediatric Acute Lymphoblastic Leukemia (ALL) Through Gene Expression Array Analyses
عمومى
General
پژوهشي
Research
<div style="border:double windowtext 1.5pt; padding:1.0pt 4.0pt 1.0pt 4.0pt"><span style="font-size:11pt"><span style="line-height:normal"><span sans-serif="" style="font-family:Calibri,"><b><span style="font-size:10.0pt"><span new="" roman="" style="font-family:" times="">Background: </span></span></b><span style="font-size:10.0pt"><span new="" roman="" style="font-family:" times="">Acute lymphoblastic leukemia (ALL) as the most common malignancy in children is associated with high mortality and significant relapse. Currently, the non-invasive diagnosis of pediatric ALL is a main challenge in the early detection of patients. In the present study, a systems biology approach was used through network-based analysis to identify the key candidate genes related to ALL development and relapse. </span></span></span></span></span><br>
<span style="font-size:11pt"><span style="line-height:normal"><span sans-serif="" style="font-family:Calibri,"><b><span style="font-size:10.0pt"><span new="" roman="" style="font-family:" times="">Materials and methods: </span></span></b><span style="font-size:10.0pt"><span new="" roman="" style="font-family:" times="">In this systems biology (experimental) study, main and validating datasets were retrieved from a gene expression omnibus (GEO). Gene expression analyses were done using a bioinformatics array research tool (BART) and ExAtlas. Gene ontology and pathway enrichment analysis were also performed via Database for Annotation, Visualization and Integrated Discovery (DAVID). Furthermore, the Search Tool for the Retrieval of Interacting Genes (STRING) and cytoscape V.3.9.1 were used to network construction and analysis. The MCODE and NCMine Plugin of cytoscape were applied to find clusters and a functional module in the network. The Kaplan Myer curve was applied in order to survival analysis of the validated candidate genes. A P-value of < 0.05 was considered as significant. </span></span></span></span></span><br>
<span style="font-size:11pt"><span style="line-height:normal"><span sans-serif="" style="font-family:Calibri,"><b><span style="font-size:10.0pt"><span new="" roman="" style="font-family:" times="">Results: </span></span></b><span style="font-size:10.0pt"><span new="" roman="" style="font-family:" times="">A total of 671 differentially expressed genes (DEGs) mainly involved in transporter/channel activity functions, cell communication/signaling processes and fatty acid transport/PPAR signaling/eicosanoid metabolism pathways were identified (P-value < 0.05). The main cellular compartments were plasma membrane, cell periphery and cell surface (P-value <0.05). The network analysis revealed 68 hub genes, 29 of which were candidate genes. Five candidate genes were also validated in two independent experiments. These genes were considered as key candidate genes, and three of them (BCL2L11, IGF1, PDE5A) were predictors of pediatric ALL patients survival (P-value < 0.05).<b> </b></span></span></span></span></span><br>
<span style="font-size:11pt"><span style="line-height:normal"><span sans-serif="" style="font-family:Calibri,"><b><span style="font-size:10.0pt"><span new="" roman="" style="font-family:" times="">Conclusion: </span></span></b><span style="font-size:10.0pt"><span new="" roman="" style="font-family:" times="">BCL2L11, IGF1 and PDE5A genes, as key candidate genes, are potentially good diagnostic biomarkers and therapeutic targets for pediatric ALL. </span></span></span></span></span></div>
Acute lymphoid leukemia, Gene cluster, Gene ontology, Protein-protein interaction network, Survival analysis
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http://ijpho.ssu.ac.ir/browse.php?a_code=A-10-956-1&slc_lang=en&sid=1
Hamed
Manoochehri
manoochehry.hamed@gmail.com
0000-0002-7117-1857
No
Research Center for Molecular Medicine, Hamadan University of Medical Sciences, Hamadan, Iran
Research Center for Molecular Medicine, Hamadan University of Medical Sciences, Hamadan, Iran
Roya
Raeisi
r_reisi2@yahoo.com
0000-0001-5515-2042
Yes
Department of Pediatrics, School of Medicine, Besat Hospital, Hamadan, Iran
Department of Pediatrics, School of Medicine, Besat Hospital, Hamadan, Iran
Mohsen
Sheykhhasan
mohsen.sh2009@gmail.com
No
Research Center for Molecular Medicine, Hamadan University of Medical Sciences, Hamadan, Iran
Research Center for Molecular Medicine, Hamadan University of Medical Sciences, Hamadan, Iran
Abbas
Fattahi
abbasumsha@gmail.com
No
Department of Medical Library and Information Sciences, Hamadan University of Medical Sciences, Hamadan, Iran.
Department of Medical Library and Information Sciences, Hamadan University of Medical Sciences, Hamadan, Iran.
Hamid
Bouraghi
hamid.bouraghi@gmail.com
No
Department of Health Information Technology, School of Allied Medical Sciences Hamadan University of Medical Sciences, Hamadan, Iran
Department of Health Information Technology, School of Allied Medical Sciences Hamadan University of Medical Sciences, Hamadan, Iran
Fatemeh
Eghbalian
eghbalian_fa@yahoo.com
No
Department of Pediatrics, School of Medicine, Besat Hospital, Hamadan, Iran.
Department of Pediatrics, School of Medicine, Besat Hospital, Hamadan, Iran.
Hamid
Tanzadehpanah
h.tanzadehpanah@gmail.com
No
Cancer Research Center, Mashhad University of Medical Sciences, Mashhad, Iran.
Cancer Research Center, Mashhad University of Medical Sciences, Mashhad, Iran.