Key processes which differ in AML and ALL: a bioinformatics approach
Key processes which differ in AML and ALL: a bioinformatics approach
Zahra Rostami,1Elham Amiri,2Mehri Sarvi Zade,3Zeinab Ghadimi Nejad Anari,4Sara Taleahmad,5,*
1. Faculty of Biological Science and Technology, University of Science and Culture, Tehran, Iran. 2. Faculty of Biological Science and Technology, University of Science and Culture, Tehran, Iran. 3. Faculty of Biological Science and Technology, University of Science and Culture, Tehran, Iran. 4. Faculty of Biological Science and Technology, University of Science and Culture, Tehran, Iran. 5. Department of Stem Cells and Developmental Biology, Cell Science Research Center, Royan Institute for Stem Cell Biology and Technology, ACECR, Tehran, Iran.
Introduction: Leukemia is a cancer of white blood cells characterized by increasing in the number of hematopoietic cells. Acute lymphoblastic leukemia (ALL) is the foremost common childhood threat among childhood cancer type, Whereas AML is more common in grown-up(80%) than in children(20%). ALL and AML can be caused by mutations, chromosome translocations and aneuploidy in genes which play role in the white blood cells development.
Methods: In this study suitable microarray dataset was chosen from the GEO database and was analyzed with R, resulted in 54676 genes. Using Cytoscape 82 down and 108 up-regulated genes were obtained. These genes were submitted in g:Profiler, EnrichR and KEGG databases for pathway and GO analysis. At last, pathways were to validate by literature review.
Results: A total of 1225 DEGs (1048 up- and 177 down-regulated genes) were identified. With Degree as basis of comparison, Top ten up-regulated genes including HNRNPC, SMAD4, XPO1, DICER1, SRSF11, PIK3C3, RBM25, RPS27, PTPRC and BCL2L11, which were involved in pathways such as “TGF-beta signaling pathway”, “FoxO signaling pathway” and “Transcriptional misregulation in cancer”. And top ten down-regulated genes including TP53, CYCS, CALR, H2AFX, CD74, BCL2L1, MRTO4, YWHAE, AP2A1 and AP1M1, were involved in pathways such as “Epstein-Barr virus infection”,” Human T-cell leukemia virus 1 infection” and “Synaptic vesicle cycle”.
Conclusion: This study clarified the pathways which significantly differs between AML and ALL. Microarray analysis and recognition of similarities and differences between biological pathways among different diseases and cancers can be useful for designing further studies and experiments which hopefully lead to a comprehensive and precise definition of these cancers, drug discovery and drug repurposing.