RNA sequencing revealed potential biomarkers in Iranian children with B-cell acute lymphoblastic leukemia

Backgrounds: B-ALL (B-cell acute lymphoblastic leukemia) ranks amongst the most commonmalignancies in pediatric patients, causing increased proliferation of immature lymphoid cellsand resulting in reduction of normal bone marrow cells. As the search for approaches resulting inearlier diagnosis is still ongoing, novel biomarkers present an attractive target for studies as theymay help in early detection and improve clinical outcomes. Thus, RNA sequencing (RNA-seq), apowerful technique for transcriptome profiling, presents an ideal tool for biomarker discovery.Here, we utilize the RNA-seq method to obtain a transcriptome profile of pediatric B-ALLpatients to identify potential biomarkers.Materials and Methods: Bone marrow aspiration samples were obtained from ۱۰ newlydiagnosed B-ALL patients and ۲ Immune thrombocytopenic purpura (ITP) as non-malignantcontrols. Then, using Ficoll density gradient centrifugation, mononuclear cells were isolated,followed by total RNA extraction. Paired-end RNA sequencing (~۱۰۰ million reads per sample)was performed on a NovaSeq۶۰۰۰ instrument. Raw RNA-seq data was processed and analyzedusing bioinformatics tools. Our raw RNA-seq data are publically available at BioProject underPRJNA۵۸۹۳۱۴ accession.Results: ۱۲۱۶ genes were upregulated and ۹۲۰ downregulated as compared to the control group(|log۲FC| ≥ ۲, padj < ۰.۰۵). Functional analysis and protein-protein interaction networks revealedESR۱, NRIP۱, MYSM۱, BCL۷A, UCKL۱, SPRING۱ and UBASH۳B may act as suitablebiomarkers in pediatric B-ALL patients.Conclusion: ESR۱, NRIP۱, MYSM۱, BCL۷A, UCKL۱, SPRING۱ and UBASH۳B may act aspotential biomarkers in pediatric B-ALL patients. Further studies on larger datasets are necessaryfor validating results presented in this study.

کلیدواژه ها:

RNA sequencing ، Transcriptome profiling ، B-ALL