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MiRNA Expression Profiles in Burkitt and Hodgkin lymphoma cell lines upon Ionizing Radiation Exposure

ABSTRACT: miRNA Expression Profiles in Burkitt and Hodgkin lymphoma cell lines upon Ionizing Radiation Exposure

PROVIDER: PRJEB80701 | ENA |

REPOSITORIES: ENA

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miRNA Expression Profiles in Burkitt and Hodgkin lymphoma cell lines upon Ionizing Radiation Exposure

Project description:The aim of this study was to identify miRNAs that undergo regulated biogenesis in response to ionizing radiation in B-lymphoma cells. The dataset includes miRNA sequencing data from three Burkitt lymphoma cell lines (ST486, CA46, DG75) and three Hodgkin lymphoma cell lines (L1236, L428, KMH2). Cells were exposed to 4 Gy dose of ionizing radiation and compared to non-irradiated control cells. Single-end RNA sequencing was performed using the Illumina NextSeq500, platform, generating high-quality reads for the analysis of miRNA expression levels and gene expression profiles related to miRNA biogenesis. The raw data analysis followed a multi-step approach. Adapter sequences were removed with Cutadapt-1.11. The reads were then aligned to a modified miRBase (v22.1) using Bowtie-1.2.2, customized to fit miRge2 specifications. An iterative alignment strategy was employed: the reads were initially mapped to mature miRNA sequences from miRBase v22.1, and those that remained unaligned were subsequently mapped to miRNA hairpin sequences, non-coding RNAs, and the Ensembl cDNA database. Any unaligned reads were re-aligned to mature miRNA sequences under more relaxed conditions.

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Pri-miRNA Expression Profiles in Burkitt and Hodgkin lymphoma cell lines upon Ionizing Radiation Exposure

Project description:Pri-miRNA Expression Profiles in Burkitt and Hodgkin lymphoma cell lines upon Ionizing Radiation Exposure

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