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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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

ABSTRACT: 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 RNA 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. Paired-end RNA sequencing was performed using the Illumina platform. Chromosomal coordinates of the human miRNAs (GRCh38) were downloaded from miRBase (hsa.gff3, miRBase v22), and the coordinates were extended by 150 bp upstream and downstream to designate pri-miRNA transcripts. This modified file was then merged with the base GTF annotation. The raw data underwent preprocessing to remove adapters and low-quality reads using TrimGalore-0.6.6. The cleaned reads were then aligned to the reference genome using STAR-2.7.3a. Genome sequence (GRCh38.primary_assembly.genome.fa) and primary annotations (gencode.v41.primary_assembly.annotation.gtf) were obtained from the GENCODE database (https://www.gencodegenes.org/human/ ). FeatureCounts from the Subread 2.0.3 package was used for read quantification.

INSTRUMENT(S): Illumina NovaSeq 6000

ORGANISM(S): Homo sapiens

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PROVIDER: E-MTAB-14491 | biostudies-arrayexpress |

SECONDARY ACCESSION(S): E-MTAB-14492

REPOSITORIES: biostudies-arrayexpress

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

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