In a recent study published in , researchers aggregated RNA-sequencing data from 14 leukemia subtypes and 53 leukemia-associated cell lines to develop an easy-to-use database of key transcriptome characteristics. Blood Advance.
Although the origin and differentiation stage of leukemia are typically ways of classifying the disease, the different transcriptomic profiles and clinical features found in the different subtypes indicate the different variables underlying leukemogenesis at the transcriptional level. suggests that there is a mechanism
“Thus, an integrated analysis of leukemia expression data can provide comprehensive insights for elucidating common and specific regulatory mechanisms among various leukemia subtypes,” the authors wrote.
Previous studies have shown that specific transcriptomic features play important roles in leukemia progression, but many focus on one subtype or a limited number of subtypes. The new study analyzed her 3036 samples from 14 subtypes of leukemia and 53 related cell lines, and the results have evolved into a comprehensive and easy-to-use resource for the research community.
LeukemiaDB, a data repository created by the authors, provides insights into key RNA functions at the transcriptional level that, based on current research, are thought to play a key role in the development or progression of leukemia. Contains one main module. These functions include protein-coding genes, long noncoding RNAs (lncRNAs), circular RNAs (circRNAs), alternative splicing (AS), and fusion genes. This database integrates information on expression levels, regulatory modules and molecular information relevant to each subtype or cell line.
The authors also analyzed data within LeukemiaDB to investigate different expression characteristics and RNA molecular variants in different leukemia subtypes and cell lines. About 20,000 protein-coding genes. 60,000 lncRNAs; 8882 circRNAs; 5 AS event types, and various fusion genes were found in the dataset.
In this study, various subtypes of leukemia or related cell lines were found to have similar expression distributions of protein-coding genes and lncRNAs, and some of the detected AS events were found in most leukemia subtypes. shared by type. The data also showed that several protein-coding genes and fusion genes are involved in leukemogenesis. Certain highly correlated regulatory modules were also found in different subtypes of leukemia.
Overall, the aggregated data provide important insights into leukemia carcinogenesis and progression, and LeukemiaDB is, to the authors’ knowledge, the most comprehensive resource of its kind.
“Together, we provided a comprehensive and multidimensional transcriptomic profile (protein-coding genes, lncRNAs, circRNAs, AS events, and fusion genes) of leukemia patients and leukemia cell lines,” the authors conclude. “In the future, we plan to update the LeukemiaDB data portal with the released large cohorts, and further analyzes will be conducted to address pressing questions in the field of leukemia research.”
reference
Luo M, Miao Y, Ke Y, Guo AY, Zhang Q. A comprehensive landscape of human leukemia transcriptional profiles and data resources. Blood AdvancePublished online January 3, 2023. doi:10.1182/blood advances.2022008410
