Tumor IsomiR Encyclopedia (TIE): a pan-cancer database of miRNA isoforms.

Xavier Bofill-De Ros, Brian Luke, Robert Guthridge, Uma Mudunuri, Michael Loss, Shuo Gu

Bioinformatics (Oxford, England) 2021 Sep 29

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MicroRNAs (miRNAs) are master regulators of gene expression in cancers. Their sequence variants or isoforms (isomiRs) are highly abundant and possess unique functions. Given their short sequence length and high heterogeneity, mapping isomiRs can be challenging; without adequate depth and data aggregation, low frequency events are often disregarded. To address these challenges, we present the Tumor IsomiR Encyclopedia (TIE): a dynamic database of isomiRs from over 10 000 adult and pediatric tumor samples in The Cancer Genome Atlas (TCGA) and The Therapeutically Applicable Research to Generate Effective Treatments (TARGET) projects. A key novelty of TIE is its ability to annotate heterogeneous isomiR sequences and aggregate the variants obtained across all datasets. Results can be browsed online or downloaded as spreadsheets. Here, we show analysis of isomiRs of miR-21 and miR-30a to demonstrate the utility of TIE. TIE search engine and data are freely available to use at https://isomir.ccr.cancer.gov/. Supplementary data are available at Bioinformatics online. Published by Oxford University Press 2021.

Citation

Xavier Bofill-De Ros, Brian Luke, Robert Guthridge, Uma Mudunuri, Michael Loss, Shuo Gu. Tumor IsomiR Encyclopedia (TIE): a pan-cancer database of miRNA isoforms. Bioinformatics (Oxford, England). 2021 Sep 29;37(18):3023-3025