QuagmiR: a cloud-based application for isomiR big data analytics
Bioinformatics, 2019•academic.oup.com
MicroRNAs (miRNAs) function as master regulators of gene expression. Recent studies
demonstrate that miRNA isoforms (isomiRs) play a unique role in cancer development.
Here, we present QuagmiR, the first cloud-based tool to analyze isomiRs from next
generation sequencing data. Using a novel and flexible searching algorithm designed for
the detection and annotation of heterogeneous isomiRs, it permits extensive customization
of the query process and reference databases to meet the user's diverse research needs …
demonstrate that miRNA isoforms (isomiRs) play a unique role in cancer development.
Here, we present QuagmiR, the first cloud-based tool to analyze isomiRs from next
generation sequencing data. Using a novel and flexible searching algorithm designed for
the detection and annotation of heterogeneous isomiRs, it permits extensive customization
of the query process and reference databases to meet the user's diverse research needs …
Summary
MicroRNAs (miRNAs) function as master regulators of gene expression. Recent studies demonstrate that miRNA isoforms (isomiRs) play a unique role in cancer development. Here, we present QuagmiR, the first cloud-based tool to analyze isomiRs from next generation sequencing data. Using a novel and flexible searching algorithm designed for the detection and annotation of heterogeneous isomiRs, it permits extensive customization of the query process and reference databases to meet the user 's diverse research needs.
Availability and implementation
QuagmiR is written in Python and can be obtained freely from GitHub (https://github.com/Gu-Lab-RBL-NCI/QuagmiR). QuagmiR can be run from the command line on local machines, as well as on high-performance servers. A web-accessible version of the tool has also been made available for use by academic researchers through the National Cancer Institute-funded Seven Bridges Cancer Genomics Cloud (https://cancergenomicscloud.org).
Supplementary information
Supplementary data are available at Bioinformatics online.
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