miROme

microRNAome, a large scale expression analysis of cellular miRNA in humans.

• This repository contains files to host UCSC barChart track for easy accessibility of primary cellular microRNAOme data called ABC of cellular microRNAome which is a queryable user-friendly browser that shows miRNA expression track of interest. The tracks can easily be loaded at UCSC

• The data folder contains all of the the datasets and R scripts needed to reproduce the figures. These figures include Euclidean Distance, UMAP, and scatter box plots.

• The py_scripts folder contains a Python method to combine read counts and RPMs across all runs from the miRge3.0 output.

• This also hosts the UMAP clustering figures in PDF format and interactive HTML format. Furthermore, the R and python scripts used in this analysis are available for reference

• The Processing_Tutorial takes the user through the steps implemented starting at a Sequence Read Archive query for miRNA datasets, through miRge3.0 processing and the collation of data.

Citation

Patil, A. H., Baran, A., Brehm, Z. P., McCall, M. N., and Halushka, M. K. (2022). A curated human cellular microRNAome based on 196 primary cell types. GigaScience. 11, giac083.