2022-071 – Simultaneous Detection of Short and Long RNAs On Long RNA Sequencing Platforms

Both long and short read RNA sequencing platforms exist and offer their own unique advantages for genetic analyses. For example, sequencing of long coding RNAs informs about the abundance and the novelty in the transcriptome, while sequencing of short coding RNAs (e.g. miRNAs) informs about the epigenetic regulation of transcriptome. Currently, each of these goals is addressed by separate sequencing experiments given the different physical characteristics (e.g. length/circular nature) of RNA species. Attempts to sequence both short and long RNAs from the same experimental run have not proven to be feasible when using any of the available methodologies for short (Illumina) and long (Nanopore) sequencing. Therefore, a platform capable of simultaneously profiling short and long RNA reads in the same experimental run would meet an unmet need in epigenetic research applications.

Technology Description
A researcher, in the Department of Internal Medicine, at the University of New Mexico has described a single tube protocol for the creation of libraries from RNAs (isolated from cells, extracellular media e.g. blood or urine) that allows the simultaneous detection of short and long RNAs using platforms for long RNA sequencing. The nontrivial extension of existing wet lab protocols, utilized by Oxford Nanopore Technologies for transcriptomic and epigenetic analysis, allows reads of at least 20 nucleotides long to be identified and detected, when accompanied by a relevant bioinformatics workflow to implement the data analysis of the sequencing files.




  • Simultaneous detection of short and long read RNA
  • Allows relative quantification for simultaneous transcriptomic and epigenetic control analyses
  • Linear detection over 5 orders of magnitude and 3 orders of length

Potential Applications

  • Epigenetic Research
  • Systems Biology
  • Biomarker Discovery

Contact Information

Name: Gregg Banninger

Email: GBanninger@innovations.unm.edu

Phone: 505-272-7908