LONGO: an R package for interactive gene length dependent analysis for neuronal identity.

ABSTRACT:

Motivation

Reprogramming somatic cells into neurons holds great promise to model neuronal development and disease. The efficiency and success rate of neuronal reprogramming, however, may vary between different conversion platforms and cell types, thereby necessitating an unbiased, systematic approach to estimate neuronal identity of converted cells. Recent studies have demonstrated that long genes (>100 kb from transcription start to end) are highly enriched in neurons, which provides an opportunity to identify neurons based on the expression of these long genes.

Results

We have developed a versatile R package, LONGO, to analyze gene expression based on gene length. We propose a systematic analysis of long gene expression (LGE) with a metric termed the long gene quotient (LQ

SUBMITTER: McCoy MJ 

PROVIDER: S-EPMC6022641 | biostudies-literature | 2018 Jul

REPOSITORIES: biostudies-literature