Multiple model species selection for transcriptomics analysis of non-model organisms.

ABSTRACT:

Background

Transcriptomic sequencing (RNA-seq) related applications allow for rapid explorations due to their high-throughput and relatively fast experimental capabilities, providing unprecedented progress in gene functional annotation, gene regulation analysis, and environmental factor verification. However, with increasing amounts of sequenced reads and reference model species, the selection of appropriate reference species for gene annotation has become a new challenge.

Methods

We proposed a novel approach for finding the most effective reference model species through taxonomic associations and ultra-conserved orthologous (UCO) gene comparisons among species. An online system for multiple species selection (MSS) for RNA-seq differential expression analysis was developed,

SUBMITTER: Pai TW 

PROVIDER: S-EPMC6101069 | biostudies-literature | 2018 Aug

REPOSITORIES: biostudies-literature