RT Journal Article
SR Electronic
T1 miRNAgFree: prediction and profiling of novel microRNAs without genome assembly
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 193094
DO 10.1101/193094
A1 EL Aparicio
A1 A Rueda
A1 B. Fromm
A1 C Gómez-Martín
A1 R Lebrón
A1 JL Oliver
A1 JA Marchal
A1 M Kotsyfakis
A1 M Hackenberg
YR 2017
UL http://biorxiv.org/content/early/2017/09/23/193094.abstract
AB The prediction of novel miRNA genes generally requires the availability of genome sequences in order to assess important properties such as the characteristic hairpin-shaped secondary structure. However, although the sequencing costs have decreased over the last years, still many important species lack an assembled genome of certain quality. We implemented an algorithm which for the first time exploits characteristic biogenesis features like the 5’ homogeneity that can be assessed without genome sequences. We used a phylogenetically broad spectrum of well annotated animal genomes for benchmarking. We found that between 90-100% of the most expressed miRNA candidates (top quartile) corresponded to known miRNA sequences.