Long non-coding RNAs and complex diseases: from experimental results to computational models

X Chen, CC Yan, X Zhang, ZH You - Briefings in bioinformatics, 2017 - academic.oup.com
LncRNAs have attracted lots of attentions from researchers worldwide in recent decades.
With the rapid advances in both experimental technology and computational prediction …

Evolution to the rescue: using comparative genomics to understand long non-coding RNAs

I Ulitsky - Nature Reviews Genetics, 2016 - nature.com
Long non-coding RNAs (lncRNAs) have emerged in recent years as major players in a
multitude of pathways across species, but it remains challenging to understand which of …

NONCODEV6: an updated database dedicated to long non-coding RNA annotation in both animals and plants

L Zhao, J Wang, Y Li, T Song, Y Wu, S Fang… - Nucleic acids …, 2021 - academic.oup.com
Abstract NONCODE (http://www. noncode. org/) is a comprehensive database of collection
and annotation of noncoding RNAs, especially long non-coding RNAs (lncRNAs) in animals …

FEELnc: a tool for long non-coding RNA annotation and its application to the dog transcriptome

V Wucher, F Legeai, B Hédan, G Rizk… - Nucleic acids …, 2017 - academic.oup.com
Whole transcriptome sequencing (RNA-seq) has become a standard for cataloguing and
monitoring RNA populations. One of the main bottlenecks, however, is to correctly identify …

Non-coding RNAs and their roles in stress response in plants

J Wang, X Meng, OB Dobrovolskaya… - Genomics …, 2017 - academic.oup.com
Eukaryotic genomes encode thousands of non-coding RNAs (ncRNAs), which play crucial
roles in transcriptional and post-transcriptional regulation of gene expression. Accumulating …

PLncDB V2. 0: a comprehensive encyclopedia of plant long noncoding RNAs

J Jin, P Lu, Y Xu, Z Li, S Yu, J Liu, H Wang… - Nucleic Acids …, 2021 - academic.oup.com
Long noncoding RNAs (lncRNAs) are transcripts longer than 200 nucleotides with little or no
protein coding potential. The expanding list of lncRNAs and accumulating evidence of their …

Computational models for lncRNA function prediction and functional similarity calculation

X Chen, YZ Sun, NN Guan, J Qu… - Briefings in …, 2019 - academic.oup.com
From transcriptional noise to dark matter of biology, the rapidly changing view of long non-
coding RNA (lncRNA) leads to deep understanding of human complex diseases induced by …

CottonFGD: an integrated functional genomics database for cotton

T Zhu, C Liang, Z Meng, G Sun, Z Meng, S Guo… - BMC plant biology, 2017 - Springer
Abstract Background Cotton (Gossypium spp.) is the most important fiber and oil crop in the
world. With the emergence of huge-omics data sets, it is essential to have an integrated …

Comprehensive profiling of rhizome‐associated alternative splicing and alternative polyadenylation in moso bamboo (Phyllostachys edulis)

T Wang, H Wang, D Cai, Y Gao, H Zhang… - The Plant …, 2017 - Wiley Online Library
Moso bamboo (Phyllostachys edulis) represents one of the fastest‐spreading plants in the
world, due in part to its well‐developed rhizome system. However, the post‐transcriptional …

Long noncoding RNAs in plants

HLV Wang, JA Chekanova - Long non coding RNA biology, 2017 - Springer
The eukaryotic genomes are pervasively transcribed. In addition to protein-coding RNAs,
thousands of long noncoding RNAs (lncRNAs) modulate key molecular and biological …