Evolutionary analysis across mammals reveals distinct classes of long non-coding RNAs

J Chen, AA Shishkin, X Zhu, S Kadri, I Maza… - Genome biology, 2016 - Springer
Background Recent advances in transcriptome sequencing have enabled the discovery of
thousands of long non-coding RNAs (lncRNAs) across many species. Though several …

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 …

Secondary structure impacts patterns of selection in human lncRNAs

C Pegueroles, T Gabaldón - BMC biology, 2016 - Springer
Background Metazoans transcribe many long non-coding RNAs (lncRNAs) that are poorly
conserved and whose function remains unknown. This has raised the questions of what …

Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotes

RA Chodroff, L Goodstadt, TM Sirey, PL Oliver… - Genome biology, 2010 - Springer
Background Long considered to be the building block of life, it is now apparent that protein is
only one of many functional products generated by the eukaryotic genome. Indeed, more of …

Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis

A Pauli, E Valen, MF Lin, M Garber… - Genome …, 2012 - genome.cshlp.org
Long noncoding RNAs (lncRNAs) comprise a diverse class of transcripts that structurally
resemble mRNAs but do not encode proteins. Recent genome-wide studies in humans and …

Evolutionary conservation of long non-coding RNAs; sequence, structure, function

P Johnsson, L Lipovich, D Grandér… - Biochimica et Biophysica …, 2014 - Elsevier
Background Recent advances in genomewide studies have revealed the abundance of long
non-coding RNAs (lncRNAs) in mammalian transcriptomes. The ENCODE Consortium has …

Mining mammalian transcript data for functional long non-coding RNAs

AN Khachane, PM Harrison - PloS one, 2010 - journals.plos.org
Background The role of long non-coding RNAs (lncRNAs) in controlling gene expression
has garnered increased interest in recent years. Sequencing projects, such as Fantom3 for …

Rapid turnover of long noncoding RNAs and the evolution of gene expression

C Kutter, S Watt, K Stefflova, MD Wilson… - PLoS …, 2012 - journals.plos.org
A large proportion of functional sequence within mammalian genomes falls outside protein-
coding exons and can be transcribed into long RNAs. However, the roles in mammalian …

AnnoLnc2: the one-stop portal to systematically annotate novel lncRNAs for human and mouse

L Ke, DC Yang, Y Wang, Y Ding… - Nucleic acids research, 2020 - academic.oup.com
With the abundant mammalian lncRNAs identified recently, a comprehensive annotation
resource for these novel lncRNAs is an urgent need. Since its first release in November …

Intergenic lncRNAs and the evolution of gene expression

AC Marques, CP Ponting - Current opinion in genetics & development, 2014 - Elsevier
Eukaryote genomes encode a surprisingly large number of noncoding transcripts. Around
two-thirds of human transcribed loci do not encode protein, and many are intergenic and …