The rise of regulatory RNA

KV Morris, JS Mattick - Nature Reviews Genetics, 2014 - nature.com
Discoveries over the past decade portend a paradigm shift in molecular biology. Evidence
suggests that RNA is not only functional as a messenger between DNA and protein but also …

The long-term restoration of ecosystem complexity

D Moreno-Mateos, A Alberdi, E Morriën… - Nature Ecology & …, 2020 - nature.com
Multiple large-scale restoration strategies are emerging globally to counteract ecosystem
degradation and biodiversity loss. However, restoration often remains insufficient to offset …

[HTML][HTML] SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes

I Jungreis, R Sealfon, M Kellis - Nature communications, 2021 - nature.com
Despite its clinical importance, the SARS-CoV-2 gene set remains unresolved, hindering
dissection of COVID-19 biology. We use comparative genomics to provide a high …

[HTML][HTML] Synonymous mutations frequently act as driver mutations in human cancers

F Supek, B Miñana, J Valcárcel, T Gabaldón, B Lehner - Cell, 2014 - cell.com
Synonymous mutations change the sequence of a gene without directly altering the
sequence of the encoded protein. Here, we present evidence that these" silent" mutations …

[HTML][HTML] A high-resolution map of human evolutionary constraint using 29 mammals

K Lindblad-Toh, M Garber, O Zuk, MF Lin, BJ Parker… - Nature, 2011 - nature.com
The comparison of related genomes has emerged as a powerful lens for genome
interpretation. Here we report the sequencing and comparative analysis of 29 eutherian …

[HTML][HTML] Locked nucleic acid: modality, diversity, and drug discovery

PH Hagedorn, R Persson, ED Funder, N Albæk… - Drug Discovery …, 2018 - Elsevier
Highlights•Locked nucleic acid-modified antisense oligonucleotides (LNAs) bind to and
modulate RNA.•The high binding affinity of LNAs significantly improves potency.•Structural …

Exonic transcription factor binding directs codon choice and affects protein evolution

AB Stergachis, E Haugen, A Shafer, W Fu, B Vernot… - Science, 2013 - science.org
Genomes contain both a genetic code specifying amino acids and a regulatory code
specifying transcription factor (TF) recognition sequences. We used genomic …

Using genomics to characterize evolutionary potential for conservation of wild populations

KA Harrisson, A Pavlova, M Telonis‐Scott… - Evolutionary …, 2014 - Wiley Online Library
Genomics promises exciting advances towards the important conservation goal of
maximizing evolutionary potential, notwithstanding associated challenges. Here, we explore …

Sounds of silence: synonymous nucleotides as a key to biological regulation and complexity

SA Shabalina, NA Spiridonov… - Nucleic acids research, 2013 - academic.oup.com
Messenger RNA is a key component of an intricate regulatory network of its own. It
accommodates numerous nucleotide signals that overlap protein coding sequences and are …

Coding exons function as tissue-specific enhancers of nearby genes

RY Birnbaum, EJ Clowney, O Agamy, MJ Kim… - Genome …, 2012 - genome.cshlp.org
Enhancers are essential gene regulatory elements whose alteration can lead to
morphological differences between species, developmental abnormalities, and human …