Non-coding RNAs in development and disease: background, mechanisms, and therapeutic approaches

J Beermann, MT Piccoli, J Viereck… - Physiological …, 2016 - journals.physiology.org
Advances in RNA-sequencing techniques have led to the discovery of thousands of non-
coding transcripts with unknown function. There are several types of non-coding linear …

Insights into RNA structure and function from genome-wide studies

SA Mortimer, MA Kidwell, JA Doudna - Nature Reviews Genetics, 2014 - nature.com
A comprehensive understanding of RNA structure will provide fundamental insights into the
cellular function of both coding and non-coding RNAs. Although many RNA structures have …

Automated model building and protein identification in cryo-EM maps

K Jamali, L Käll, R Zhang, A Brown, D Kimanius… - Nature, 2024 - nature.com
Interpreting electron cryo-microscopy (cryo-EM) maps with atomic models requires high
levels of expertise and labour-intensive manual intervention in three-dimensional computer …

RNA secondary structure prediction using deep learning with thermodynamic integration

K Sato, M Akiyama, Y Sakakibara - Nature communications, 2021 - nature.com
Accurate predictions of RNA secondary structures can help uncover the roles of functional
non-coding RNAs. Although machine learning-based models have achieved high …

Genome-wide gene expression tuning reveals diverse vulnerabilities of M. tuberculosis

B Bosch, MA DeJesus, NC Poulton, W Zhang… - Cell, 2021 - cell.com
Antibacterial agents target the products of essential genes but rarely achieve complete
target inhibition. Thus, the all-or-none definition of essentiality afforded by traditional genetic …

[HTML][HTML] Prediction of prime editing insertion efficiencies using sequence features and DNA repair determinants

J Koeppel, J Weller, EM Peets, A Pallaseni… - Nature …, 2023 - nature.com
Most short sequences can be precisely written into a selected genomic target using prime
editing; however, it remains unclear what factors govern insertion. We design a library of …

[HTML][HTML] Detailed dissection and critical evaluation of the Pfizer/BioNTech and Moderna mRNA vaccines

X Xia - Vaccines, 2021 - mdpi.com
The design of Pfizer/BioNTech and Moderna mRNA vaccines involves many different types
of optimizations. Proper optimization of vaccine mRNA can reduce dosage required for each …

c-Myc-targeting PROTAC based on a TNA-DNA bivalent binder for combination therapy of triple-negative breast cancer

X Li, Z Zhang, F Gao, Y Ma, D Wei, Z Lu… - Journal of the …, 2023 - ACS Publications
Triple-negative breast cancer (TNBC) is highly aggressive with a poor clinical prognosis and
no targeted therapy. The c-Myc protein is a master transcription factor and a potential …

The HIF-1α antisense long non-coding RNA drives a positive feedback loop of HIF-1α mediated transactivation and glycolysis

F Zheng, J Chen, X Zhang, Z Wang, J Chen… - Nature …, 2021 - nature.com
Abstract Hypoxia-inducible factor-1 (HIF-1) is a master driver of glucose metabolism in
cancer cells. Here, we demonstrate that a HIF-1α anti-sense lncRNA, HIFAL, is essential for …

Long noncoding RNA DIO3OS induces glycolytic-dominant metabolic reprogramming to promote aromatase inhibitor resistance in breast cancer

X Chen, R Luo, Y Zhang, S Ye, X Zeng, J Liu… - Nature …, 2022 - nature.com
Aromatase inhibition is an efficient endocrine therapy to block ectopic estrogen production
for postmenopausal estrogen receptor (ER)-positive breast cancer patients, but many …