The role of non-coding RNAs in oncology

FJ Slack, AM Chinnaiyan - Cell, 2019 - cell.com
For decades, research into cancer biology focused on the involvement of protein-coding
genes. Only recently was it discovered that an entire class of molecules, termed non-coding …

Non-coding RNA regulatory networks

S Panni, RC Lovering, P Porras, S Orchard - Biochimica et biophysica acta …, 2020 - Elsevier
It is well established that the vast majority of human RNA transcripts do not encode for
proteins and that non-coding RNAs regulate cell physiology and shape cellular functions. A …

Accurate prediction of protein–nucleic acid complexes using RoseTTAFoldNA

M Baek, R McHugh, I Anishchenko, H Jiang, D Baker… - Nature …, 2024 - nature.com
Protein–RNA and protein–DNA complexes play critical roles in biology. Despite
considerable recent advances in protein structure prediction, the prediction of the structures …

The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans

GTEx Consortium, KG Ardlie, DS Deluca, AV Segrè… - Science, 2015 - science.org
Understanding the functional consequences of genetic variation, and how it affects complex
human disease and quantitative traits, remains a critical challenge for biomedicine. We …

Decoding myofibroblast origins in human kidney fibrosis

C Kuppe, MM Ibrahim, J Kranz, X Zhang, S Ziegler… - Nature, 2021 - nature.com
Kidney fibrosis is the hallmark of chronic kidney disease progression; however, at present
no antifibrotic therapies exist,–. The origin, functional heterogeneity and regulation of scar …

SARS-CoV-2 receptor ACE2 is an interferon-stimulated gene in human airway epithelial cells and is detected in specific cell subsets across tissues

CGK Ziegler, SJ Allon, SK Nyquist, IM Mbano, VN Miao… - Cell, 2020 - cell.com
There is pressing urgency to understand the pathogenesis of the severe acute respiratory
syndrome coronavirus clade 2 (SARS-CoV-2), which causes the disease COVID-19. SARS …

The prognostic landscape of genes and infiltrating immune cells across human cancers

AJ Gentles, AM Newman, CL Liu, SV Bratman… - Nature medicine, 2015 - nature.com
Molecular profiles of tumors and tumor-associated cells hold great promise as biomarkers of
clinical outcomes. However, existing data sets are fragmented and difficult to analyze …

A general framework for estimating the relative pathogenicity of human genetic variants

M Kircher, DM Witten, P Jain, BJ O'roak, GM Cooper… - Nature …, 2014 - nature.com
Current methods for annotating and interpreting human genetic variation tend to exploit a
single information type (for example, conservation) and/or are restricted in scope (for …

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

JD Buenrostro, PG Giresi, LC Zaba, HY Chang… - Nature …, 2013 - nature.com
We describe an assay for transposase-accessible chromatin using sequencing (ATAC-seq),
based on direct in vitro transposition of sequencing adaptors into native chromatin, as a …

[HTML][HTML] An integrated encyclopedia of DNA elements in the human genome

ENCODE Project Consortium - Nature, 2012 - ncbi.nlm.nih.gov
The human genome encodes the blueprint of life, but the function of the vast majority of its
nearly three billion bases is unknown. The Encyclopedia of DNA Elements (ENCODE) …