[HTML][HTML] CLIP and complementary methods

M Hafner, M Katsantoni, T Köster, J Marks… - Nature Reviews …, 2021 - nature.com
RNA molecules start assembling into ribonucleoprotein (RNP) complexes during
transcription. Dynamic RNP assembly, largely directed by cis-acting elements on the RNA …

RNA-binding proteins in tumor progression

H Qin, H Ni, Y Liu, Y Yuan, T Xi, X Li… - Journal of hematology & …, 2020 - Springer
RNA-binding protein (RBP) has a highly dynamic spatiotemporal regulation process and
important biological functions. They are critical to maintain the transcriptome through post …

TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A

AL Brown, OG Wilkins, MJ Keuss, SE Hill, M Zanovello… - Nature, 2022 - nature.com
Variants of UNC13A, a critical gene for synapse function, increase the risk of amyotrophic
lateral sclerosis and frontotemporal dementia,–, two related neurodegenerative diseases …

STREME: accurate and versatile sequence motif discovery

TL Bailey - Bioinformatics, 2021 - academic.oup.com
Motivation Sequence motif discovery algorithms can identify novel sequence patterns that
perform biological functions in DNA, RNA and protein sequences—for example, the binding …

Gene discovery and polygenic prediction from a genome-wide association study of educational attainment in 1.1 million individuals

JJ Lee, R Wedow, A Okbay, E Kong, O Maghzian… - Nature …, 2018 - nature.com
Here we conducted a large-scale genetic association analysis of educational attainment in a
sample of approximately 1.1 million individuals and identify 1,271 independent genome …

A brave new world of RNA-binding proteins

MW Hentze, A Castello, T Schwarzl… - Nature reviews Molecular …, 2018 - nature.com
RNA-binding proteins (RBPs) are typically thought of as proteins that bind RNA through one
or multiple globular RNA-binding domains (RBDs) and change the fate or function of the …

Gene2vec: gene subsequence embedding for prediction of mammalian N6-methyladenosine sites from mRNA

Q Zou, P Xing, L Wei, B Liu - Rna, 2019 - rnajournal.cshlp.org
N 6-Methyladenosine (m6A) refers to methylation modification of the adenosine nucleotide
acid at the nitrogen-6 position. Many conventional computational methods for identifying N 6 …

Functional 5′ UTR mRNA structures in eukaryotic translation regulation and how to find them

K Leppek, R Das, M Barna - Nature reviews Molecular cell biology, 2018 - nature.com
RNA molecules can fold into intricate shapes that can provide an additional layer of control
of gene expression beyond that of their sequence. In this Review, we discuss the current …

Applications of deep learning and reinforcement learning to biological data

M Mahmud, MS Kaiser, A Hussain… - IEEE transactions on …, 2018 - ieeexplore.ieee.org
Rapid advances in hardware-based technologies during the past decades have opened up
new possibilities for life scientists to gather multimodal data in various application domains …

What are 3′ UTRs doing?

C Mayr - Cold Spring Harbor perspectives in biology, 2019 - cshperspectives.cshlp.org
SUMMARY 3′ untranslated regions (3′ UTRs) of messenger RNAs (mRNAs) are best
known to regulate mRNA-based processes, such as mRNA localization, mRNA stability, and …