[HTML][HTML] CLIP and complementary methods
RNA molecules start assembling into ribonucleoprotein (RNP) complexes during
transcription. Dynamic RNP assembly, largely directed by cis-acting elements on the RNA …
transcription. Dynamic RNP assembly, largely directed by cis-acting elements on the RNA …
The roles of hnRNP A2/B1 in RNA biology and disease
Y Liu, SL Shi - Wiley Interdisciplinary Reviews: RNA, 2021 - Wiley Online Library
The RNA‐binding protein hnRNPA2/B1 is a member of the hnRNPs family and is widely
expressed in various tissues. hnRNPA2/B1 recognizes and binds specific RNA substrates …
expressed in various tissues. hnRNPA2/B1 recognizes and binds specific RNA substrates …
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 …
perform biological functions in DNA, RNA and protein sequences—for example, the binding …
Alternative splicing during mammalian organ development
Alternative splicing (AS) is pervasive in mammalian genomes, yet cross-species
comparisons have been largely restricted to adult tissues and the functionality of most AS …
comparisons have been largely restricted to adult tissues and the functionality of most AS …
DM3Loc: multi-label mRNA subcellular localization prediction and analysis based on multi-head self-attention mechanism
Subcellular localization of messenger RNAs (mRNAs), as a prevalent mechanism, gives
precise and efficient control for the translation process. There is mounting evidence for the …
precise and efficient control for the translation process. There is mounting evidence for the …
Predicting dynamic cellular protein–RNA interactions by deep learning using in vivo RNA structures
Interactions with RNA-binding proteins (RBPs) are integral to RNA function and cellular
regulation, and dynamically reflect specific cellular conditions. However, presently available …
regulation, and dynamically reflect specific cellular conditions. However, presently available …
XSTREME: Comprehensive motif analysis of biological sequence datasets
XSTREME is a web-based tool for performing comprehensive motif discovery and analysis
in DNA, RNA or protein sequences, as well as in sequences in user-defined alphabets. It is …
in DNA, RNA or protein sequences, as well as in sequences in user-defined alphabets. It is …
Representation learning applications in biological sequence analysis
Although remarkable advances have been reported in high-throughput sequencing, the
ability to aptly analyze a substantial amount of rapidly generated biological …
ability to aptly analyze a substantial amount of rapidly generated biological …
Splicing-associated chromatin signatures: a combinatorial and position-dependent role for histone marks in splicing definition
Alternative splicing relies on the combinatorial recruitment of splicing regulators to specific
RNA binding sites. Chromatin has been shown to impact this recruitment. However, a limited …
RNA binding sites. Chromatin has been shown to impact this recruitment. However, a limited …