Linking discoveries, mechanisms, and technologies to develop a clearer perspective on plant long noncoding RNAs

K Palos, L Yu, CE Railey, AC Nelson Dittrich… - The Plant …, 2023 - academic.oup.com
Long noncoding RNAs (lncRNAs) are a large and diverse class of genes in eukaryotic
genomes that contribute to a variety of regulatory processes. Functionally characterized …

Long non-coding RNA (lncRNA) roles in cell biology, neurodevelopment and neurological disorders

V Aliperti, J Skonieczna, A Cerase - Non-coding RNA, 2021 - mdpi.com
Development is a complex process regulated both by genetic and epigenetic and
environmental clues. Recently, long non-coding RNAs (lncRNAs) have emerged as key …

lncLocator 2.0: a cell-line-specific subcellular localization predictor for long non-coding RNAs with interpretable deep learning

Y Lin, X Pan, HB Shen - Bioinformatics, 2021 - academic.oup.com
Abstract Motivation Long non-coding RNAs (lncRNAs) are generally expressed in a tissue-
specific way, and subcellular localizations of lncRNAs depend on the tissues or cell lines …

GraphLncLoc: long non-coding RNA subcellular localization prediction using graph convolutional networks based on sequence to graph transformation

M Li, B Zhao, R Yin, C Lu, F Guo… - Briefings in …, 2023 - academic.oup.com
The subcellular localization of long non-coding RNAs (lncRNAs) is crucial for understanding
lncRNA functions. Most of existing lncRNA subcellular localization prediction methods use k …

TACOS: a novel approach for accurate prediction of cell-specific long noncoding RNAs subcellular localization

YJ Jeon, MM Hasan, HW Park, KW Lee… - Briefings in …, 2022 - academic.oup.com
Long noncoding RNAs (lncRNAs) are primarily regulated by their cellular localization, which
is responsible for their molecular functions, including cell cycle regulation and genome …

RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies

J Wang, M Horlacher, L Cheng… - Briefings in …, 2023 - academic.oup.com
RNA localization is essential for regulating spatial translation, where RNAs are trafficked to
their target locations via various biological mechanisms. In this review, we discuss RNA …

LncLocFormer: a Transformer-based deep learning model for multi-label lncRNA subcellular localization prediction by using localization-specific attention mechanism

M Zeng, Y Wu, Y Li, R Yin, C Lu, J Duan, M Li - Bioinformatics, 2023 - academic.oup.com
Motivation There is mounting evidence that the subcellular localization of lncRNAs can
provide valuable insights into their biological functions. In the real world of transcriptomes …

Suppression of lncRNA NLRP3 inhibits NLRP3-triggered inflammatory responses in early acute lung injury

D Luo, W Dai, X Feng, C Ding, Q Shao, R Xiao… - Cell Death & …, 2021 - nature.com
Acute lung injury (ALI) is a common lung pathology that is accompanied by alveolar
macrophage (AM) activation and inflammatory response. This study investigated the role of …

GM-lncLoc: LncRNAs subcellular localization prediction based on graph neural network with meta-learning

J Cai, T Wang, X Deng, L Tang, L Liu - BMC genomics, 2023 - Springer
In recent years, a large number of studies have shown that the subcellular localization of
long non-coding RNAs (lncRNAs) can bring crucial information to the recognition of …

Aid or antagonize: nuclear long noncoding RNAs regulate host responses and outcomes of viral infections

V Kulkarni, S Jayakumar, M Mohan, S Kulkarni - Cells, 2023 - mdpi.com
Long noncoding RNAs (lncRNAs) are transcripts measuring> 200 bp in length and devoid of
protein-coding potential. LncRNAs exceed the number of protein-coding mRNAs and …