Search arXiv⌕ Search
Home/Archive/arXiv

arXiv · 2504.17162

A Comprehensive Review on RNA Subcellular Localization Prediction

Cece Zhang·Xuehuan Zhu·Nick Peterson·Jieqiong Wang·Shibiao Wan
View original source ↗Read source document ↗Export metadata ↓

Abstract

The subcellular localization of RNAs, including long non-coding RNAs (lncRNAs), messenger RNAs (mRNAs), microRNAs (miRNAs) and other smaller RNAs, plays a critical role in determining their biological functions. For instance, lncRNAs are predominantly associated with chromatin and act as regulators of gene transcription and chromatin structure, while mRNAs are distributed across the nucleus and cytoplasm, facilitating the transport of genetic information for protein synthesis. Understanding RNA localization sheds light on processes like gene expression regulation with spatial and temporal precision. However, traditional wet lab methods for determining RNA localization, such as in situ hybridization, are often time-consuming, resource-demanding, and costly. To overcome these challenges, computational methods leveraging artificial intelligence (AI) and machine learning (ML) have emerged as powerful alternatives, enabling large-scale prediction of RNA subcellular localization. This paper provides a comprehensive review of the latest advancements in AI-based approaches for RNA subcellular localization prediction, covering various RNA types and focusing on sequence-based, image-based, and hybrid methodologies that combine both data types. We highlight the potential of these methods to accelerate RNA research, uncover molecular pathways, and guide targeted disease treatments. Furthermore, we critically discuss the challenges in AI/ML approaches for RNA subcellular localization, such as data scarcity and lack of benchmarks, and opportunities to address them. This review aims to serve as a valuable resource for researchers seeking to develop innovative solutions in the field of RNA subcellular localization and beyond.

Explore related subjects

cs.CVcs.AIq-bio.GNq-bio.SC

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Cece Zhang, Xuehuan Zhu, Nick Peterson, Jieqiong Wang, Shibiao Wan. 2025-04-24. A Comprehensive Review on RNA Subcellular Localization Prediction. https://arxiv.org/abs/2504.17162

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related papers

arXiv2026

Tackling fluffy clouds: robust agricultural field boundary delineation from Sentinel-1 and Sentinel-2 satellite image time series

Accurate delineation of agricultural field boundaries is essential for effective crop monitoring and resource management. However, competing methodologies often face significant challenges, particularly in their reliance on extensive manual efforts for cloud-free data curation and limited adaptability to diverse global conditions. In this paper, we introduce PTAViT3D, a deep learning architecture specifically designed for processing three-dimensional time series of satellite imagery from either Sentinel-1 (S1) or Sentinel-2 (S2). Additionally, we present PTAViT3D-CA, an extension of the PTAViT3D model incorporating cross-attention mechanisms to fuse S1 and S2 datasets, enhancing robustness in cloud-contaminated scenarios. The proposed methods leverage spatio-temporal correlations through a memory-efficient 3D Vision Transformer architecture, facilitating accurate boundary delineation directly from preprocessed, cloud-affected imagery. We comprehensively validate our models through extensive testing on various datasets, including Australia's ePaddocks - CSIRO's national, continental-scale agricultural field boundary product covering Australia's cropping regions - alongside public benchmarks Fields-of-the-World, PASTIS, and AI4SmallFarms. Our results consistently demonstrate state-of-the-art performance, highlighting excellent global transferability and robustness. Crucially, our approach significantly simplifies data preparation workflows by reliably processing cloud-affected imagery, thereby offering strong adaptability across diverse agricultural environments. Our code and models are publicly available at https://github.com/feevos/tfcl.

cs.CV↗
arXiv2026

Copy-Move Forgery Detection and Question Answering for Remote Sensing Image

Driven by practical demands in land resource monitoring and national defense security, this paper introduces the Remote Sensing Copy-Move Question Answering (RSCMQA) task. Unlike traditional Remote Sensing Visual Question Answering (RSVQA), RSCMQA focuses on interpreting complex tampering scenarios and inferring relationships between objects. We present a suite of global RSCMQA datasets, comprising images from 29 different regions across 14 countries. Specifically, we propose five distinct datasets, including the basic dataset RS-CMQA, the category-balanced dataset RS-CMQA-B, the high-authenticity dataset Real-RSCM, the extended dataset RS-TQA, and the extended category-balanced dataset RS-TQA-B. These datasets fill a critical gap in the field while ensuring comprehensiveness, balance, and challenging scenarios. Furthermore, we introduce a region-discrimination-guided multimodal copy-move forgery perception framework (CMFPF), which enhances the accuracy of answering questions about tampered images by leveraging prompts about the differences and connections between the source and tampered regions. Extensive experiments demonstrate that our method establishes a stronger benchmark for RSCMQA compared to general VQA and RSVQA models. Our datasets and code are publicly available at https://github.com/shenyedepisa/RSCMQA.

cs.CV↗
arXiv2026

SMDDFNet: State-space Modeling and Dynamic Dual Fusion Network for Traffic Sign Detection

Traffic sign detection is a challenging visual signal processing task for advanced driver assistance, where small objects, scale variation, and occlusion limit conventional detectors with fixed receptive fields. This paper proposes State-space Modeling and Dynamic Dual Fusion Network (SMDDFNet), a deep learning detector for traffic sign images. SMDDFNet integrates a Dynamic Dual Fusion (DDF) module and a state-space modeling backbone to enhance multi-scale feature representation. DDF combines efficient multi-scale attention with content-aware dynamic filtering in the frequency domain, while the backbone captures long-range dependencies with linear computational complexity. A multi-scale feature fusion neck further aggregates pyramid features for robust localization of small signs. Experiments on TT100K, GTSDB, PASCAL VOC, and the Roboflow~100 \emph{vehicle} subset show that SMDDFNet achieves competitive accuracy against recent detectors while retaining real-time throughput. The source code is available at https://github.com/rainbowyuyu/SMDDFNet

cs.CV↗