Jiuming Wang
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View article: Occurrence, spatial distribution, potential sources, and risk assessment of common antibiotics in surface seawater of the Northeastern Indian Ocean
Occurrence, spatial distribution, potential sources, and risk assessment of common antibiotics in surface seawater of the Northeastern Indian Ocean Open
The increasing entry of antibiotics into the marine environment has led to marine pollution and the potential global spread of antibiotic resistance genes, posing a threat to both marine ecosystems and human health. Compared with β -lactam…
View article: DS-ProGen: A Dual-Structure Deep Language Model for Functional Protein Design
DS-ProGen: A Dual-Structure Deep Language Model for Functional Protein Design Open
Inverse Protein Folding (IPF) is a critical subtask in the field of protein design, aiming to engineer amino acid sequences capable of folding correctly into a specified three-dimensional (3D) conformation. Although substantial progress ha…
View article: Developing and Utilizing a Large-Scale Cantonese Dataset for Multi-Tasking in Large Language Models
Developing and Utilizing a Large-Scale Cantonese Dataset for Multi-Tasking in Large Language Models Open
High-quality data resources play a crucial role in learning large language models (LLMs), particularly for low-resource languages like Cantonese. Despite having more than 85 million native speakers, Cantonese is still considered a low-reso…
View article: Developing and Utilizing a Large-Scale Cantonese Dataset for Multi-Tasking in Large Language Models
Developing and Utilizing a Large-Scale Cantonese Dataset for Multi-Tasking in Large Language Models Open
View article: One-Step Rapid Enrichment Coupled with Liquid Chromatography–Tandem Mass Spectrometry for the Analysis of Marine Algal Toxins
One-Step Rapid Enrichment Coupled with Liquid Chromatography–Tandem Mass Spectrometry for the Analysis of Marine Algal Toxins Open
View article: RBPtool: A Deep Language Model Framework for Multi-Resolution RBP-RNA Binding Prediction and RNA Molecule Design
RBPtool: A Deep Language Model Framework for Multi-Resolution RBP-RNA Binding Prediction and RNA Molecule Design Open
View article: Accurate RNA 3D structure prediction using a language model-based deep learning approach
Accurate RNA 3D structure prediction using a language model-based deep learning approach Open
View article: A fast and adaptive detection framework for genome-wide chromatin loop mapping from Hi-C data
A fast and adaptive detection framework for genome-wide chromatin loop mapping from Hi-C data Open
Chromatin loop identification plays an important role in molecular biology and 3D genomics research, as it constitutes a fundamental process in transcription and gene regulation. Such precise chromatin structures can be identified across g…
View article: Fast, sensitive detection of protein homologs using deep dense retrieval
Fast, sensitive detection of protein homologs using deep dense retrieval Open
The identification of protein homologs in large databases using conventional methods, such as protein sequence comparison, often misses remote homologs. Here, we offer an ultrafast, highly sensitive method, dense homolog retriever (DHR), f…
View article: AcrNET: predicting anti-CRISPR with deep learning
AcrNET: predicting anti-CRISPR with deep learning Open
Motivation As an important group of proteins discovered in phages, anti-CRISPR inhibits the activity of the immune system of bacteria (i.e. CRISPR-Cas), offering promise for gene editing and phage therapy. However, the prediction and disco…
View article: Deep autoencoder for interpretable tissue-adaptive deconvolution and cell-type-specific gene analysis
Deep autoencoder for interpretable tissue-adaptive deconvolution and cell-type-specific gene analysis Open
Single-cell RNA-sequencing has become a powerful tool to study biologically significant characteristics at explicitly high resolution. However, its application on emerging data is currently limited by its intrinsic techniques. Here, we int…
View article: AcrNET: Predicting Anti-CRISPR with Deep Learning
AcrNET: Predicting Anti-CRISPR with Deep Learning Open
As an important group of proteins discovered in phages, anti-CRISPR inhibits the activity of the immune system of bacteria ( i.e ., CRISPR-Cas), showing great potential for gene editing and phage therapy. However, the prediction and discov…
View article: HiC-LDNet: A general and robust deep learning framework for accurate chromatin loop detection in genome-wide contact maps
HiC-LDNet: A general and robust deep learning framework for accurate chromatin loop detection in genome-wide contact maps Open
Motivation Identifying chromatin loops from genome-wide interaction matrices like Hi-C data is notoriously difficult. Such kinds of patterns can span through the genome from a hundred kilobases to thousands of kilobases. Most loop patterns…
View article: Prevalence of Neurotoxin Domoic Acid in Aquatic Environment of Bohai and Northern Yellow Seas in China
Prevalence of Neurotoxin Domoic Acid in Aquatic Environment of Bohai and Northern Yellow Seas in China Open
View article: Deep autoencoder for interpretable tissue-adaptive deconvolution and cell-type-specific gene analysis
Deep autoencoder for interpretable tissue-adaptive deconvolution and cell-type-specific gene analysis Open
Single-cell RNA-sequencing has become a powerful tool to study biologically significant characteristics at explicitly high resolution. However, its application on emerging data is currently limited by its intrinsic techniques. Here, we int…
View article: Determination of domoic acid in seawater by solid phase extraction-liquid chromatography-tandem mass spectrometry
Determination of domoic acid in seawater by solid phase extraction-liquid chromatography-tandem mass spectrometry Open
Domoic acid (DA) can poison or even be fatal to marine mammals, and poses a potential risk to human health via transmission through the food chain. The level of DA in seawater will affect the safety of seafood. Therefore, a powerful method…
View article: Distribution Characteristics and Environmental Control Factors of Lipophilic Marine Algal Toxins in Changjiang Estuary and the Adjacent East China Sea
Distribution Characteristics and Environmental Control Factors of Lipophilic Marine Algal Toxins in Changjiang Estuary and the Adjacent East China Sea Open
Marine algal toxins, highly toxic secondary metabolites, have significant influences on coastal ecosystem health and mariculture safety. The occurrence and environmental control factors of lipophilic marine algal toxins (LMATs) in the surf…