Yuansheng Liu
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Author Swipe
View article: Screening and predictive analysis of common regulatory genes in diabetes and rectal cancer: transcriptional and drug modulation mechanisms
Screening and predictive analysis of common regulatory genes in diabetes and rectal cancer: transcriptional and drug modulation mechanisms Open
Background There is a strong association between type 2 diabetes mellitus (T2DM) and rectal cancer (RC), but a detailed understanding of the potential mechanistic links and gene regulatory interactions between these two diseases remains li…
View article: How to Make Large Language Models Generate 100% Valid Molecules?
How to Make Large Language Models Generate 100% Valid Molecules? Open
Molecule generation is key to drug discovery and materials science, enabling the design of novel compounds with specific properties. Large language models (LLMs) can learn to perform a wide range of tasks from just a few examples. However,…
View article: Multi-scale hybrid correction of noisy long reads
Multi-scale hybrid correction of noisy long reads Open
Long-read sequencing technologies have significantly enhanced genome resolution capabilities, but their inherent high error rate (1-15%) still constrains constrains the accuracy of assembly and other downstream analyses. Existing error cor…
View article: AdaptMol: Adaptive Fusion from Sequence String to Topological Structure for Few-shot Drug Discovery
AdaptMol: Adaptive Fusion from Sequence String to Topological Structure for Few-shot Drug Discovery Open
Accurate molecular property prediction (MPP) is a critical step in modern drug development. However, the scarcity of experimental validation data poses a significant challenge to AI-driven research paradigms. Under few-shot learning scenar…
View article: Strain-level metagenomic profiling using pangenome graphs with PanTax
Strain-level metagenomic profiling using pangenome graphs with PanTax Open
Microbes are omnipresent, thriving in a range of habitats, from oceans to soils, and even within our gastrointestinal tracts. They play a vital role in maintaining ecological equilibrium and promoting the health of their hosts. Consequentl…
View article: Improvement of park drivable area segmentation method based on STDCSeg network
Improvement of park drivable area segmentation method based on STDCSeg network Open
With the increasing demand for smart mobile devices in park environments, there are higher requirements for their ability to adapt to complex scenarios. In unique park scenes such as lakeside paths and irregular stairs, the blurred road ed…
View article: Tea cultivation: facilitating soil organic carbon accumulation and altering soil bacterial community—Leishan County, Guizhou Province, Southwest China
Tea cultivation: facilitating soil organic carbon accumulation and altering soil bacterial community—Leishan County, Guizhou Province, Southwest China Open
Background Camellia sinensis is an important cash crop in southwestern China, with soil organic carbon playing a vital role in soil fertility, and microorganisms contributing significantly to nutrient cycling, thus both of them influencing…
View article: Characteristics on modified complex of Red Mud and Phosphogypsum and its soil substrates utilization
Characteristics on modified complex of Red Mud and Phosphogypsum and its soil substrates utilization Open
Red mud and phosphogypsum are by-products in the production process of aluminum manufacturing and phosphorus chemical industry respectively. PO43−, F−and Cd2+ in phosphogypsum and Na+ plasma in red mud will leach into water and soil after …
View article: Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat
Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat Open
Error self-correction is crucial for analyzing long-read sequencing data, but existing methods often struggle with noisy data or are tailored to technologies like PacBio HiFi. There is a gap in methods optimized for Nanopore R10 simplex re…
View article: PanTax: Strain-level taxonomic classification of metagenomic data using pangenome graphs
PanTax: Strain-level taxonomic classification of metagenomic data using pangenome graphs Open
Microbes are omnipresent, thriving in a range of habitats from oceans to soils and even within our gastrointestinal tracts. They play a vital role in maintaining ecological equilibrium and promoting the health of their hosts. Consequently,…
View article: Bridging chemical structure and conceptual knowledge enables accurate prediction of compound-protein interaction
Bridging chemical structure and conceptual knowledge enables accurate prediction of compound-protein interaction Open
Overall, our work provides a general approach for directly injecting conceptual knowledge to enhance the performance of CPI prediction.
View article: Anti-symmetric framework for balanced learning of protein–protein interactions
Anti-symmetric framework for balanced learning of protein–protein interactions Open
Motivation Protein–protein interactions (PPIs) are essential for the regulation and facilitation of virtually all biological processes. Computational tools, particularly those based on deep learning, are preferred for the efficient predict…
View article: Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat
Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat Open
Error self-correction is a pivotal first step in the analysis of long-read sequencing data. However, most existing methods for this purpose are primarily tailored for noisy sequencing data with error rates exceeding 5%, often collapsing tr…
View article: Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat
Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat Open
Error self-correction is a pivotal first step in the analysis of long-read sequencing data. However, most existing methods for this purpose are primarily tailored for noisy sequencing data with error rates exceeding 5%, often collapsing tr…
View article: HydrogelFinder: A Foundation Model for Efficient Self‐Assembling Peptide Discovery Guided by Non‐Peptidal Small Molecules
HydrogelFinder: A Foundation Model for Efficient Self‐Assembling Peptide Discovery Guided by Non‐Peptidal Small Molecules Open
Self‐assembling peptides have numerous applications in medicine, food chemistry, and nanotechnology. However, their discovery has traditionally been serendipitous rather than driven by rational design. Here, HydrogelFinder, a foundation mo…
View article: Research on Behavioral Decision at an Unsignalized Roundabout for Automatic Driving Based on Proximal Policy Optimization Algorithm
Research on Behavioral Decision at an Unsignalized Roundabout for Automatic Driving Based on Proximal Policy Optimization Algorithm Open
Unsignalized roundabouts have a significant impact on traffic flow and vehicle safety. To address the challenge of autonomous vehicles passing through roundabouts with low penetration, improve their efficiency, and ensure safety and stabil…
View article: Insights into lignocellulose degradation: comparative genomics of anaerobic and cellulolytic Ruminiclostridium-type species
Insights into lignocellulose degradation: comparative genomics of anaerobic and cellulolytic Ruminiclostridium-type species Open
Mesophilic, anaerobic, and cellulolytic Ruminiclostridium -type bacterial species can secrete an extracellular, multi-enzyme machinery cellulosome, which efficiently degrades cellulose. In this study, we first reported the complete genome …
View article: GPMO: Gradient Perturbation-Based Contrastive Learning for Molecule Optimization
GPMO: Gradient Perturbation-Based Contrastive Learning for Molecule Optimization Open
Optimizing molecules with desired properties is a crucial step in de novo drug design. While translation-based methods have achieved initial success, they continue to face the challenge of the “exposure bias” problem. The challenge of prev…
View article: Research on Improved YOLOv5 for Low-Light Environment Object Detection
Research on Improved YOLOv5 for Low-Light Environment Object Detection Open
Object detection in low-light scenarios has been widely acknowledged as a significant research area in the field of computer vision, presenting a challenging task. Aiming at the low detection accuracy of mainstream single-stage object dete…
View article: Integration of hybrid and self-correction method improves the quality of long-read sequencing data
Integration of hybrid and self-correction method improves the quality of long-read sequencing data Open
Third-generation sequencing (TGS) technologies have revolutionized genome science in the past decade. However, the long-read data produced by TGS platforms suffer from a much higher error rate than that of the previous technologies, thus c…
View article: Autonomous Driving Decision Control Based on Improved Proximal Policy Optimization Algorithm
Autonomous Driving Decision Control Based on Improved Proximal Policy Optimization Algorithm Open
The decision-making control of autonomous driving in complex urban road environments is a difficult problem in the research of autonomous driving. In order to solve the problem of high dimensional state space and sparse reward in autonomou…
View article: An fMRI study of visual geometric shapes processing
An fMRI study of visual geometric shapes processing Open
Cross-modal correspondence has been consistently evidenced between shapes and other sensory attributes. Especially, the curvature of shapes may arouse the affective account, which may contribute to understanding the mechanism of cross-moda…
View article: Pedestrian detection based on YOLOv3 multimodal data fusion
Pedestrian detection based on YOLOv3 multimodal data fusion Open
Multi-sensor fusion has essential applications in the field of target detection. Considering the current actual demand for miniaturization of on-board computers for driverless vehicles, this paper uses the multimodal data YOLOv3 (MDY) algo…
View article: Antiphospholipid Syndrome-Related Pulmonary Embolism: Clinical Characteristics and Early Recognition
Antiphospholipid Syndrome-Related Pulmonary Embolism: Clinical Characteristics and Early Recognition Open
Background Pulmonary thromboembolism is a common disease frequently encountered in the emergency room and has a high mortality rate. Antiphospholipid syndrome (APS) is a high-risk factor for recurrent pulmonary embolism (PE). It is critica…
View article: High-Precision and Fast LiDAR Odometry and Mapping Algorithm
High-Precision and Fast LiDAR Odometry and Mapping Algorithm Open
LiDAR SLAM technology is an important method for the accurate navigation of automatic vehicles and is a prerequisite for the safe driving of automatic vehicles in the unstructured road environment of complex parks. This paper proposes a Li…