Interdisciplinary Sciences-Computational Life Sciences

Article	Citations
AttResAMD: An Attention-Driven Deep Learning Framework for Expert-Level Automated Classification of Age-Related Macular Degeneration from Fundus Photography	66
Parameter Estimation in Cellular Radiation Effects Using PSO-SQP and GA-SQP Hybrid Methods	60
m6ADP-GCNPUAS: m6A-Disease Prediction via Graph Convolutional Network and Positive-Unlabeled Learning with Self-Adaptive Sampling	57
Unraveling Brain Synchronisation Dynamics by Explainable Neural Networks using EEG Signals: Application to Dyslexia Diagnosis	49
DP-ID: Interleaving and Denoising to Improve the Quality of DNA Storage Image	47
Deep Clustering-Based Metabolic Stratification of Non-Small Cell Lung Cancer Patients Through Integration of Somatic Mutation Profile and Network Propagation Algorithm	46
Differential Diagnosis of DCIS and Fibroadenoma Based on Ultrasound Images: a Difference-Based Self-Supervised Approach	41
Computational Study of Methionine Methylation Process Catalyzed by SETD3	36
An Integrated TCN-CrossMHA Model for Predicting circRNA-RBP Binding Sites	27
ResDeepSurv: A Survival Model for Deep Neural Networks Based on Residual Blocks and Self-attention Mechanism	25
CA-UNet Segmentation Makes a Good Ischemic Stroke Risk Prediction	24
DCPPS: Prediction of Kinase-Specific Phosphorylation Sites Using Dynamic Embedding and Cross-Representation Interaction	23
Automated Brain Tumor Classification and Grading Using Multi-scale Graph Neural Network with Spatio-Temporal Transformer Attention Through MRI Scans	22
Cervical Cancer Classification From Pap Smear Images Using Deep Convolutional Neural Network Models	22
AMFCL: Predicting miRNA-Disease Associations Through Adaptive Multi-source Modality Fusion and Contrastive Learning	21
PDDGCN: A Parasitic Disease–Drug Association Predictor Based on Multi-view Fusion Graph Convolutional Network	21
dbMisLoc: A Manually Curated Database of Conditional Protein Mis-localization Events	19
Developing a Novel Methodology by Integrating Deep Learning and HMM for Segmentation of Retinal Blood Vessels in Fundus Images	19
ViruSeg: Harnessing the Power of Large Language-Image Model for Enhanced Virus Image Segmentation	19
Identifying Lymph Node Metastasis-Related Factors in Breast Cancer Using Differential Modular and Mutational Structural Analysis	18
Cell Fate Dynamics Reconstruction Identifies TPT1 and PTPRZ1 Feedback Loops as Master Regulators of Differentiation in Pediatric Glioblastoma-Immune Cell Networks	18
Machine Learning Accelerates De Novo Design of Antimicrobial Peptides	18
Diagnosis of Pancreatic Cancer Using miRNA30e Biosensor	17
Development of Electrochemical Biosensor for miR204-Based Cancer Diagnosis	17
BiGM-lncLoc: Bi-level Multi-Graph Meta-Learning for Predicting Cell-Specific Long Noncoding RNAs Subcellular Localization	15

VHGAE: Drug-Target Interaction Prediction Model Based on Heterogeneous Graph Variational Autoencoder	14
AIP-TranLAC: A Transformer-Based Method Integrating LSTM and Attention Mechanism for Predicting Anti-inflammatory Peptides	13
A Domain Adaptive Interpretable Substructure-Aware Graph Attention Network for Drug–Drug Interaction Prediction	12
Adaptive Multi-Kernel Graph Neural Network for Drug-Drug Interaction Prediction	12
Development of an Expert-Level Right Ventricular Abnormality Detection Algorithm Based on Deep Learning	11
MFFBi-Unet: Merging Dynamic Sparse Attention and Multi-scale Feature Fusion for Medical Image Segmentation	11
EfficientNet-resDDSC: A Hybrid Deep Learning Model Integrating Residual Blocks and Dilated Convolutions for Inferring Gene Causality in Single-Cell Data	11
MKLNID: Identifying Melanoma-related Pathogenic Genes Through Multiple Kernel Learning and Network Impulsive Dynamics	11
Drug Sensitivity Prediction Based on Multi-stage Multi-modal Drug Representation Learning	11
A Multi-view Molecular Pre-training with Generative Contrastive Learning	10
Plant lncRNA-miRNA Interaction Prediction Based on Counterfactual Heterogeneous Graph Attention Network	10
CR-deal: Explainable Neural Network for circRNA-RBP Binding Site Recognition and Interpretation	10
OptimDase: An Algorithm for Predicting DNA Binding Sites with Combined Feature Encoding	10
Transformative Deep Neural Network Approaches in Kidney Ultrasound Segmentation: Empirical Validation with an Annotated Dataset	10
Single-Cell Transcriptome Analysis Reveals the Role of Pancreatic Secretome in COVID-19 Associated Multi-organ Dysfunctions	10
Construction and Application of Traditional Chinese Medicine Knowledge Graph Based on Large Language Model	10
Protein Multiple Conformation Prediction Using Multi-Objective Evolution Algorithm	9
scEM: A New Ensemble Framework for Predicting Cell Type Composition Based on scRNA-Seq Data	9
scVAEBGM: Clustering Analysis of Single-Cell ATAC-seq Data Using a Deep Generative Model	9
Review of Progress in Diagnostic Studies of Autism Spectrum Disorder Using Neuroimaging	9
Exploring Novel Fentanyl Analogues Using a Graph-Based Transformer Model	9
DCDA: CircRNA–Disease Association Prediction with Feed-Forward Neural Network and Deep Autoencoder	9
Correction to: Machine Learning Accelerates De Novo Design of Antimicrobial Peptides	8
Interpretable Cancer Survival Prediction by Fusing Semantic Labelling of Cell Types and Whole Slide Images	8
MVGCNMDA: Multi-view Graph Augmentation Convolutional Network for Uncovering Disease-Related Microbes	8
Semantic Consistency Network with Edge Learner and Connectivity Enhancer for Cervical Tumor Segmentation from Histopathology Images	8
BEST: Basic Embedding Search Tool Enhancing Discovery of Novel Enzyme	7
CHL-DTI: A Novel High–Low Order Information Convergence Framework for Effective Drug–Target Interaction Prediction	7
DiTSim: A Diffusion-Transformers Based Single-Cell ATAC-seq Data Simulator	7
CRBP-HFEF: Prediction of RBP-Binding Sites on circRNAs Based on Hierarchical Feature Expansion and Fusion	7
easyMF: A Web Platform for Matrix Factorization-Based Gene Discovery from Large-scale Transcriptome Data	7
Classification of Glomerular Pathology Images in Children Using Convolutional Neural Networks with Improved SE-ResNet Module	7
Predicting miRNA-Drug Interactions Based on Multi-source Feature Fusion of Heterogeneous Network	7
IDDLncLoc: Subcellular Localization of LncRNAs Based on a Framework for Imbalanced Data Distributions	7
iAmyP: A Multi-view Learning for Amyloidogenic Hexapeptides Identification Based on Sequence Least Squares Programming	7
Improving the Prediction of Potential Kinase Inhibitors with Feature Learning on Multisource Knowledge	7
Identifying Protein Phosphorylation Site-Disease Associations Based on Multi-Similarity Fusion and Negative Sample Selection by Convolutional Neural Network	7
IHDFN-DTI: Interpretable Hybrid Deep Feature Fusion Network for Drug–Target Interaction Prediction	7
Multi-kernel Learning Fusion Algorithm Based on RNN and GRU for ASD Diagnosis and Pathogenic Brain Region Extraction	7
BMRI-NET: A Deep Stacked Ensemble Model for Multi-class Brain Tumor Classification from MRI Images	7
DOTAD: A Database of Therapeutic Antibody Developability	7
RicENN: Prediction of Rice Enhancers with Neural Network Based on DNA Sequences	6
Dual Attention Mechanisms and Feature Fusion Networks Based Method for Predicting LncRNA-Disease Associations	6
PmliHFM: Predicting Plant miRNA-lncRNA Interactions with Hybrid Feature Mining Network	6
A Novel Deep Learning Model for Medical Image Segmentation with Convolutional Neural Network and Transformer	6
In silico Methods for Identification of Potential Therapeutic Targets	6
stGNN: Spatially Informed Cell-Type Deconvolution Based on Deep Graph Learning and Statistical Modeling	6
Diffusion Model-Based Multi-Channel EEG Representation and Forecasting for Early Epileptic Seizure Warning	6
Combining Global-Constrained Concept Factorization and a Regularized Gaussian Graphical Model for Clustering Single-Cell RNA-seq Data	5
Efficient De Novo Assembly and Recovery of Microbial Genomes from Complex Metagenomes Using a Reduced Set of k-mers	5

CD47Binder: Identify CD47 Binding Peptides by Combining Next-Generation Phage Display Data and Multiple Peptide Descriptors	5
Predicting Protein–Ligand Binding Affinity Using Fusion Model of Spatial-Temporal Graph Neural Network and 3D Structure-Based Complex Graph	5
Reinforced Collaborative-Competitive Representation for Biomedical Image Recognition	5
Predicting Drug Synergy and Discovering New Drug Combinations Based on a Graph Autoencoder and Convolutional Neural Network	5
Efficient Storage and Analysis of Genomic Data: A k-mer Frequency Mapping and Image Representation Method	5
EPI-Mind: Identifying Enhancer–Promoter Interactions Based on Transformer Mechanism	5
Classification of Brain Tumors in MRI Images with Brain-CNXSAMNet: Integrating Hybrid ConvNeXt and Spatial Attention Module Networks	5
NPI-HGNN: A Heterogeneous Graph Neural Network-Based Approach for Predicting ncRNA-Protein Interactions	5
SANNO: A Graph-Transformer Enhanced Optimal Transport Tool for Spatial Transcriptomic Annotation	5
A Semi-supervised Reinforcement Learning Framework Incorporating the Multi-scale IncepMambaNet Network for Glaucoma Progression Prediction	5
AMPFLDAP: Adaptive Message Passing and Feature Fusion on Heterogeneous Network for LncRNA-Disease Associations Prediction	5
MTGGF: A Metabolism Type-Aware Graph Generative Model for Molecular Metabolite Prediction	5
RNA Folding Based on 5 Beads Model and Multiscale Simulation	4
Visualizing a Field of Research for the Coronavirus Replication in Humans with Knowledge Mapping: Evidence from Web of Science	4
Complex Prediction in Large PPI Networks Using Expansion and Stripe of Core Cliques	4
Bilinear Perceptual Fusion Algorithm Based on Brain Functional and Structural Data for ASD Diagnosis and Regions of Interest Identification	4
Multi-feature Fusion Method Based on Linear Neighborhood Propagation Predict Plant LncRNA–Protein Interactions	4
sORFPred: A Method Based on Comprehensive Features and Ensemble Learning to Predict the sORFs in Plant LncRNAs	4
Design and Simulation of an Autonomous Molecular Mechanism Using Spatially Localized DNA Computation	4
A Self-attention Graph Convolutional Network for Precision Multi-tumor Early Diagnostics with DNA Methylation Data	4
DeepPI: Alignment-Free Analysis of Flexible Length Proteins Based on Deep Learning and Image Generator	4
DynamicDTA: Drug-Target Binding Affinity Prediction Using Dynamic Descriptors and Graph Representation	4
Viral Rebound After Antiviral Treatment: A Mathematical Modeling Study of the Role of Antiviral Mechanism of Action	4
BoT-Net: a lightweight bag of tricks-based neural network for efficient LncRNA–miRNA interaction prediction	4
A Multi-perspective Model for Protein–Ligand-Binding Affinity Prediction	4
PredPromoter-MF(2L): A Novel Approach of Promoter Prediction Based on Multi-source Feature Fusion and Deep Forest	4
scRDiT: Generating Single-cell RNA-seq Data by Diffusion Transformers and Accelerating Sampling	4
DASNet: A Convolutional Neural Network with SE Attention Mechanism for ccRCC Tumor Grading	4
CSEL-BGC: A Bioinformatics Framework Integrating Machine Learning for Defining the Biosynthetic Evolutionary Landscape of Uncharacterized Antibacterial Natural Products	4
LRT-CLUSTER: A New Clustering Algorithm Based on Likelihood Ratio Test to Identify Driving Genes	3
TP-DDI: A Two-Pathway Deep Neural Network for Drug–Drug Interaction Prediction	3
Self-Supervised Graph Representation Learning for Single-Cell Classification	3
A Scalable and Robust Ensemble Deep Learning Method for Predicting Drug-Target Interactions	3
Adap-BDCM: Adaptive Bilinear Dynamic Cascade Model for Classification Tasks on CNV Datasets	3
tensorGSEA: Detecting Differential Pathways in Type 2 Diabetes via Tensor-Based Data Reconstruction	3
PDBms—An online tool for PDB file splitting and interactive molecular visualization	3
A Novel Dual-Level Momentum Distillation Method with Extreme Thresholding for Imputing Single-Cell RNA Sequencing Data	3
MF-MNER: Multi-models Fusion for MNER in Chinese Clinical Electronic Medical Records	3
SeFilter-DIA: Squeeze-and-Excitation Network for Filtering High-Confidence Peptides of Data-Independent Acquisition Proteomics	3
DNA Methylation Recognition Using Hybrid Deep Learning with Dual Nucleotide Visualization Fusion Feature Encoding	3
FTWSVM-SR: DNA-Binding Proteins Identification via Fuzzy Twin Support Vector Machines on Self-Representation	3
A Novel Drug–Disease Association Prediction Method Based on Deep Non-Negative Matrix Factorization with Local Graph Feature	3
Improving language model of human genome for DNA–protein binding prediction based on task-specific pre-training	3
Application of Semi-supervised Fuzzy Clustering Based on Knowledge Weighting and Cluster Center Learning to Mammary Molybdenum Target Image Segmentation	3
MLWNNR: LncRNA-Disease Association Prediction with Multi-Kernel Learning-Driven Weighted Nuclear Norm Regularization	3
Empowering Graph Neural Network-Based Computational Drug Repositioning with Large Language Model-Inferred Knowledge Representation	3
Correction to: Brain Tumor Detection and Classification Using Cycle Generative Adversarial Networks	3
BMPMDA: Prediction of MiRNA-Disease Associations Using a Space Projection Model Based on Block Matrix	3
Machine Learning Applications in Drug Repurposing	3
A Multi-modal Drug Target Affinity Prediction Based on Graph Features and Pre-trained Sequence Embeddings	3
WDGBANDTI: A Deep Graph Convolutional Network-Based Bilinear Attention Network for Drug-Target Interaction Prediction with Domain Adaptation	3
CMedRAGBot: A Chinese Medical Chatbot Based on Graph RAG and Large Language Models	3
Drug Repositioning Based on Deep Sparse Autoencoder and Drug–Disease Similarity	3
Identification of Benign and Malignant Lung Nodules in CT Images Based on Ensemble Learning Method	2
A Multi-Task Deep Learning Approach for Simultaneous Sleep Staging and Apnea Detection for Elderly People	2
U-shaped Retinal Vessel Segmentation Based on Adaptive Aggregation of Feature Information	2
Predicting CircRNA-Disease Associations Based on Heterogeneous Graph Neural Network and Knowledge Graph Attribute Mining Attention	2
GEnDDn: An lncRNA–Disease Association Identification Framework Based on Dual-Net Neural Architecture and Deep Neural Network	2
Reconstructing Waddington Landscape from Cell Migration and Proliferation	2
Enhancing the Feature Representation of Protein Sequence Descriptors in Protein-Protein Interaction Prediction	2
FSCAM: CAM-Based Feature Selection for Clustering scRNA-seq	2
Identify Modules Associated with Immunotherapy Response from Mouse Tumor Profiles for Stratifying Cancer Patients	2
Clinical and Laboratory Approach to Diagnose COVID-19 Using Machine Learning	2
Identifying Visual Attention Features Accurately Discerning Between Autism and Typically Developing: a Deep Learning Framework	2
StoneNet: An Efficient Lightweight Model Based on Depthwise Separable Convolutions for Kidney Stone Detection from CT Images	2
GraphsformerCPI: Graph Transformer for Compound–Protein Interaction Prediction	2
HAFMMDA: HIN2vec-Based Attentional Factorization Machines for Predicting Microbe-Drug Associations	2
BES-Designer: A Web Tool to Design Guide RNAs for Base Editing to Simplify Library	2
ABTrans: A Transformer-based Model for Predicting Interaction between Anti-Aβ Antibodies and Peptides	2
MetaV: A Pioneer in feature Augmented Meta-Learning Based Vision Transformer for Medical Image Classification	2
ScAGCN: Graph Convolutional Network with Adaptive Aggregation Mechanism for scRNA-seq Data Dimensionality Reduction	2
TrambaHLApan: A Transformer and Mamba-based Neoantigen Prediction Method Considering both Antigen Presentation and Immunogenicity	2
LPI-SKMSC: Predicting LncRNA–Protein Interactions with Segmented k-mer Frequencies and Multi-space Clustering	2
Deep Learning-Based Modeling of Drug–Target Interaction Prediction Incorporating Binding Site Information of Proteins	2
A Combined Manual Annotation and Deep-Learning Natural Language Processing Study on Accurate Entity Extraction in Hereditary Disease Related Biomedical Literature	2
Subgraph Neural Networks Enhanced by Global Similarity for Drug Repositioning	2
ResNeXt-Based Rescoring Model for Proteoform Characterization in Top-Down Mass Spectra	2
AMPred-MFG: Investigating the Mutagenicity of Compounds Using Motif-Based Graph Combined with Molecular Fingerprints and Graph Attention Mechanism	2
Ensemble Machine Learning and Predicted Properties Promote Antimicrobial Peptide Identification	2
Joint Low Rank Representation with Symmetric Orthogonal Decomposition for Clustering of scRNA-seq Data	2

Towards Reliable Healthcare Imaging: A Multifaceted Approach in Class Imbalance Handling for Medical Image Segmentation	2
A Novel Detection Method for High-Order SNP Epistatic Interactions Based on Explicit-Encoding-Based Multitasking Harmony Search	2
Multiple Protein Subcellular Locations Prediction Based on Deep Convolutional Neural Networks with Self-Attention Mechanism	2
Accurately Predicting Cell Type Abundance from Spatial Histology Image Through HPCell	2
Sensing Compound Substructures Combined with Molecular Fingerprinting to Predict Drug-Target Interactions	2
A Deep Neural Network for Predicting Synergistic Drug Combinations on Cancer	2