OOIR: Observatory of International Research

Papers

(The median citation count of Interdisciplinary Sciences-Computational Life Sciences is 2. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-04-01 to 2025-04-01.)

Article	Citations
NTMFF-DTA: Prediction of Drug-Target Affinity Based on Network Topology and Multi-feature Fusion	156
A Deep Neural Network for Predicting Synergistic Drug Combinations on Cancer	121
DOTAD: A Database of Therapeutic Antibody Developability	53
DASNet: A Convolutional Neural Network with SE Attention Mechanism for ccRCC Tumor Grading	52
FEAMR: A Database for Surveillance of Food and Environment-Associated Antimicrobial Resistance	45
Viral Rebound After Antiviral Treatment: A Mathematical Modeling Study of the Role of Antiviral Mechanism of Action	44
Luteinizing Hormone Receptor Mutation (LHRN316S) Causes Abnormal Follicular Development Revealed by Follicle Single-Cell Analysis and CRISPR/Cas9	43
Function-Genes and Disease-Genes Prediction Based on Network Embedding and One-Class Classification	41
Identification of Multi-functional Therapeutic Peptides Based on Prototypical Supervised Contrastive Learning	37
Correction to: Machine Learning Accelerates De Novo Design of Antimicrobial Peptides	35
Bilinear Perceptual Fusion Algorithm Based on Brain Functional and Structural Data for ASD Diagnosis and Regions of Interest Identification	31
Unraveling Brain Synchronisation Dynamics by Explainable Neural Networks using EEG Signals: Application to Dyslexia Diagnosis	30
DP-ID: Interleaving and Denoising to Improve the Quality of DNA Storage Image	30
EnDM-CPP: A Multi-view Explainable Framework Based on Deep Learning and Machine Learning for Identifying Cell-Penetrating Peptides with Transformers and Analyzing Sequence Information	26
HTRPCA: Hypergraph Regularized Tensor Robust Principal Component Analysis for Sample Clustering in Tumor Omics Data	24
BoT-Net: a lightweight bag of tricks-based neural network for efficient LncRNA–miRNA interaction prediction	23
iDHS-FFLG: Identifying DNase I Hypersensitive Sites by Feature Fusion and Local–Global Feature Extraction Network	22
ASI-DBNet: An Adaptive Sparse Interactive ResNet-Vision Transformer Dual-Branch Network for the Grading of Brain Cancer Histopathological Images	21
Integration of IDPC Clustering Analysis and Interpretable Machine Learning for Survival Risk Prediction of Patients with ESCC	20
DeepPI: Alignment-Free Analysis of Flexible Length Proteins Based on Deep Learning and Image Generator	20
scFED: Clustering Identifying Cell Types of scRNA-Seq Data Based on Feature Engineering Denoising	20
Deep Canonical Correlation Fusion Algorithm Based on Denoising Autoencoder for ASD Diagnosis and Pathogenic Brain Region Identification	19
PPSNO: A Feature-Rich SNO Sites Predictor by Stacking Ensemble Strategy from Protein Sequence-Derived Information	19
Review and Comparative Analysis of Methods and Advancements in Predicting Protein Complex Structure	19
Identifying Diffuse Glioma Subtypes Based on Pathway Enrichment Evaluation	18

TUPDB: Target-Unrelated Peptide Data Bank	16
Using an Ensemble to Identify and Classify Macroalgae Antimicrobial Peptides	16
Multi-feature Fusion Method Based on Linear Neighborhood Propagation Predict Plant LncRNA–Protein Interactions	15
A Review of Parallel Implementations for the Smith–Waterman Algorithm	15
Are the Allergic Reactions of COVID-19 Vaccines Caused by mRNA Constructs or Nanocarriers? Immunological Insights	15
Clinical and Laboratory Approach to Diagnose COVID-19 Using Machine Learning	14
OTNet: A CNN Method Based on Hierarchical Attention Maps for Grading Arteriosclerosis of Fundus Images with Small Samples	13
Exploring the Molecular Basis of Substrate and Product Selectivities of Nocardicin Bifunctional Thioesterase	12
MVGCNMDA: Multi-view Graph Augmentation Convolutional Network for Uncovering Disease-Related Microbes	12
Construction of a Pearson- and MIC-Based Co-expression Network to Identify Potential Cancer Genes	12
easyMF: A Web Platform for Matrix Factorization-Based Gene Discovery from Large-scale Transcriptome Data	11
Improving the Prediction of Potential Kinase Inhibitors with Feature Learning on Multisource Knowledge	11
Pharmacogenomic Cluster Analysis of Lung Cancer Cell Lines Provides Insights into Preclinical Model Selection in NSCLC	10
EnANNDeep: An Ensemble-based lncRNA–protein Interaction Prediction Framework with Adaptive k-Nearest Neighbor Classifier and Deep Models	10
Consistent Clustering Pattern of Prokaryotic Genes Based on Base Frequency at the Second Codon Position and its Association with Functional Category Preference	10
Identifiable Temporal Feature Selection via Horizontal Visibility Graph Towards Smart Medical Applications	9
Integrating Protein–Protein Interaction Networks and Somatic Mutation Data to Detect Driver Modules in Pan-Cancer	9
Adaptive Weighted Neighbors Method for Sensitivity Analysis	9
Biomarker Identification in Membranous Nephropathy Using a Long Non-coding RNA-Mediated Competitive Endogenous RNA Network	9
Spatial–Temporal EEG Fusion Based on Neural Network for Major Depressive Disorder Detection	8
SBTD: A Novel Method for Detecting Topological Associated Domains from Hi-C Data	8
Prediction of Protein Solubility Based on Sequence Feature Fusion and DDcCNN	8
Ensemble Machine Learning and Predicted Properties Promote Antimicrobial Peptide Identification	8
Using Network Distance Analysis to Predict lncRNA–miRNA Interactions	8
A Novel Multitasking Ant Colony Optimization Method for Detecting Multiorder SNP Interactions	8
U-shaped Retinal Vessel Segmentation Based on Adaptive Aggregation of Feature Information	7
Identification of Type II Toxin-Antitoxin Loci in Levilactobacillus brevis	7
Classification of Breast Cancer and Breast Neoplasm Scenarios Based on Machine Learning and Sequence Features from lncRNAs–miRNAs-Diseases Associations	7
Identification of Chemical–Disease Associations Through Integration of Molecular Fingerprint, Gene Ontology and Pathway Information	7
Metapath-Based Deep Convolutional Neural Network for Predicting miRNA-Target Association on Heterogeneous Network	7
FTWSVM-SR: DNA-Binding Proteins Identification via Fuzzy Twin Support Vector Machines on Self-Representation	7
Anti-cancer Peptide Recognition Based on Grouped Sequence and Spatial Dimension Integrated Networks	7
MSResG: Using GAE and Residual GCN to Predict Drug–Drug Interactions Based on Multi-source Drug Features	7
A New Framework for Discovering Protein Complex and Disease Association via Mining Multiple Databases	7
Rhythmic Component Analysis Tool (RCAT): A Precise, Efficient and User-Friendly Tool for Circadian Clock Genes Analysis	7
Correction to: HD5 and LL‑37 Inhibit SARS‑CoV and SARS‑CoV‑2 Binding to Human ACE2 by Molecular Simulation	7
Computational Study of Methionine Methylation Process Catalyzed by SETD3	7
SMART v1.0: A Database for Small Molecules with Functional Implications in Plants	7
Molecular Dynamics Simulations Reveal the Modulated Mechanism of STING Conformation	7
Identifying Visual Attention Features Accurately Discerning Between Autism and Typically Developing: a Deep Learning Framework	6
ResDeepSurv: A Survival Model for Deep Neural Networks Based on Residual Blocks and Self-attention Mechanism	6
Identifying Protein Phosphorylation Site-Disease Associations Based on Multi-Similarity Fusion and Negative Sample Selection by Convolutional Neural Network	6
Gene Selection in a Single Cell Gene Space Based on D–S Evidence Theory	6
CHL-DTI: A Novel High–Low Order Information Convergence Framework for Effective Drug–Target Interaction Prediction	6
Differential Diagnosis of DCIS and Fibroadenoma Based on Ultrasound Images: a Difference-Based Self-Supervised Approach	6
Sex Differences of Cerebellum and Cerebrum: Evidence from Graph Convolutional Network	6
An Integrated TCN-CrossMHA Model for Predicting circRNA-RBP Binding Sites	6
HD5 and LL-37 Inhibit SARS-CoV and SARS-CoV-2 Binding to Human ACE2 by Molecular Simulation	6
A Combined Manual Annotation and Deep-Learning Natural Language Processing Study on Accurate Entity Extraction in Hereditary Disease Related Biomedical Literature	6
sORFPred: A Method Based on Comprehensive Features and Ensemble Learning to Predict the sORFs in Plant LncRNAs	6

AI Prediction of Structural Stability of Nanoproteins Based on Structures and Residue Properties by Mean Pooled Dual Graph Convolutional Network	6
DeepPD: A Deep Learning Method for Predicting Peptide Detectability Based on Multi-feature Representation and Information Bottleneck	6
Exploring the Binding Mechanism of NRG1–ERBB3 Complex and Discovery of Potent Natural Products to Reduce Diabetes-Assisted Breast Cancer Progression	6
CEL: A Continual Learning Model for Disease Outbreak Prediction by Leveraging Domain Adaptation via Elastic Weight Consolidation	5
Machine Learning Applications in Drug Repurposing	5
ABTrans: A Transformer-based Model for Predicting Interaction between Anti-Aβ Antibodies and Peptides	5
Classification of Glomerular Pathology Images in Children Using Convolutional Neural Networks with Improved SE-ResNet Module	5
CSEL-BGC: A Bioinformatics Framework Integrating Machine Learning for Defining the Biosynthetic Evolutionary Landscape of Uncharacterized Antibacterial Natural Products	5
Prediction of Multimorbidity Network Evolution in Middle-Aged and Elderly Population Based on CE-GCN	5
Identification of Benign and Malignant Lung Nodules in CT Images Based on Ensemble Learning Method	5
StoneNet: An Efficient Lightweight Model Based on Depthwise Separable Convolutions for Kidney Stone Detection from CT Images	5
GraphsformerCPI: Graph Transformer for Compound–Protein Interaction Prediction	5
The Dynamical Biomarkers in Functional Connectivity of Autism Spectrum Disorder Based on Dynamic Graph Embedding	4
Deep Clustering-Based Metabolic Stratification of Non-Small Cell Lung Cancer Patients Through Integration of Somatic Mutation Profile and Network Propagation Algorithm	4
Cervical Cancer Classification From Pap Smear Images Using Deep Convolutional Neural Network Models	4
Adaptive Total-Variation Regularized Low-Rank Representation for Analyzing Single-Cell RNA-seq Data	4
Deep Residual Network for Diagnosis of Retinal Diseases Using Optical Coherence Tomography Images	4
PredAPP: Predicting Anti-Parasitic Peptides with Undersampling and Ensemble Approaches	4
BMRI-NET: A Deep Stacked Ensemble Model for Multi-class Brain Tumor Classification from MRI Images	4
Adaptive Multi-Kernel Graph Neural Network for Drug-Drug Interaction Prediction	4
Development of Electrochemical Biosensor for miR204-Based Cancer Diagnosis	4
CA-UNet Segmentation Makes a Good Ischemic Stroke Risk Prediction	4
PDDGCN: A Parasitic Disease–Drug Association Predictor Based on Multi-view Fusion Graph Convolutional Network	4
In Silico Mutagenesis-Based Remodelling of SARS-CoV-1 Peptide (ATLQAIAS) to Inhibit SARS-CoV-2: Structural-Dynamics and Free Energy Calculations	4
A Multi-View Feature-Based Interpretable Deep Learning Framework for Drug-Drug Interaction Prediction	4
Identifying Lymph Node Metastasis-Related Factors in Breast Cancer Using Differential Modular and Mutational Structural Analysis	3
IDDLncLoc: Subcellular Localization of LncRNAs Based on a Framework for Imbalanced Data Distributions	3
Correction to: Brain Tumor Detection and Classification Using Cycle Generative Adversarial Networks	3
misORFPred: A Novel Method to Mine Translatable sORFs in Plant Pri-miRNAs Using Enhanced Scalable k-mer and Dynamic Ensemble Voting Strategy	3
SCINet: A Segmentation and Classification Interaction CNN Method for Arteriosclerotic Retinopathy Grading	3
Developing a Novel Methodology by Integrating Deep Learning and HMM for Segmentation of Retinal Blood Vessels in Fundus Images	3
BiGM-lncLoc: Bi-level Multi-Graph Meta-Learning for Predicting Cell-Specific Long Noncoding RNAs Subcellular Localization	3
PLMC: Language Model of Protein Sequences Enhances Protein Crystallization Prediction	3
SeFilter-DIA: Squeeze-and-Excitation Network for Filtering High-Confidence Peptides of Data-Independent Acquisition Proteomics	3
A Novel Deep-Learning-Based CADx Architecture for Classification of Thyroid Nodules Using Ultrasound Images	3
Diagnosis of Pancreatic Cancer Using miRNA30e Biosensor	3
Multi-kernel Learning Fusion Algorithm Based on RNN and GRU for ASD Diagnosis and Pathogenic Brain Region Extraction	3
PmliHFM: Predicting Plant miRNA-lncRNA Interactions with Hybrid Feature Mining Network	3
A Domain Adaptive Interpretable Substructure-Aware Graph Attention Network for Drug–Drug Interaction Prediction	3
Cell Fate Dynamics Reconstruction Identifies TPT1 and PTPRZ1 Feedback Loops as Master Regulators of Differentiation in Pediatric Glioblastoma-Immune Cell Networks	3
iAmyP: A Multi-view Learning for Amyloidogenic Hexapeptides Identification Based on Sequence Least Squares Programming	3
Synchronous Mutual Learning Network and Asynchronous Multi-Scale Embedding Network for miRNA-Disease Association Prediction	3
BMPMDA: Prediction of MiRNA-Disease Associations Using a Space Projection Model Based on Block Matrix	3
TP-DDI: A Two-Pathway Deep Neural Network for Drug–Drug Interaction Prediction	3
A Novel Deep Learning Model for Medical Image Segmentation with Convolutional Neural Network and Transformer	3
CVGAE: A Self-Supervised Generative Method for Gene Regulatory Network Inference Using Single-Cell RNA Sequencing Data	3
NRGCNMDA: Microbe-Drug Association Prediction Based on Residual Graph Convolutional Networks and Conditional Random Fields	3
Computer-Aided Diagnosis of Complications After Liver Transplantation Based on Transfer Learning	3
A Molecular Fragment Representation Learning Framework for Drug–Drug Interaction Prediction	3
RSCMDA: Prediction of Potential miRNA–Disease Associations Based on a Robust Similarity Constraint Learning Method	2
Empowering Graph Neural Network-Based Computational Drug Repositioning with Large Language Model-Inferred Knowledge Representation	2
Repurposing Drugs for Infectious Diseases by Graph Convolutional Network with Sensitivity-Based Graph Reduction	2
Analysis of CRISPR-Cas Loci and their Targets in Levilactobacillus brevis	2
In silico Methods for Identification of Potential Therapeutic Targets	2
Improving language model of human genome for DNA–protein binding prediction based on task-specific pre-training	2
Adap-BDCM: Adaptive Bilinear Dynamic Cascade Model for Classification Tasks on CNV Datasets	2
Utilization of Deep Convolutional Neural Networks for Accurate Chest X-Ray Diagnosis and Disease Detection	2
Automatic Detection of Covid-19 with Bidirectional LSTM Network Using Deep Features Extracted from Chest X-ray Images	2
EfficientNet-resDDSC: A Hybrid Deep Learning Model Integrating Residual Blocks and Dilated Convolutions for Inferring Gene Causality in Single-Cell Data	2
Discovery of Active Ingredient of Yinchenhao Decoction Targeting TLR4 for Hepatic Inflammatory Diseases Based on Deep Learning Approach	2
Drug Repositioning Based on Deep Sparse Autoencoder and Drug–Disease Similarity	2
A Review of the Application of Spatial Transcriptomics in Neuroscience	2
Development of an Expert-Level Right Ventricular Abnormality Detection Algorithm Based on Deep Learning	2
Cell Features Reconstruction from Gene Association Network of Single Cell	2
dbMisLoc: A Manually Curated Database of Conditional Protein Mis-localization Events	2
Discovery of Genetic Biomarkers for Alzheimer’s Disease Using Adaptive Convolutional Neural Networks Ensemble and Genome-Wide Association Studies	2
MF-MNER: Multi-models Fusion for MNER in Chinese Clinical Electronic Medical Records	2
Target-Based In Silico Screening for Phytoactive Compounds Targeting SARS-CoV-2	2
Artificial Intelligence-Based Classification of CT Images Using a Hybrid SpinalZFNet	2
UltraNet: Unleashing the Power of Simplicity for Accurate Medical Image Segmentation	2
Predicting Promoters in Multiple Prokaryotes with Prompt	2
LRT-CLUSTER: A New Clustering Algorithm Based on Likelihood Ratio Test to Identify Driving Genes	2
RicENN: Prediction of Rice Enhancers with Neural Network Based on DNA Sequences	2
CRBP-HFEF: Prediction of RBP-Binding Sites on circRNAs Based on Hierarchical Feature Expansion and Fusion	2
Machine Learning Accelerates De Novo Design of Antimicrobial Peptides	2
Hessian Regularized $$L_{2,1}$$-Nonnegative Matrix Factorization and Deep Learning for miRNA–Disease Associations Prediction	2
Discovery of a Natural Product with Potent Efficacy Against SARS-CoV-2 by Drug Screening	2
SpatialCVGAE: Consensus Clustering Improves Spatial Domain Identification of Spatial Transcriptomics Using VGAE	2