OOIR: Observatory of International Research

Papers

(The TQCC of Interdisciplinary Sciences-Computational Life Sciences is 6. 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
scFED: Clustering Identifying Cell Types of scRNA-Seq Data Based on Feature Engineering Denoising	20
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
Review and Comparative Analysis of Methods and Advancements in Predicting Protein Complex Structure	19
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
Identifying Diffuse Glioma Subtypes Based on Pathway Enrichment Evaluation	18

Using an Ensemble to Identify and Classify Macroalgae Antimicrobial Peptides	16
TUPDB: Target-Unrelated Peptide Data Bank	16
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
Multi-feature Fusion Method Based on Linear Neighborhood Propagation Predict Plant LncRNA–Protein Interactions	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
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
Exploring the Molecular Basis of Substrate and Product Selectivities of Nocardicin Bifunctional Thioesterase	12
Improving the Prediction of Potential Kinase Inhibitors with Feature Learning on Multisource Knowledge	11
easyMF: A Web Platform for Matrix Factorization-Based Gene Discovery from Large-scale Transcriptome Data	11
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
Pharmacogenomic Cluster Analysis of Lung Cancer Cell Lines Provides Insights into Preclinical Model Selection in NSCLC	10
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
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
Using Network Distance Analysis to Predict lncRNA–miRNA Interactions	8
A Novel Multitasking Ant Colony Optimization Method for Detecting Multiorder SNP Interactions	8
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
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
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
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
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