Bioinformatics Research and Applications

Unveiling the Robustness of Machine Learning Models in Classifying COVID-19 Spike Sequences.- Efficient Sequence Embedding For SARS-CoV-2 Variants Classification.- On Computing the Jaro Similarity Between Two Strings.- Identifying miRNA-disease Associations based on Simple Graph Convolution with DropMessage and Jumping Knowledge.- Reconciling Inconsistent Molecular Structures from Biochemical Databases.- Deep Learning Architectures For the Prediction of YY1-Mediated Chromatin Loops.- Neurogenesis-associated Protein, a Potential Prognostic Biomarker in anti-PD-1 based kidney renal clear cell carcinoma patients therapeutics.- MPFNet: ECG Arrhythmias Classication Based on Multi-Perspective Feature Fusion.- PCPI: Prediction of circRNA and protein interaction using machine learning method.- Radiology Report Generation via Visual Recalibration and Context Gating-aware.- Using Generating Functions to Prove Additivity of Gene-Neighborhood BasedPhylogenetics.- TCSA: A Text-guided Cross-view Medical Semantic Alignment Framework for Adaptive Multi-view Visual Representation Learning.- Multi-Class Cancer Classification of Whole Slide Images through Transformer and Multiple Instance Learning.- ricME: long-read based mobile element variant detection using sequence realignment and identity calculation.- scGASI: A graph autoencoder-based single-cell integration clustering method.- ABCAE: Artificial Bee Colony Algorithm with Adaptive Exploitation for Epistatic Interaction Detection.- USTAR: Improved Compression of k-mer Sets with Counters Using De Bruijn Graphs.- Graph-Based Motif Discovery in Mimotope Profiles of Serum Antibody Repertoire.- Sequence-Based Nanobody-Antigen Binding Prediction.- Approximating Rearrangement Distances with Replicas and Flexible Intergenic Regions.- The Ordered Covering Problem in Distance Geometry.- Phylogenetic Information as Soft Constraints in RNA Secondary Structure Prediction.- NeoMS: Identification of Novel MHC-I Peptides with Tandem Mass Spectrometry.- On Sorting by Flanked Transpositions.- Integrative analysis of gene expression and alternative polyadenylation from single-cell RNA-seq data.- SaID: Simulation-aware Image Denoising Pre-trained Model for Cryo-EM Micrographs.- Reducing the impact of domain rearrangement on sequence alignment and phylogeny reconstruction.- Identification and functional annotation of circRNAs in neuroblastoma based on bioinformatics.- SGMDD: Subgraph Neural Network-Based Model for Analyzing Functional Connectivity Signatures of Major Depressive Disorder.- PDB2Vec: Using 3D Structural Information For Improved Protein Analysi.- Hist2Vec: Kernel-Based Embeddings for Biological Sequence Classification.- DCNN: Dual-Level Collaborative Neural Network for Imbalanced Heart Anomaly Detection.- On the Realisability of Chemical Pathways.- A Brief Study ofGene Co-Expression Thresholding Algorithms.- Inferring Boolean Networks from Single-Cell Human Embryo Datasets.- Enhancing t-SNE Performance for Biological Sequencing Data through Kernel Selection.- Genetic Algorithm with Evolutionary Jumps.- HetBiSyn: Predicting Anticancer Synergistic Drug Combinations Featuring Bi-perspective Drug Embedding with Heterogeneous Data.- Clique-based topological characterization of chromatin interaction hubs.- Exploring Racial Disparities in Triple-Negative Breast Cancer: Insights from Feature Selection Algorithms.- Deep Learning Reveals Biological Basis of Racial Disparities in Quadruple-Negative Breast Cancer.- CSA-MEM: Enhancing Circular DNA Multiple Alignment through Text Indexing Algorithms.- A Convolutional Denoising Autoencoder for Protein Scaffold Filling.- Simulating tumor evolution from scDNA-seq as an accumulation of both SNVs and CNAs.- CHLPCA: Correntropy-Based Hypergraph Regularized Sparse PCA for Single-cell Type Identification.-