Bioinformatics Research and Applications

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.-