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Bioinformatics

638 directly classified papers

Papers per year

Papers

GraPPI: A Retrieve-Divide-Solve GraphRAG Framework for Large-scale Protein-protein Interaction Exploration NAACL 2025
Assay2Mol: Large Language Model-based Drug Design Using BioAssay Context EMNLP 2025
Whole Genome Transformer for Gene Interaction Effects in Microbiome Habitat Specificity AAAI 2025
CryoDomain: Sequence-free Protein Domain Identification from Low-resolution Cryo-EM Density Maps AAAI 2025
Automatic Annotation Augmentation Boosts Translation between Molecules and Natural Language NAACL 2025
GoBERT: Gene Ontology Graph Informed BERT for Universal Gene Function Prediction AAAI 2025
A Simple and Comprehensive Benchmark for Single-Cell Transcriptomics AAAI 2025
Shared Task at Biolaysumm2025 : Extract then summarize approach Augmented with UMLS based Definition Retrieval for Lay Summary generation. ACL 2025
Can Large Language Models Classify and Generate Antimicrobial Resistance Genes? ACL 2025
Accurate Nucleic Acid-Binding Residue Identification Based Domain-Adaptive Protein Language Model and Explainable Geometric Deep Learning AAAI 2025
mRNA2vec: mRNA Embedding with Language Model in the 5'UTR-CDS for mRNA Design AAAI 2025
PreClinIE: An Annotated Corpus for Information Extraction in Preclinical Studies ACL 2025
Zero-Shot Cross-Sentential Scientific Relation Extraction via Entity-Guided Summarization IJCNLP 2025
Sparse Semiparametric Discriminant Analysis for High-dimensional Zero-inflated Data JMLR 2025
BioHopR: A Benchmark for Multi-Hop, Multi-Answer Reasoning in Biomedical Domain ACL 2025
GRNFormer: A Biologically-Guided Framework for Integrating Gene Regulatory Networks into RNA Foundation Models ACL 2025
Conditional Causal Representation Learning for Heterogeneous Single-cell RNA Data Integration and Prediction IJCAI 2025
Biological Sequence Kernels with Guaranteed Flexibility JMLR 2025
BOE-ViT: Boosting Orientation Estimation with Equivariance in Self-Supervised 3D Subtomogram Alignment CVPR 2025
J-Invariant Volume Shuffle for Self-Supervised Cryo-Electron Tomogram Denoising on Single Noisy Volume WACV 2025
Entangled Relations: Leveraging NLI and Meta-analysis to Enhance Biomedical Relation Extraction NAACL 2025
CycSeq: Leveraging Cyclic Data Generation for Accurate Perturbation Prediction in Single-Cell RNA-Seq IJCAI 2025
DO-CoLM: Dynamic 3D Conformation Relationships Capture with Self-Adaptive Ordering Molecular Relational Modeling in Language Models IJCAI 2025
GRAPE: Heterogeneous Graph Representation Learning for Genetic Perturbation with Coding and Non-Coding Biotype IJCAI 2025
Unsupervised Identification of Protein Compositions and Conformations via Implicit Content-Transformation Disentanglement ICCV 2025