导航分类PROGRAMME
August 21 | |||
3F, Tsinghua Southeast Asia Center | |||
Time | Program | Remark | |
14:00 - 17:00 | Sign In | ||
14:00 - 17:00 | Poster Preparation | ||
16:00 - 17:00 | Social Hours | ||
17:00 | Shuttle Bus Back to Prama Hotel / Sanur Area | ||
August 22 | |||
Venue: Awan Auditorium, 3F | |||
Time | Program | Speaker | |
08:20 - 09:00 | Sign In | ||
Opening Chair: Xuegong Zhang (Chair, ISCB-China; Vice President, ISCB; Professor, Tsinghua University) | |||
09:00 - 09:05 | Opening by Predrag Radivojac (President, ISCB; Professor, Northeastern University) | ||
09:05 - 09:45 | Keynote Speech: AI co-scientists: the evolving role of Artificial Intelligence tools in science | Karin Verspoor (Executive Dean, School of Computing Technologies, RMIT University) | |
Invited Talk Chair: Xing-Ming Zhao (Professor, Fudan University) | |||
09:45 - 10:10 | Invited Talk: Decoding 3D Gene Regulation with AI | In-Kyung Jeong (Steering Committee Member, Korea Society of Bioinformatics) | |
10:10 - 10:35 | Invited Talk: Exosome Atlas DB: A Key Infrastructure for Biomarker Discovery | Seongho Ryu (President, Korea Society of Bioinformatics; Sooncheonhyang University) | |
10:35 - 10:50 | Group Photo and Break | ||
Session 1. Single-Cell & Spatial Multi-Omics Integration | |||
10:50 - 11:05 | Scalable sample demultiplexing in ultra-high-throughput scRNA-seq with HT-Demux | Xinzhu Jiang (Global College, Shanghai Jiao Tong University, Shanghai, China) | |
11:05 - 11:20 | Decoding Hierarchical Cell-Cell Communication in Spatial Multi-Omics with CellSTIC | Yungang Xu (Xi'an Jiaotong University) | |
11:20 - 11:35 | Domain-Adversarial Multi-Scale Autoencoder for Cross-Sample and Cross-Platform Spatial Transcriptomics Integration | Dong Zhang (SJTU) | |
11:35 - 11:50 | TGDAC: Transformer-Based Graph Deep Clustering with Dual Distribution Alignment for single-cell RNA-seq | Zhendong Liu (Shanghai Polytechnic University) | |
11:50 - 12:05 | Semantic-Aware Spatial Representation Learning for Spatial Domain Identification | Yawen Lu(hkust(gz)) | |
12:05 - 13:15 | Lunch (Outside or in Tech Incubator Room, 3F) | ||
Session 1. Single-Cell & Spatial Multi-Omics Integration | |||
13:15 - 13:30 | Grounded integration of single-cell multi-omics data with CITE-pool | Xinzhu Jiang (Global College, Shanghai Jiao Tong University, Shanghai, China) | |
13:30 - 13:45 | Safe Fusion for scRNA-seq Dropout Imputation with Uncertainty Gating and CITE-seq Validation | Yunwei Zhao (New York University) | |
13:45 - 14:00 | Intelligent ensemble learning for single cell data analysis | Hao Jiang (Renmin University of China) | |
Session 2: Single-Cell Modeling & Perturbation Analysis Chaired by Dr. Ning Shen (Professor, Zhejiang University) | |||
14:00 - 14:15 | Stochastic Dynamics Inference and Applications Based on Landscape Theory | Chunhe Li (Fudan University) | |
14:15 - 14:30 | VelODE Reconciles RNA Velocity and Developmental Trajectories for Robust Reconstruction of Cellular Dynamics | Yunhao Qiao (Shanghai Jiao Tong University) | |
14:30 - 14:45 | iPerturb: Population-scale integration of multi-condition single-cell RNA-seq data to detect perturbation-responsive cell populations and genes | Ye Li (School of Public Health, Xi'an Jiaotong University) | |
14:45 - 15:00 | CancerZigZag: Iterative Seed-Anchored Diffusion for Generative Modeling of Single-Cell State Transitions | Johannes Schlüter (Universität Bielefeld) | |
15:00 - 15:15 | OmniCell: Unified Foundation Modeling of Single-Cell and Spatial Transcriptomics for Cellular and Molecular Insights | Yiting Deng (BGI Research, Beijing) | |
15:15 - 15:30 | Cellfm-datasets: A Unified Data Infrastructure for Single-Cell and Spatial Transcriptomics Foundation Model Pretraining | Youzhe He (BGI research, Hang zhou) | |
15:30 - 15:45 | How different AI models understand cells differently | Yubo Zhao (Tsinghua University) | |
15:45 - 16:00 | A mechanism-informed deep neural network enables prioritization of regulators that drive cell state transitions | Xi Xi (Beijing Institute of Technology) | |
16:00 - 16:15 | Break | ||
16:15 - 17:30 | Panel Discussion Panelists 1. Prof. Doheon Lee (KAIST): systems biology & biomedical knowledge/AI 2. Prof. Daehyun Baek (Seoul National University): RNA bioinformatics (miRNA) & genomics 3. Dr. Junhak Lee (KISTI): HPC & AI infrastructure for bioscience 4. Prof. Minho Lee (Dongguk University): bioinformatics & cancer genomics 5. Dr. Toshiaki Katayama (DBCLS): life science database integration & Semantic Web | ||
18:00 - 19:30 | Welcome Dinner | ||
20:00 | Shuttle Bus Back to Prama Hotel / Sanur Area | ||
August 23 | |||
Venue: Awan Auditorium, 3F | |||
Time | Program | Speaker | |
08:20 - 09:00 | Sign In | ||
Keynote Speech | |||
09:00 - 09:40 | Keynote Speech: Data and AI-driven Exploration of the Human Gut Microbiome | Xing-Ming Zhao (Fudan University) | |
Invited Talk | |||
09:40 - 10:05 | Invited Talk: Spatiotemporal Proteomics for Constructing Virtual Cell Models | Tiannan Guo (Westlake University) | |
10:05 - 10:20 | Break | ||
Session 3: Sequence Modeling: from DNA to RNA | |||
10:20 - 10:35 | Profiling genomic language models as individuals in a population | Yusen Hou (The Hong Kong University of Science and Technology (Guangzhou)) | |
10:35 - 10:50 | Benchmarking pre-trained genomic language models for RNA sequence-related predictive applications | Ningyuan You (Zhejiang University) | |
10:50 - 11:05 | R-loop Prediction Reveals Generalization Limits of DNA Foundation Models Beyond Regulatory Genomics | Yafan Zhang (Bioinformatics Research Center, North Carolina State University) | |
11:05 - 11:20 | LUNA-FM: A subword foundation model for long non-coding RNAs for functional inference | Naima Vahab (RMIT University) | |
11:20 - 11:35 | Toward a paradigm shift from data to theory: AI-driven representation of biological sequences | Zhang Zhang (China National Center for Bioinformation) | |
11:35 - 11:50 | CyanoDiff: Class-Conditional Cyanobacterial Promoter Generation via Masked Diffusion Language Modeling | Guang Yang (School of Life Science and Technology, Northwestern Polytechnical University) | |
11:50 - 13:15 | Lunch (Outside or in Tech Incubator Room, 3F) | ||
Session 3: Sequence Modeling: from DNA to RNA | |||
13:15 - 13:30 | Context-aware prediction of RNA-centric interactions using deep learning | Bin Zhang (Mohamed Bin Zayed University of Artificial Intelligence) | |
13:30 - 13:45 | PHOCI: Predictor of Higher-Order Chromatin Interactions | Kai Huang (Shenzhen Bay Laboratory) | |
13:45 - 14:00 | Retracing the Process of Translation: Proteome-wide mapping of stable transcriptomic predictors of protein abundance in cancer cell lines | Johannes Schlüter (Universität Bielefeld) | |
Session 4: Protein Structure, Interaction & Molecular Design Chair: Jin-Wu Nam (Professor, Hanyang University) | |||
14:00 - 14:15 | AlphaFold 3 Fails to Predict D-peptide Chirality, Fold, and Binding Pose in Heterochiral Complexes | Henry Childs (Duke University) | |
14:15 - 14:30 | An Improved Significance Metric for Searching Protein Motifs with Folddisco | Jaewon Yoon (Seoul National University) | |
14:30 - 14:45 | InteractionFormeR: SE(3)-Equivariant Proteome-Scale Interactome Simulation on Resource-Constrained Hardware | Aaryan Senthilvanan (S.Y.A.L.I.S Labs) | |
14:45 - 15:00 | CCK* (Convex Closure K*): A Suite of Algorithms for De Novo L- and D-peptide Design | Henry Childs (Duke University) | |
15:00 - 15:15 | Tri-Modality Representation Learning for Molecular Property Prediction | Jing Li (Case Western Reserve University) | |
15:15 - 15:45 | Break | ||
15:45 - 17:15 Poster Flash Talk Chair: Feng-Lin Liu (Professor, Peking University) | |||
Domain-Adaptive Language Models for Pathogen Genomic and Proteomic Intelligence | Shuhui Song (Beijing Institute of Genomics, CAS) | ||
Predicting Protein - Protein Interactions with Models for Target Proteins | Bruno Rafael Florentino (University of São Paulo) | ||
Accessibility in proteins and RNAs interactions prediction with machine learning: are we overlooking non-experts? | Bruno Rafael Florentino (University of São Paulo) | ||
MI-MBF: AMutualInformation -Markov Blanket Feature Selection Algorithm for High-Dimensional Gene Data and Liver Cancer Biomarker Discovery | Xiaoyang Wang (University of Science and Technololy Beijing) | ||
AI-assisted data mining platform for target, biomarker and mechanism discovery | Sukjoon Yoon (Sookmyung Women's University) | ||
Cooperation Between Joint and Individual Modalities for Multi-Omics Cancer Subtyping | Debanjan Chakraborty (Machine Intelligence Unit, Indian Statistical Institute, Kolkata) | ||
GenomeHarness: Harnessing AI Agents for Reliable Adaptation of Genome Language Models | Yusen Hou (The Hong Kong University of Science and Technology (Guangzhou)) | ||
ProtAug: An Empirical Investigation of pLM-Guided Data Augmentation for Protein Sequence Prediction Tasks | Zhuoyang Chen (The Hong Kong University of Science and Technology (Guangzhou)) | ||
FlowCap: Multi-objective generation of receptor-specific AAV capsids via discrete flow matching | Won Joon Kim (The Hong Kong University of Science and Technology) | ||
A DeepSurv-Based Integrative Framework for Identifying Autophagy-Associated Prognostic RNA-Binding Proteins in Head and Neck Squamous Cell Carcinoma | Shifei Wei (the Fifth Affiliated Hospital of Sun Yat-sen University) | ||
An EM-based procedure for Improved Taxonomic Assignment of Metagenomic reads | YaeJi Kim (School of Biological Sciences, Seoul National University, Seoul, Republic of Korea) | ||
A seamless web workflow integrating Foldseek, FoldMason, and Folddisco for end-to-end protein structure analysis | Younghoon Lee (Seoul National University) | ||
AlphaFold Database expands to proteome-scale quaternary structures | Han Yewon (Seoul National University) | ||
MetaAttendant: A Leakage-Safe Benchmark and Ontology-Grounded Framework for Single-Cell Metadata Curation | Chunryong Oh (Center for Bioinformatics, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) | ||
What do LLMs know about cell signalling? Introducing CellSigBench, a literature-density-stratified evaluation using OmniPath | Syed Tauheed Ahmad (Precision Medicine Lab) | ||
Towards a Causality-Oriented Regulatory Foundation Model based on Large-Scale Perturbation-Free Data | Cheng Li (Peking University) | ||
A protocol for cross-platform integration of high-content screening profiles to predict small-molecule function | Siyuan Ye (Fudan University) | ||
Multi-omics data-fusion uncovers distinct molecular signatures of intra-articular micro-fragmented adipose tissue versus hyaluronic acid treatments in inflammatory knee osteoarthritis | Noel Malod (Mohamed Bin Zayed University of Artificial Intelligence (MBZUAI)) | ||
Exploiting the Linearity of Joint Embedding Spaces to Mine Cancer Precision Medicine Knowledge | Natasa Przulj (Mohamed Bin Zayed University of Artificial Intelligence (MBZUAI)) | ||
17:30 | Shuttle Bus Back to Prama Hotel / Sanur Area | ||
August 24 | |||
Venue: Awan Auditorium, 3F | |||
Time | Program | Speaker | |
Session 5: Multi-Omics Integration, Disease Prediction & Biomedical Reasoning | |||
09:00 - 09:15 | BioREASONIC: A Causal-Oriented GraphRAG System for Multi-Omics Biomedical Reasoning | Sakhaa Alsaedi (King Abdullah University of Science and Technology (KAUST)) | |
09:15 - 09:30 | MoPE-MOI: A Mixture-of-Pathway-Experts Framework for Interpretable Multi-Omics Integration | Zhe Liu (Seoul National University) | |
09:30 - 09:45 | GAE-Delta: A Graph-Learning Framework for Gene Network Rewiring and Clinical Outcome Prediction from Multi-Omics Data | Zhiyong Tang (University of Southampton) | |
09:45 - 10:00 | Profiling Gastrointestinal Cancer Subtypes through Integrated Analysis of Tumor Microenvironment Genomic and Microbial Features | Xiaoyang Wang (University of Science and Technololy Beijing) | |
10:00 - 10:15 | Learning Shift-Invariant Graph Representations for Cox Survival on Multi-Modal Cancer Data | Lingxi Chen (City University of Hong Kong) | |
10:15 - 10:30 Break | |||
Session 5: Multi-Omics Integration, Disease Prediction & Biomedical Reasoning Chair: Xuegong Zhang (Chair, ISCB-China; Vice President, ISCB; Professor, Tsinghua University) | |||
10:30 - 10:45 | A Deep Representation Learning Method for Quantitative Immune Defense Function Evaluation and Its Clinical Applications | Anyuan Guo (Sichuan University) | |
10:45 - 11:00 | Patient-level drug response prediction through dual adversarial alignment of pre- and post-drug treatment transcriptomic states | Sugyun An (AIGENDRUG) | |
11:00 - 11:15 | ROCKET: Risk-Oriented Causal Knowledge - Enriched Topology for Enhancing Healthcare Predictions | Sakhaa Alsaedi (King Abdullah University of Science and Technology (KAUST)) | |
11:15 - 11:30 | DeepMAP: A Pretrained Multimodal Framework for Connecting Disease with Therapeutic Compounds | Zhi Huang (The Hong Kong University of Science and Technology) | |
11:30 - 11:45 | synerOmics: Machine Learning-Driven Discovery of Synergistic Protein Interactions Underlying Cancer Drug Response | Priya Ramarao-Milne (CSIRO) | |
11:45 - 12:00 | Deep learning prioritizes cancer mutations that alter protein nucleocytoplasmic shuttling to drive tumorigenesis | Zexian Liu (Sun Yat-sen University Cancer Center) | |
12:00 - 13:15 | Lunch (Outside or in Tech Incubator Room, 3F) | ||
Session 5: Multi-Omics Integration, Disease Prediction & Biomedical Reasoning Chair: Hao Jiang (Renmin University of China) | |||
13:15 - 13:30 | WACA-DTA: Logit-Level Geometric and Hydration Biases for Structure-Conditioned Drug - Target Affinity Prediction | Kehan Huang (China pharmauciutical university) | |
Session 6: Fitness and Cross-Species Chair: Toshiaki Katayama (Professor, Database Center for Life Science) | |||
13:45 - 14:00 | ArchaicSeeker 3.0: A deep-learning framework for scalable, haplotype-resolved inference of archaic introgression | Shuhua Xu (Fudan University) | |
14:00 - 14:15 | CrossGapFilling: Context-Aware Deep Learning for Cross-Species Metabolic Network Gap-Filling | Ziwei Yang (Chugai Pharmaceutical Co., Ltd.) | |
14:15 - 14:30 | ANIMA: A Cross-Species Approach for Protein-Protein Interaction Prediction | Bruno Rafael Florentino (University of São Paulo) | |
14:30 - 14:45 Closing by Xuegong Zhang (Chair, ISCB-China; Vice President, ISCB; Professor, Tsinghua University) | |||
14:45 - 15:45 Poster & Exhibitions | |||
16:00 Shuttle Bus Back to Prama Hotel/Sanur Area | |||
