ASI2025: 3RD WORKSHOP ON ADVANCES IN SYSTEMS IMMUNOLOGY

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Abeer, A N M Nafiz	Efficient Encoding of TCR-pMHC Structure for Improved Structure-Based Binding Prediction An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
Al Seesi, Sahar	GeNeo2: a suite of bioinformatics tools for identifying tumor-specific neoepitopes with enhanced features for personalized cancer immunotherapies
Annick, Nishimwe	Cancer Immunology: Mechanisms, Clinical Impact, and Future Directions
Atay, Yilmaz	CoDER: A new framework for Consistent Drug Efficacy Ranking
Azim, Sayed Mehedi	Toward Automated and Scalable Hematopoietic Cell Sorting: A Deep Learning Approach
B
Bertini, Flavio	Predicting Healthcare-Associated Infections in Emergency Department Patients with Solid Tumor History
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Chakravarthy, Manav	scMultiNODE: Integrative and Scalable Framework for Multi-Modal Temporal Single-Cell Data
Chen, Tianlong	Multi-Agent LLM Frameworks for Multimodal Identification of Alzheimer’s Disease
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Dehzangi, Iman	Toward Automated and Scalable Hematopoietic Cell Sorting: A Deep Learning Approach
Ding, Zhengming	Post-hoc Explanation for TCR-pMHC Prediction
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Fabbri, Andrea	Predicting Healthcare-Associated Infections in Emergency Department Patients with Solid Tumor History
Force, Jordan	GeNeo2: a suite of bioinformatics tools for identifying tumor-specific neoepitopes with enhanced features for personalized cancer immunotherapies
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Gatimakeza, Chaltienne	Deep learning for immune network inference from single-cell omics data and modeling tumor-immune system interaction
Ghanbariabdolmaleki, Marjan	Evaluation of Nuclei Isolation Techniques for Single-Nucleus RNA Sequencing in Tissue and Cell Suspensions
Guzzi, Pietro Hiram	CoDER: A new framework for Consistent Drug Efficacy Ranking
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Han, Jianzhong	Toward Automated and Scalable Hematopoietic Cell Sorting: A Deep Learning Approach
Huang, Ellen	On the Intractability of Evolutionary Dynamics in Layered Graphs
Huang, Isaac	Exploring Large Language Models for Parameter Estimation: Insights from the Moran Process
Huang, Jian	Toward Automated and Scalable Hematopoietic Cell Sorting: A Deep Learning Approach
Huang, Jimmy	Exploring Large Language Models for Parameter Estimation: Insights from the Moran Process
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Ikegami, Tetsuro	An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
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Ji, Shuiwang	An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
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Kahveci, Omer	CoDER: A new framework for Consistent Drug Efficacy Ranking
Kahveci, Tamer	CoDER: A new framework for Consistent Drug Efficacy Ranking
Kaulagi, Suresh	Regulatory Drift in Immune Aging: Enhancer Logic and Methylation-Based Predictors Across Species
Khalkhali, Vahid	Toward Automated and Scalable Hematopoietic Cell Sorting: A Deep Learning Approach
Kunau, Timothy	GraphMatch: Knowledge Graphs for Allogeneic Stem Cell Matching
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Landry, Samuel	Post-hoc Explanation for TCR-pMHC Prediction
Li, Jiarui	Post-hoc Explanation for TCR-pMHC Prediction
Liu, Bo	Multi-View Graph–Text Alignment for Immunology
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Mandoiu, Ion	GeNeo2: a suite of bioinformatics tools for identifying tumor-specific neoepitopes with enhanced features for personalized cancer immunotherapies
Mettu, Ramgopal	Post-hoc Explanation for TCR-pMHC Prediction
Mishra, Suyash	Orthogonal Concept Representation for Traceable Deductive Reasoning: A Neuro-Symbolic Framework for Continual Learning with Applications in Oncology
Montesi, Danilo	Predicting Healthcare-Associated Infections in Emergency Department Patients with Solid Tumor History
Moussa, Marmar	Evaluation of Nuclei Isolation Techniques for Single-Nucleus RNA Sequencing in Tissue and Cell Suspensions LSTM Prediction of Next-Gene Mutations Using Graph-Derived Orders in Colon Adenocarcinoma
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Oh, Jaemin	An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
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Pistore, Laura	Predicting Healthcare-Associated Infections in Emergency Department Patients with Solid Tumor History
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Qian, Xiaoning	Efficient Encoding of TCR-pMHC Structure for Improved Structure-Based Binding Prediction An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
Qu, Guangzhi	Multi-View Graph–Text Alignment for Immunology
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Rezaei, Mahsa	CoDER: A new framework for Consistent Drug Efficacy Ranking
Roy, Raj Shekhor	An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
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Sang, Tony	Multi-View Graph–Text Alignment for Immunology
Sarker, Kowshika	Enhancing computational immunometabolomic analysis with domain knowledge
Schwartz, Russell	Reconstructing the co-evolution of tumors and their microenvironment from multiomic data
Shcheglova, Tatiana	GeNeo2: a suite of bioinformatics tools for identifying tumor-specific neoepitopes with enhanced features for personalized cancer immunotherapies
Sherafat, Elham	GeNeo2: a suite of bioinformatics tools for identifying tumor-specific neoepitopes with enhanced features for personalized cancer immunotherapies
Shishkin, Aleksandr	LSTM Prediction of Next-Gene Mutations Using Graph-Derived Orders in Colon Adenocarcinoma
Singh, Ritambhara	scMultiNODE: Integrative and Scalable Framework for Multi-Modal Temporal Single-Cell Data
Smith, Haley	Post-hoc Explanation for TCR-pMHC Prediction
Srivastava, Pramod	GeNeo2: a suite of bioinformatics tools for identifying tumor-specific neoepitopes with enhanced features for personalized cancer immunotherapies
Sumrell, Collin	LSTM Prediction of Next-Gene Mutations Using Graph-Derived Orders in Colon Adenocarcinoma
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Tan, Frank	Exploring Large Language Models for Parameter Estimation: Insights from the Moran Process
Tan, Xing	On the Intractability of Evolutionary Dynamics in Layered Graphs
Tascioglu, Ayca Begum	Predicting Healthcare-Associated Infections in Emergency Department Patients with Solid Tumor History
Teng, Shaolei	Computational and Experimental Integration Reveals Multi-scale Effects of Peroxidase Mutations
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Vasilakis, Nikos	An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
Veltri, Pierangelo	CoDER: A new framework for Consistent Drug Efficacy Ranking
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Wang, Song	Multi-Agent LLM Frameworks for Multimodal Identification of Alzheimer’s Disease
Weaver, Scott C	An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
Wilhelm, Stefan	Understanding nano-bio interactions to enable next-generation vaccines and drug delivery systems
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Yin, Zixiang	Post-hoc Explanation for TCR-pMHC Prediction
Yoon, Byung-Jun	Efficient Encoding of TCR-pMHC Structure for Improved Structure-Based Binding Prediction An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants
Yue, Xiao	Multi-View Graph–Text Alignment for Immunology
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Zhai, Chengxiang	Enhancing computational immunometabolomic analysis with domain knowledge
Zhang, Jiaqi	scMultiNODE: Integrative and Scalable Framework for Multi-Modal Temporal Single-Cell Data

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