Publications

10 results at ISMB 2025

AutoPeptideML 2: An open source library for democratizing machine learning for peptide bioactivity prediction
- - Raúl Fernández Díaz
  - Lam Thanh Hoang
  - et al.
- 2025
- ISMB 2025
GENET: AI-Powered Interactive Visualization Workflows to Explore Biomedical Entity Networks
- - Bc Kwon
  - Natasha Mulligan
  - et al.
- 2025
- ISMB 2025
LEOPARD: Linking Experimental Observations with Predictive Algorithms to reveal Response Dynamics for the single cell
- - Vibha Anand
  - Akira Koseki
  - et al.
- 2025
- ISMB 2025
Designing a Multi-Agent AI Framework to Mine Scientific Literature and Experiment Datasets to Support and Enrich Single-Cell Analyses
- - Joao Bettencourt-Silva
  - Natasha Mulligan
  - et al.
- 2025
- ISMB 2025
BioVERSE: A Modular Framework for Integrating Biomedical Modalities with Language Models in Precision Medicine
- - Ching-Huei Tsou
  - Michal Ozery-Flato
  - et al.
- 2025
- ISMB 2025
Optimal Transport on structured data for improved classification of host health from omics data
- - Nandini Gadhia
  - Michail Smyrnakis
  - et al.
- 2025
- ISMB 2025
Harnessing biomedical foundation models for genomic feature engineering to investigate patient drug response
- - Laura Gardiner
  - Stephen Checkley
  - et al.
- 2025
- ISMB 2025
Improving Transcriptomic Foundation Models Through Gene-Level Error Analysis and Adaptive Masking
- - Michael Morris Danziger
  - Bharath Dandala
  - et al.
- 2025
- ISMB 2025
Transcriptomic Foundation Model Evaluation: Quantifying Expression Level Discrimination Through Null Sample Testing
- - Noa Moriel
  - Michael Morris Danziger
  - et al.
- 2025
- ISMB 2025
DOES YOUR MODEL UNDERSTAND GENES? A MODALITY-AGNOSTIC BENCHMARK OF GENE PROPERTIES
- - Yoav Kan-Tor
  - Michael Morris Danziger
  - et al.
- 2025
- ISMB 2025