Cover Image

Beyond Expression Similarity: Contrastive Learning Recovers Functional Gene Associations from Protein Interaction Structure

Fuente: arXiv

Saved in:

Bibliographic Details
Main Author:	Dury, Jason
Format:	Preprint
Published:	2026
Subjects:	Machine Learning Artificial Intelligence
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

Predictive Associative Memory: Retrieval Beyond Similarity Through Temporal Co-occurrence
by: Dury, Jason
Published: (2026)

From Topic to Transition Structure: Unsupervised Concept Discovery at Corpus Scale via Predictive Associative Memory
by: Dury, Jason
Published: (2026)

Association Is Not Similarity: Learning Corpus-Specific Associations for Multi-Hop Retrieval
by: Dury, Jason
Published: (2026)

On Recovering Higher-order Interactions from Protein Language Models
by: Tsui, Darin, et al.
Published: (2024)

Refinement Contrastive Learning of Cell-Gene Associations for Unsupervised Cell Type Identification
by: Peng, Liang, et al.
Published: (2025)

Spatially Resolved Gene Expression Prediction from Histology via Multi-view Graph Contrastive Learning with HSIC-bottleneck Regularization
by: Chi, Changxi, et al.
Published: (2024)

Hashing for Protein Structure Similarity Search
by: Han, Jin, et al.
Published: (2024)

PSC-CPI: Multi-Scale Protein Sequence-Structure Contrasting for Efficient and Generalizable Compound-Protein Interaction Prediction
by: Wu, Lirong, et al.
Published: (2024)

Protein Representation Learning by Capturing Protein Sequence-Structure-Function Relationship
by: Ko, Eunji, et al.
Published: (2024)

Rethinking Graph Contrastive Learning through Relative Similarity Preservation
by: Ning, Zhiyuan, et al.
Published: (2025)

StructRL: Recovering Dynamic Programming Structure from Learning Dynamics in Distributional Reinforcement Learning
by: Nowak, Ivo
Published: (2026)

S$^2$Drug: Bridging Protein Sequence and 3D Structure in Contrastive Representation Learning for Virtual Screening
by: He, Bowei, et al.
Published: (2025)

CCPL: Cross-modal Contrastive Protein Learning
by: Zheng, Jiangbin, et al.
Published: (2023)

Transformer-Based Representation Learning for Robust Gene Expression Modeling and Cancer Prognosis
by: Jiang, Shuai, et al.
Published: (2025)

Learning Human-Aligned Representations with Contrastive Learning and Generative Similarity
by: Marjieh, Raja, et al.
Published: (2024)

Molecular Graph Representation Learning via Structural Similarity Information
by: Yao, Chengyu, et al.
Published: (2024)

Meta-Learning on Augmented Gene Expression Profiles for Enhanced Lung Cancer Detection
by: Moghaddam, Arya Hadizadeh, et al.
Published: (2024)

PhenoGnet: A Graph-Based Contrastive Learning Framework for Disease Similarity Prediction
by: Baminiwatte, Ranga, et al.
Published: (2025)

Contrastive Learning Is Spectral Clustering On Similarity Graph
by: Tan, Zhiquan, et al.
Published: (2023)

Self-ReSET: Learning to Self-Recover from Unsafe Reasoning Trajectories
by: Zhang, Dongcheng, et al.
Published: (2026)

Beyond Similarity: Temporal Operator Attention for Time Series Analysis
by: Twitty, Jevon, et al.
Published: (2026)

GAN-TAT: A Novel Framework Using Protein Interaction Networks in Druggable Gene Identification
by: Wang, George Yuanji, et al.
Published: (2024)

Towards the Transferability of Rewards Recovered via Regularized Inverse Reinforcement Learning
by: Schlaginhaufen, Andreas, et al.
Published: (2024)

Recovering Manifold Structure Using Ollivier-Ricci Curvature
by: Saidi, Tristan Luca, et al.
Published: (2024)

Contrast Similarity-Aware Dual-Pathway Mamba for Multivariate Time Series Node Classification
by: Du, Mingsen, et al.
Published: (2024)

Attending on Multilevel Structure of Proteins enables Accurate Prediction of Cold-Start Drug-Target Interactions
by: Zhang, Ziying, et al.
Published: (2025)

Learning to Model Graph Structural Information on MLPs via Graph Structure Self-Contrasting
by: Wu, Lirong, et al.
Published: (2024)

GCC-Spam: Spam Detection via GAN, Contrastive Learning, and Character Similarity Networks
by: Wang, Zhijie, et al.
Published: (2025)

BOLIMES: Boruta and LIME optiMized fEature Selection for Gene Expression Classification
by: Phan, Bich-Chung, et al.
Published: (2025)

FoldToken: Learning Protein Language via Vector Quantization and Beyond
by: Gao, Zhangyang, et al.
Published: (2024)

Diverse Policies Recovering via Pointwise Mutual Information Weighted Imitation Learning
by: Yang, Hanlin, et al.
Published: (2024)

Dynamics-inspired Structure Hallucination for Protein-protein Interaction Modeling
by: Wu, Fang, et al.
Published: (2026)

De Novo Generation of Hit-like Molecules from Gene Expression Profiles via Deep Learning
by: Li, Chen, et al.
Published: (2024)

VGFL-SA: Vertical Graph Federated Learning Structure Attack Based on Contrastive Learning
by: Chen, Yang, et al.
Published: (2025)

Learning to Predict Mutation Effects of Protein-Protein Interactions by Microenvironment-aware Hierarchical Prompt Learning
by: Wu, Lirong, et al.
Published: (2024)

BSM: Small but Powerful Biological Sequence Model for Genes and Proteins
by: Xiang, Weixi, et al.
Published: (2024)

Tensor-DTI: Enhancing Biomolecular Interaction Prediction with Contrastive Embedding Learning
by: Gil-Sorribes, Manel, et al.
Published: (2026)

Toward a Team of AI-made Scientists for Scientific Discovery from Gene Expression Data
by: Liu, Haoyang, et al.
Published: (2024)

ProtCLIP: Function-Informed Protein Multi-Modal Learning
by: Zhou, Hanjing, et al.
Published: (2024)

Generalized Similarity U: A Non-parametric Test of Association Based on Similarity
by: Wei, Changshuai, et al.
Published: (2018)