7 accepted papers
Accurate prediction of RNA properties, such as stability and interactions, is crucial for advancing our understanding of biological processes and developing RNA-based therapeutics. RNA structures can be represented as 1D sequences, 2D topological graphs, or 3D all-atom models, each offering differen…
Processing global geometric context while preserving equivariance is crucial when modeling biological, chemical, and physical systems. Yet, this is challenging due to the computational demands of equivariance and global context at scale. Standard methods such as equivariant self-attention suffer fro…
Messenger RNA (mRNA) plays a crucial role in protein synthesis, with its codon structure directly impacting biological properties. While Language Models (LMs) have shown promise in analyzing biological sequences, existing approaches fail to account for the hierarchical nature of mRNA's codon structu…
Inferring Gene Regulatory Networks (GRNs) from gene expression data is crucial for understanding biological processes. While supervised models are reported to achieve high performance for this task, they rely on costly ground truth (GT) labels and risk learning gene-specific biases—such as class imb…
In this work, we explore the trade-offs of explicit structural priors, particularly group-equivariance. We address this through theoretical analysis and a comprehensive empirical study focusing on point clouds. To enable controlled and fair comparisons, we introduce \texttt{Rapidash}, a unified grou…
"The standard approach to contrastive learning is to maximize the agreement between different views of the data. The views are ordered in pairs, such that they are either positive, encoding different views of the same object, or negative, corresponding to views of different objects. The supervisory…
Symmetries built into a neural network have appeared to be very beneficial for a wide range of tasks as it saves the data to learn them. We depart from the position that when symmetries are not built into a model a priori, it is advantageous for robust networks to learn symmetries directly from the…