ICLR 2025 Papers

International Conference on Learning Representations

Decision breakdown

3,703papers

Counted from the official paper list; may differ slightly from the number the conference announced.

  • Oral
    2135.8%
  • Spotlight
    38010.3%
  • Poster
    3,11084.0%

Browse all papers

Towards Learning High-Precision Least Squares Algorithms with Sequence Models

Jerry Weihong Liu, Jessica Grogan, Owen M Dugan, Ashish Rao, Simran Arora, Atri Rudra, Christopher Re

Expand abstract

This paper investigates whether sequence models can learn to perform numerical algorithms, e.g. gradient descent, on the fundamental problem of least squares. Our goal is to inherit two properties of standard algorithms from numerical analysis: (1) machine precision, i.e. we want to obtain solutions that are accurate to near floating point error, and (2) numerical generality, i.e. we want them to apply broadly across problem instances. We find that prior approaches using Transformers fail to meet these criteria, and identify limitations present in existing architectures and training procedures. First, we show that softmax Transformers struggle to perform high-precision multiplications, which prevents them from precisely learning numerical algorithms. Second, we identify an alternate class of architectures, comprised entirely of polynomials, that can efficiently represent high-precision gradient descent iterates. Finally, we investigate precision bottlenecks during training and address them via a high-precision training recipe that reduces stochastic gradient noise. Our recipe enables us to train two polynomial architectures, gated convolutions and linear attention, to perform gradient descent iterates on least squares problems. For the first time, we demonstrate the ability to train to near machine precision. Applied iteratively, our models obtain $100,000\times$ lower MSE than standard Transformers trained end-to-end and they incur a $10,000\times$ smaller generalization gap on out-of-distribution problems. We make progress towards end-to-end learning of numerical algorithms for least squares.

Poster
Hyperbolic Genome Embeddings

Raiyan R. Khan, Philippe Chlenski, Itsik Pe'er

Expand abstract

Current approaches to genomic sequence modeling often struggle to align the inductive biases of machine learning models with the evolutionarily-informed structure of biological systems. To this end, we formulate a novel application of hyperbolic CNNs that exploits this structure, enabling more expressive DNA sequence representations. Our strategy circumvents the need for explicit phylogenetic mapping while discerning key properties of sequences pertaining to core functional and regulatory behavior. Across 37 out of 42 genome interpretation benchmark datasets, our hyperbolic models outperform their Euclidean equivalents. Notably, our approach even surpasses state-of-the-art performance on seven GUE benchmark datasets, consistently outperforming many DNA language models while using orders of magnitude fewer parameters and avoiding pretraining. Our results include a novel set of benchmark datasets---the Transposable Elements Benchmark---which explores a major but understudied component of the genome with deep evolutionary significance. We further motivate our work by exploring how our hyperbolic models recognize genomic signal under various data-generating conditions and by constructing an empirical method for interpreting the hyperbolicity of dataset embeddings. Throughout these assessments, we find persistent evidence highlighting the potential of our hyperbolic framework as a robust paradigm for genome representation learning. Our code and benchmark datasets are available at https://github.com/rrkhan/HGE.

Poster