arXiv AI

BIRDNet: Mining and Encoding Boolean Implication Knowledge Graphs as Interpretable Deep Neural Networks

BIRDNet is a neural network that mines Boolean implication relationships (BIRs) from tabular data and encodes them as a sparse, interpretable architecture where each hidden unit represents a mined rule connecting two features. The design yields a model that is at most 2/d of the weights active per layer and retains symbolic identities for each unit, allowing direct rule extraction without surrogate models. Experiments on six transcriptomic and proteomic datasets show BIRDNet achieves AUROC within 0.02 of the best dense baseline while using up to 95× fewer active parameters, and its first‑layer rules align with known biological signatures.

arXiv Machine Learning
3d ago

Neuron Activation-based Computation of Logical Explanations for Deep Neural Networks

The paper introduces a flexible symbolic framework that efficiently computes logical explanations for deep neural networks by parameterizing explanations with internal neuron activations and leveraging general-purpose logical engines like SMT solvers. Unlike previous methods that rely on specialized verifiers or are limited to individual input features, this approach is not restricted in shape and can scale to deep architectures. Experiments on image recognition and medical benchmarks demonstrate improved computational efficiency and the ability to explain networks that were previously intractable for logic-based methods.

By Tom\'a\v{s} Kol\'arik, Faezeh Labbaf, Fabrizio Leopardi, Grigory Fedyukovich, Michael Wand, Natasha Sharygina
arXiv AI
Aug 19

Neuro-symbolic learning over OWL 2 DL via consequence-based compilation to differentiable circuits

Baobab compiles an OWL 2 DL (ΣROIQ) ontology with a finite ABox into a Sentential Decision Diagram (SDD), saturating a propositional core and instantiating remaining DL features over the active domain. The resulting evidence‑conditioned weighted model count trains a perception network to recognize real images under partial ABox supervision, enabling a CNN to recover latent ontology concepts that an independent perception would miss. When supervision allows multiple ontology‑consistent completions, Baobab’s mixture indexed by query justifications represents the calibrated posterior, achieving Bayes‑optimal performance on a real‑image MNIST task where single‑WMC and learned mixtures fail, thereby characterizing and mitigating reasoning shortcuts in a non‑Horn description logic.

By Olga Mashkova, Asaad Mohammedsaleh, Fernando Zhapa-Camacho, Robert Hoehndorf
arXiv AI
3d ago

SeqMaestro: From nucleotide sequences to biological hypotheses through interpretable machine learning

arXiv:2609.14882v1 Announce Type: cross Abstract: Nucleotide sequence analysis is central to problems spanning regulatory genomics, evolutionary biology, and phenotype prediction. Classical bioinform...

By Evgeny S. Saveliev, Krzysztof Kacprzyk, Charlotte Capitanchik, Neelanjan Mukherjee, Kate Matlin, Ryan Sheridan, Srinivas Ramachandran, Jernej Ule, David L. Bentley, Mihaela van der Schaar
arXiv Machine Learning
Aug 3

MoPET: Parameter-Efficient Mixture-of-Experts for Unified Medical Image Classification

arXiv:2607. 29462v1 Announce Type: cross Abstract: Adapting deep learning models to profound clinical heterogeneity typically relies on parameter-efficient fine-tuning (PEFT) to avoid the severe overfitting associated with full end-to-end network updates.

By Sebastian Doerrich, Daniel W\"urtinger, Francesco Di Salvo, Shyam Nandan Rai, Christian Ledig
arXiv Machine Learning
Aug 27

MetaSieve: Faster Relational Deep Learning through SQL-Based Metapath Selection

MetaSieve is a metapath selection layer that reduces subgraph size in relational deep learning by pruning uninformative metapaths using SQL join and aggregation statistics. It scores candidate metapath extensions with a lightweight function that favors informative yet lightweight paths, discarding those below a threshold. The method is independent of GNN parameters and, when applied to the RelBench benchmark, consistently cuts per‑epoch training time while preserving or improving accuracy.

By Fahim Shahriar Khan, Ashraf Aboulnaga