From Rules to Neural Graphs: Scalable Structured Prediction for Patent Prior Art Search

Patent retrieval underpins critical decisions in innovation, examination, and IP strategy, yet progress has been hampered by the absence of benchmarks that reflect the diversity of real world search scenarios. We address this gap with two contributions. First, we introduce Sophiabench, a large-scale patent retrieval benchmark comprising 10,000 queries and 75,000 corpus documents stratified across ten years, eight IPC technology sections, and twelve filing jurisdictions. Unlike prior benchmarks, Sophia-bench tests retrieval using 12 different query types-from structured patent fields to AI-generated summaries-and evaluates results against citation-based ground truth enhanced with a novel domain-relevance metric (InScope). Together, these enable systematic measurement of how well models perform across query types, technology domains, and jurisdictions. Second, we introduce QaECTER, a 344M-parameter embedding model trained on patent citation graphs and multi-view self-alignment. Despite its compact size, QaECTER establishes a new state of the art for patent retrieval. It outperforms the #1 model on the English retrieval text embedding benchmark (RTEB), a model 23x larger, as well as all existing patent specific models across every query type, IPC section, and jurisdiction on Sophia-bench, with gains of up to 7.2% average NDCG@10 over the next-best model. These results are confirmed on an independent external benchmark, where QaECTER surpasses all prior models without requiring task-specific instruction prompts. Both the benchmark and the model are designed for practical deployment in large-scale patent search systems.

Pre-trained language models advance patent classification and retrieval by encoding claims as flat token sequences, but they overlook the dependency hierarchy among claims. Incorporating this hierarchy into self-attention poses two challenges. First, claim dependencies include relation types with different levels of reliability, so treating them uniformly may allow noisy technical relations to interfere with more reliable legal citations. Second, claim dependencies are defined at the claim level, whereas Transformer attention operates over tokens, making direct structural injection nontrivial. We propose the Patent Heterogeneous Attention-Guided Graph Encoder (PHAGE), which constructs a typed claim graph that distinguishes legal citations from technical relations. PHAGE projects this claim-level topology into token-level attention through a connectivity mask and learnable relation-aware biases, and fine-tunes the encoder using a dual-granularity contrastive objective that combines inter-patent taxonomy with intra-patent topology. At inference, the graph-specific attention components are removed, allowing representations to be generated through a standard encoder forward pass without CDG construction. Experiments on patent classification, retrieval, and clustering show that PHAGE consistently outperforms domain-adapted and citation-aware baselines, demonstrating the value of claim-level structural guidance for graph-free patent representation learning.

Two questions regarding practitioners' use of patent embeddings arise: (i) Does one fine-tuning recipe suffice for all downstream applications? (ii) Is fine-tuning on one patent landscape sufficient for downstream application on other landscapes? By evaluating 22 pre-trained embedding models (ranging from 22M to 12B parameters) on three tasks -- information retrieval, classification, and clustering -- on 113,148 WIPO patents for assistive technology (46,069 citation queries) and on an external DAPFAM dataset, we find that two results cast doubt on the prevailing wisdom. (i) The optimal fine-tuning recipe depends on the downstream task: cross-sectional alignment (recipe R3) provides the largest improvements to retrieval performance (+7.1% nDCG@10), whereas a combined signal recipe (recipe R4) is better suited to classification (+7.1 F1) and clustering (+10.9 V-measure); a matched data control confirms that differences in training dataset size are not a contributing factor. (ii) Single-landscape fine-tuning hampers cross-landscape information retrieval: fine-tuning on one landscape significantly degrades cross-domain retrieval for 5 of 8 model-recipe combinations on the DAPFAM corpus, with the stronger zero-shot models suffering most. While within-family scaling is consistent (Qwen3 0.6B->4B->8B; Llama-Nemotron 1B->8B), cross-family scaling is erratic; the 12B KaLM-Gemma3 is ranked 8th on TAC retrieval performance, following prefix modification. Title+Abstract+Claims is the ubiquitous best text view, and all models suffer from a 55-65% gap between IN and OUT-of-domain performance which cannot be mitigated by hybrid BM25-dense fusion. Code and evaluation framework are publicly available.