Ask a pretrained biomedical language model whether "cortisol 28 ug/dL" and "stock-market volatility" are related, and it returns a cosine similarity of 0. 83 on a scale where 1.
arXiv:2606. 09672v1 Announce Type: new Abstract: Ask a pretrained biomedical language model whether "cortisol 28 ug/dL" and "stock-market volatility" are related, and it returns a cosine similarity of 0.
arXiv:2607. 20527v1 Announce Type: new Abstract: Agentic LLM systems such as OpenScholar and PaperQA2 read the scientific literature and return cited answers, and both they and their benchmarks already check whether those citations hold, with a fixed attribution model or human graders.
arXiv:2607. 05456v1 Announce Type: new Abstract: While recent advances in large language models have enabled end-to-end automated manuscript generation, existing systems suffer from three critical deficiencies: (i) generated claims are not deterministically grounded in verifiable literature, (ii) experimental results are frequently fabricated rather than executed, and (iii) there exists no standardized, multi-dimensional framework to assess whether AI-generated manuscripts meet the quality and rigor required for real-world publication.
The paper introduces Distilled Rapid Embedding Transfer (DRET), a parameter‑efficient method that injects biomedical domain knowledge from large specialized models into a smaller general‑purpose model without retraining on the original specialized corpora. DRET evolves through iterative strategies—tokenizer‑merge (DRET 1.x), hybrid embedding averaging (DRET 2.0), priority‑based embedding transfer (DRET 3.x), and further refinements (DRET 4.x)—and demonstrates that a 66‑million‑parameter DistilBERT can achieve competitive or superior performance on token‑level PICO classification compared to much larger models, while remaining lightweight. The authors validate the embedding‑level transfer with cosine similarity, semantic‑shift, and t‑SNE analyses, highlighting DRET’s potential for scalable, resource‑efficient biomedical text mining.
BioPhys-Bridge is a newly released benchmark dataset designed to evaluate language models on evidence‑grounded scientific reasoning within biophysical literature. Each of its 500 cases includes evidence blocks, stable IDs, quantitative values, units, equations, assumptions, mechanisms, and next‑step decisions, covering six biological domains and nine physical model families. The dataset enforces strict quality gates and has already been evaluated against several models, with DeepSeek‑V4‑Flash achieving the highest evidence‑ID F1 score of 0.360.
arXiv:2605. 06177v2 Announce Type: replace Abstract: Reproducing and comparing deep research agents today is hard: the same backbone evaluated on the same benchmark can report different accuracies across papers because the harness and tool registry differ, and integrating a new model into a comparable evaluation surface costs weeks of model-specific engineering.
arXiv:2608.22381v1 Announce Type: cross Abstract: Scientific papers may relate by problem, method, result, or contribution, but document-level retrievers collapse these into a single similarity score...
arXiv:2608. 08139v1 Announce Type: new Abstract: Establishing the provenance of a language model---including its base checkpoint and possible overlap in training distributions---is a governance challenge that metadata alone cannot resolve.
SHELF is a Python system that creates synthetic, controlled benchmark data for evaluating large language models on bibliographic tasks such as classification, clustering, retrieval, pair classification, and instruction retrieval. It generates 62,899 model-written documents based on Library of Congress vocabularies and compares methods like TF, TF‑IDF, BM25, popular encoders, and zero‑shot decoders, reporting performance metrics such as 0.8887 for subject classification and 0.2605 for genre‑form classification. The tool also allows independent variation of bibliographic facets and can produce unseen documents beyond a model’s training cutoff, with results indicating that model rankings transfer more reliably than absolute scores when compared to other benchmarks.
arXiv:2608. 10216v1 Announce Type: cross Abstract: Agent frameworks ship quality gates that compare text blocks by embedding-cosine similarity and decide at a fixed cutoff.
arXiv:2608.22967v1 Announce Type: new Abstract: Practical molecular inverse design is rarely a one-shot generation problem; it often takes the form of closed-loop candidate-pool enrichment, where und...