arXiv:2609.19071v1 Announce Type: new
Abstract: Extracting SNP-phenotype associations from biomedical literature is vital but challenging. We benchmarked diverse NLP models, including MLMs, hybrid ar...
By Claudiu Creanga, Teodor Marchitan, Liviu P. Dinu
The paper introduces MiNER, a fine‑tuned biomedical NLP system that uses BioBERT to extract malaria‑related named entities from scientific literature. It builds a large, annotated corpus of malaria articles, preprocesses the text, and applies supervised learning to improve extraction performance. Experiments show that MiNER outperforms other encoding and machine‑learning methods in precision, recall, and accuracy, and the authors release the human‑labeled dataset for further research.
By V. S. Anoop, Devika N
arXiv:2606. 15412v1 Announce Type: cross Abstract: Biomedical relation extraction (BioRE) is a key step in transforming biomedical literature into structured knowledge.
By Jakob Mraz, Toma\v{z} Curk, Bla\v{z} Zupan
PiPMRE is a new pipeline for medical relation extraction that uses language models instead of traditional tagging schemes. The framework includes a relation generator that produces multiple relational triplets from a text and a relation filter that scores and selects the most reliable triplets. Experiments on two public datasets show that PiPMRE outperforms previous state‑of‑the‑art methods, improving recall by 5.6 points and accuracy by 4.4 points, and it also performs well in few‑shot scenarios.
By Jiaxin Duan, Fengyu Lu, Junfei Liu
arXiv:2506. 02212v2 Announce Type: replace-cross Abstract: Natural Language Processing (NLP) has transformed various fields beyond linguistics by applying techniques originally developed for human language to the analysis of biological sequences.
By Ella Rannon, David Burstein
arXiv:2606. 29639v1 Announce Type: cross Abstract: Automatic prompt optimization is still underexplored for episodic few-shot relation extraction with smaller language models.
By Aunabil Chakma, Mihai Surdeanu, Eduardo Blanco