SciNLP is a new benchmark dataset for full‑text entity and relation extraction in the NLP domain, comprising 60 manually annotated papers with 6,429 entities and 1,649 relations. It is the first dataset to provide full‑text annotations of entities and their relationships specifically for NLP literature. Experiments show that models trained on SciNLP outperform baselines on certain tasks, and the dataset enabled the automatic construction of a fine‑grained knowledge graph with an average node degree of 3.3.
arXiv:2609.00228v1 Announce Type: new Abstract: Scientific domain entity linking (EL) differs from general domain EL because mentions and entity names often lack lexical overlap. Another challenge is...
arXiv:2608. 08636v1 Announce Type: cross Abstract: Scientific named entity recognition (SciNER) plays a crucial role in information extraction and knowledge discovery from scientific texts.
arXiv:2606. 15412v1 Announce Type: cross Abstract: Biomedical relation extraction (BioRE) is a key step in transforming biomedical literature into structured knowledge.
This thesis explores how to select and adapt NLP models for global health literature when annotated data and computational resources are scarce. It compares skip‑gram word2vec models trained on increasingly large specialized corpora with BioWordVec for semantic tag discovery, finding that larger coverage does not always yield more useful domain associations. The study also evaluates convolutional spaCy models versus a RoBERTa transformer for named entity recognition, noting a trade‑off between higher F1 scores and longer inference time, and investigates MiniLM few‑shot versus BART‑MNLI zero‑shot classification for multi‑label topic classification, highlighting practical constraints of inference cost. "whyItMatters":"The work provides empirical guidance on balancing model accuracy and resource demands for building knowledge systems in low‑resource global health settings."
CMNIE is a new benchmark for extracting structured information from Chinese military news, covering event triggers, arguments, named entities, and entity relations under a unified schema. The dataset contains 13,000 manually annotated instances with 7 event types, 10 argument roles, 7 entity types, and 8 relation types. Experiments show that current supervised models, zero‑shot LLMs, and fine‑tuned LLMs struggle with relation extraction and exact span matching, highlighting the challenge of joint structured extraction in this domain.
arXiv:2601. 15037v2 Announce Type: replace-cross Abstract: Open-domain Relational Triplet Extraction (ORTE) aims to mine structured knowledge without predefined relation schemas.
The paper introduces a weakly supervised framework for extracting dataset mentions from forced displacement and Fragile, Conflict, and Violence (FCV) documents. It uses a lightweight model trained on general research literature to generate candidate mentions, which are then refined by a large language model that validates or rejects them and corrects boundaries. The refined annotations are augmented with synthetic and contrastive examples to fine‑tune the model, achieving 74.1% precision and 70.5% recall on a benchmark of 1,706 passages, with higher precision (89.5%) on passages that contain dataset references.
EvidenceNet is a disease‑specific dataset that transforms full‑text biomedical literature into structured evidence records and graph representations, preserving study design, provenance, and quantitative support. Using an LLM‑assisted pipeline, it extracts experimentally grounded findings, normalizes entities, scores evidence quality, and links related records via typed semantic relations. The released subsets—EvidenceNet‑HCC and EvidenceNet‑CRC—contain thousands of evidence records and richly connected graphs, with high extraction and relation‑type accuracy, enabling retrieval‑augmented question answering and graph‑based tasks such as link prediction and target prioritization.
arXiv:2608. 19201v1 Announce Type: cross Abstract: Bioinformatics software and databases are essential components of modern life science research, yet their mentions in the scientific literature are often inconsistent and difficult to systematically identify at scale.
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.
arXiv:2607. 21610v1 Announce Type: cross Abstract: Schema graphs are an upstream bottleneck of schema-grounded information extraction and knowledge graph construction, yet most extraction systems assume the schema is already available.
The paper introduces a configurable semantic chunking framework for biomedical information extraction in retrieval‑augmented generation systems. It replaces the fixed‑size chunking stage of BioMedRAG with entity‑preserving windows, trigger‑centered chunking, proposition‑first extraction, tiered trigger prioritization, and hierarchical relation resolution, while keeping the rest of the pipeline unchanged. Experiments on relation extraction benchmarks (GM‑CIHT, DDI, ChemProt) and adverse event classification (ADE) show that the hybrid configuration boosts performance on datasets with explicit relation cues, achieving 82.6% F1 on GM‑CIHT compared to 74.2% with the baseline.