Evidence map›Paper›PMID 41758130›Full record

ArticlePacific Symposium on Biocomputing. Pacific Symposium on Biocomputing2026

Inference Gap in Domain Expertise and Machine Intelligence in Named Entity Recognition: Creation of and Insights from a Substance Use-related Dataset.

Sumon Kanti Dey, Jeanne M Powell, Azra Ismail, Jeanmarie Perrone, Abeed Sarker

Abstract read
In one paragraph

Article in Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors.

Sumon Kanti DeyDepartment of Biomedical Informatics, Emory University, Atlanta, GA 30322, USA.
Jeanne M PowellDepartment of Biomedical Informatics, Emory University, Atlanta, GA 30322, USA.
Azra IsmailDepartment of Biomedical Informatics, Emory University, Atlanta, GA 30322, USA.
Jeanmarie PerroneDepartment of Emergency Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Abeed SarkerDepartment of Biomedical Informatics, Emory University, Atlanta, GA 30322, USA, abeed.sarker@emory.edu.

Funding

Mining Social Media Big Data for Toxicovigilance: Studying Substance Use via Natural Language Processing and Machine Learning MethodsR01DA057599 · NIDA · EMORY UNIVERSITY · PI Abeed H Sarker · 2022 to 2026
$2.2M
NIDA NIH HHS R01 DA057599
6 · The paper itself

Abstract

Nonmedical opioid use is an urgent public health challenge, with far-reaching clinical and social consequences that are often underreported in traditional healthcare settings. Social media platforms, where individuals candidly share first-person experiences, offer a valuable yet underutilized source of insight into these impacts. In this study, we present a named entity recognition (NER) framework to extract two categories of self-reported consequences from social media narratives related to opioid use: ClinicalImpacts (e.g., withdrawal, depression) and SocialImpacts (e.g., job loss). To support this task, we introduce RedditImpacts 2.0, a high-quality dataset with refined annotation guidelines and a focus on first-person disclosures, addressing key limitations of prior work. We evaluate both fine-tuned encoderbased models and state-of-the-art large language models (LLMs) under zero- and few-shot in-context learning settings. Our fine-tuned DeBERTa-large model achieves a relaxed tokenlevel F1 of 0.61 [95% CI: 0.43-0.62], consistently outperforming LLMs in precision, span accuracy, and adherence to task-specific guidelines. Furthermore, we show that strong NER performance can be achieved with substantially less labeled data, emphasizing the feasibility of deploying robust models in resource-limited settings. Our findings underscore the value of domain-specific fine-tuning for clinical NLP tasks and contribute to the responsible development of AI tools that may enhance addiction surveillance, improve interpretability, and support real-world healthcare decision-making. The best performing model, however, still significantly underperforms compared to inter-expert agreement (Cohen's kappa: 0.81), demonstrating that a gap persists between expert intelligence and current state-of-the-art NER/AI capabilities for tasks requiring deep domain knowledge. The dataset, annotation guidelines, appendix, and training scripts are publicly available to support future research.**https://github.com/SumonKantiDey/Reddit_Impacts_NER.

Indexed as

Artificial IntelligenceSubstance-Related DisordersComputational BiologyData MiningHumansLarge Language ModelsOpioid-Related DisordersSocial Media

Identifiers

PMID41758130
PMCPMC12952680

What Socratic holds

Textmetadata
LicenceCC BY-NC
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.