Dataset Information

Identifying medical terms in patient-authored text: a crowdsourcing-based approach.

ABSTRACT: As people increasingly engage in online health-seeking behavior and contribute to health-oriented websites, the volume of medical text authored by patients and other medical novices grows rapidly. However, we lack an effective method for automatically identifying medical terms in patient-authored text (PAT). We demonstrate that crowdsourcing PAT medical term identification tasks to non-experts is a viable method for creating large, accurately-labeled PAT datasets; moreover, such datasets can be used to train classifiers that outperform existing medical term identification tools.To evaluate the viability of using non-expert crowds to label PAT, we compare expert (registered nurses) and non-expert (Amazon Mechanical Turk workers; Turkers) responses to a PAT medical term identification task. Next, we build a crowd-labeled dataset comprising 10 000 sentences from MedHelp. We train two models on this dataset and evaluate their performance, as well as that of MetaMap, Open Biomedical Annotator (OBA), and NaCTeM's TerMINE, against two gold standard datasets: one from MedHelp and the other from CureTogether.When aggregated according to a corroborative voting policy, Turker responses predict expert responses with an F1 score of 84%. A conditional random field (CRF) trained on 10 000 crowd-labeled MedHelp sentences achieves an F1 score of 78% against the CureTogether gold standard, widely outperforming OBA (47%), TerMINE (43%), and MetaMap (39%). A failure analysis of the CRF suggests that misclassified terms are likely to be either generic or rare.Our results show that combining statistical models sensitive to sentence-level context with crowd-labeled data is a scalable and effective technique for automatically identifying medical terms in PAT.

SUBMITTER: MacLean DL

PROVIDER: S-EPMC3822103 | biostudies-literature | 2013 Nov-Dec

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Identifying medical terms in patient-authored text: a crowdsourcing-based approach.

MacLean Diana Lynn DL Heer Jeffrey J

Journal of the American Medical Informatics Association : JAMIA 20130505 6

<h4>Background and objective</h4>As people increasingly engage in online health-seeking behavior and contribute to health-oriented websites, the volume of medical text authored by patients and other medical novices grows rapidly. However, we lack an effective method for automatically identifying medical terms in patient-authored text (PAT). We demonstrate that crowdsourcing PAT medical term identification tasks to non-experts is a viable method for creating large, accurately-labeled PAT datasets ...[more]

PMID: 23645553

Similar Datasets

Project description:Medical terms are a major obstacle for patients to comprehend their electronic health record (EHR) notes. Clinical natural language processing (NLP) systems that link EHR terms to lay terms or definitions allow patients to easily access helpful information when reading through their EHR notes, and have shown to improve patient EHR comprehension. However, high-quality lay language resources for EHR terms are very limited in the public domain. Because expanding and curating such a resource is a costly process, it is beneficial and even necessary to identify terms important for patient EHR comprehension first.We aimed to develop an NLP system, called adapted distant supervision (ADS), to rank candidate terms mined from EHR corpora. We will give EHR terms ranked as high by ADS a higher priority for lay language annotation-that is, creating lay definitions for these terms.Adapted distant supervision uses distant supervision from consumer health vocabulary and transfer learning to adapt itself to solve the problem of ranking EHR terms in the target domain. We investigated 2 state-of-the-art transfer learning algorithms (ie, feature space augmentation and supervised distant supervision) and designed 5 types of learning features, including distributed word representations learned from large EHR data for ADS. For evaluating ADS, we asked domain experts to annotate 6038 candidate terms as important or nonimportant for EHR comprehension. We then randomly divided these data into the target-domain training data (1000 examples) and the evaluation data (5038 examples). We compared ADS with 2 strong baselines, including standard supervised learning, on the evaluation data.The ADS system using feature space augmentation achieved the best average precision, 0.850, on the evaluation set when using 1000 target-domain training examples. The ADS system using supervised distant supervision achieved the best average precision, 0.819, on the evaluation set when using only 100 target-domain training examples. The 2 ADS systems both performed significantly better than the baseline systems (P<.001 for all measures and all conditions). Using a rich set of learning features contributed to ADS's performance substantially.ADS can effectively rank terms mined from EHRs. Transfer learning improved ADS's performance even with a small number of target-domain training examples. EHR terms prioritized by ADS were used to expand a lay language resource that supports patient EHR comprehension. The top 10,000 EHR terms ranked by ADS are available upon request.

Project description:BACKGROUND:Crowdsourcing is used increasingly in health and medical research. Crowdsourcing is the process of aggregating crowd wisdom to solve a problem. The purpose of this systematic review is to summarize quantitative evidence on crowdsourcing to improve health. METHODS:We followed Cochrane systematic review guidance and systematically searched seven databases up to September 4th 2019. Studies were included if they reported on crowdsourcing and related to health or medicine. Studies were excluded if recruitment was the only use of crowdsourcing. We determined the level of evidence associated with review findings using the GRADE approach. RESULTS:We screened 3508 citations, accessed 362 articles, and included 188 studies. Ninety-six studies examined effectiveness, 127 examined feasibility, and 37 examined cost. The most common purposes were to evaluate surgical skills (17 studies), to create sexual health messages (seven studies), and to provide layperson cardio-pulmonary resuscitation (CPR) out-of-hospital (six studies). Seventeen observational studies used crowdsourcing to evaluate surgical skills, finding that crowdsourcing evaluation was as effective as expert evaluation (low quality). Four studies used a challenge contest to solicit human immunodeficiency virus (HIV) testing promotion materials and increase HIV testing rates (moderate quality), and two of the four studies found this approach saved money. Three studies suggested that an interactive technology system increased rates of layperson initiated CPR out-of-hospital (moderate quality). However, studies analyzing crowdsourcing to evaluate surgical skills and layperson-initiated CPR were only from high-income countries. Five studies examined crowdsourcing to inform artificial intelligence projects, most often related to annotation of medical data. Crowdsourcing was evaluated using different outcomes, limiting the extent to which studies could be pooled. CONCLUSIONS:Crowdsourcing has been used to improve health in many settings. Although crowdsourcing is effective at improving behavioral outcomes, more research is needed to understand effects on clinical outcomes and costs. More research is needed on crowdsourcing as a tool to develop artificial intelligence systems in medicine. TRIAL REGISTRATION:PROSPERO: CRD42017052835. December 27, 2016.

Dataset Information

Identifying medical terms in patient-authored text: a crowdsourcing-based approach.

Publications

Identifying medical terms in patient-authored text: a crowdsourcing-based approach.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure