ArticleDatabase : the journal of biological databases and curation2016
Overview of the interactive task in BioCreative V.
Article in Database : the journal of biological databases and curation, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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.
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.
Who cites it
24 citing papers in PubMed.
- Empowering biological knowledgebases: advances in human-in-the-loop AI-driven literature curation.Bioinformatics advances · 2026Review
- Vocabulary Matters: An Annotation Pipeline and Four Deep Learning Algorithms for Enzyme Named Entity Recognition.Journal of proteome research · 2024Article
- Overview of the COVID-19 text mining tool interactive demonstration track in BioCreative VII.Database : the journal of biological databases and curation · 2022Article
- MetaboListem and TABoLiSTM: Two Deep Learning Algorithms for Metabolite Named Entity Recognition.Metabolites · 2022Article
- Data libraries - the missing element for modeling biological systems.The FEBS journal · 2020Review
- SIB Literature Services: RESTful customizable search engines in biomedical literature, enriched with automatically mapped biomedical concepts.Nucleic acids research · 2020Article
- Open Agile text mining for bioinformatics: the PubAnnotation ecosystem.Bioinformatics (Oxford, England) · 2019Article
- Design, implementation, and operation of a rapid, robust named entity recognition web service.Journal of cheminformatics · 2019Article
- Overview of the BioCreative VI Precision Medicine Track: mining protein interactions and mutations for precision medicine.Database : the journal of biological databases and curation · 2019Article
- Extraction of chemical-protein interactions from the literature using neural networks and narrow instance representation.Database : the journal of biological databases and curation · 2019Article
- Biocuration: Distilling data into knowledge.PLoS biology · 2018Article
- LocText: relation extraction of protein localizations to assist database curation.BMC bioinformatics · 2018Article
- SolCyc: a database hub at the Sol Genomics Network (SGN) for the manual curation of metabolic networks in Solanum and Nicotiana specific databases.Database : the journal of biological databases and curation · 2018Article
- Accelerating annotation of articles via automated approaches: evaluation of the neXtA5 curation-support tool by neXtProt.Database : the journal of biological databases and curation · 2018Article
- Protein-Protein Interaction Article Classification Using a Convolutional Recurrent Neural Network with Pre-trained Word Embeddings.Journal of integrative bioinformatics · 2017Article
- On expert curation and scalability: UniProtKB/Swiss-Prot as a case study.Bioinformatics (Oxford, England) · 2017Article
- LimTox: a web tool for applied text mining of adverse event and toxicity associations of compounds, drugs and genes.Nucleic acids research · 2017Article
- The BioGRID interaction database: 2017 update.Nucleic acids research · 2017Article
- Improving biocuration of microRNAs in diseases: a case study in idiopathic pulmonary fibrosis.Database : the journal of biological databases and curation · 2017Article
- Text mining and expert curation to develop a database on psychiatric diseases and their genes.Database : the journal of biological databases and curation · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
56 authors.
Funding
Abstract
Fully automated text mining (TM) systems promote efficient literature searching, retrieval, and review but are not sufficient to produce ready-to-consume curated documents. These systems are not meant to replace biocurators, but instead to assist them in one or more literature curation steps. To do so, the user interface is an important aspect that needs to be considered for tool adoption. The BioCreative Interactive task (IAT) is a track designed for exploring user-system interactions, promoting development of useful TM tools, and providing a communication channel between the biocuration and the TM communities. In BioCreative V, the IAT track followed a format similar to previous interactive tracks, where the utility and usability of TM tools, as well as the generation of use cases, have been the focal points. The proposed curation tasks are user-centric and formally evaluated by biocurators. In BioCreative V IAT, seven TM systems and 43 biocurators participated. Two levels of user participation were offered to broaden curator involvement and obtain more feedback on usability aspects. The full level participation involved training on the system, curation of a set of documents with and without TM assistance, tracking of time-on-task, and completion of a user survey. The partial level participation was designed to focus on usability aspects of the interface and not the performance per se In this case, biocurators navigated the system by performing pre-designed tasks and then were asked whether they were able to achieve the task and the level of difficulty in completing the task. In this manuscript, we describe the development of the interactive task, from planning to execution and discuss major findings for the systems tested.Database URL: http://www.biocreative.org.
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Registered trials
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 OpenQuestion graph.