ArticleDatabase : the journal of biological databases and curation2012
Argo: an integrative, interactive, text mining-based workbench supporting curation.
Article in Database : the journal of biological databases and curation, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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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.
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Who cites it
32 citing papers in PubMed.
- MedTAG: a portable and customizable annotation tool for biomedical documents.BMC medical informatics and decision making · 2021Article
- An extensive review of tools for manual annotation of documents.Briefings in bioinformatics · 2021Review
- TeamTat: a collaborative text annotation tool.Nucleic acids research · 2020Article
- BENTO: A Visual Platform for Building Clinical NLP Pipelines Based on CodaLab.Proceedings of the conference. Association for Computational Linguistics. Meeting · 2020Article
- Health Professionals' Perception about Big Data Technology in Greece.Acta informatica medica : AIM : journal of the Society for Medical Informatics of Bosnia & Herzegovina : casopis Drustva za medicinsku informatiku BiH · 2020Article
- Constructing knowledge graphs and their biomedical applications.Computational and structural biotechnology journal · 2020Review
- Open Agile text mining for bioinformatics: the PubAnnotation ecosystem.Bioinformatics (Oxford, England) · 2019Article
- PubTator central: automated concept annotation for biomedical full text articles.Nucleic acids research · 2019Article
- A Text Mining Pipeline Using Active and Deep Learning Aimed at Curating Information in Computational Neuroscience.Neuroinformatics · 2019Article
- Annotating and detecting phenotypic information for chronic obstructive pulmonary disease.JAMIA open · 2019Article
- Thalia: semantic search engine for biomedical abstracts.Bioinformatics (Oxford, England) · 2019Article
- COPIOUS: A gold standard corpus of named entities towards extracting species occurrence from biodiversity literature.Biodiversity data journal · 2019Article
- Toward a service-based workflow for automated information extraction from herbarium specimens.Database : the journal of biological databases and curation · 2018Article
- A semantic-based workflow for biomedical literature annotation.Database : the journal of biological databases and curation · 2017Article
- The digital revolution in phenotyping.Briefings in bioinformatics · 2016Article
- Text mining resources for the life sciences.Database : the journal of biological databases and curation · 2016Review
- Argo: enabling the development of bespoke workflows and services for disease annotation.Database : the journal of biological databases and curation · 2016Article
- Mining clinical attributes of genomic variants through assisted literature curation in Egas.Database : the journal of biological databases and curation · 2016Article
- The importance of digitized biocollections as a source of trait data and a new VertNet resource.Database : the journal of biological databases and curation · 2016Article
- Supporting the annotation of chronic obstructive pulmonary disease (COPD) phenotypes with text mining workflows.Journal of biomedical semantics · 2015Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Curation of biomedical literature is often supported by the automatic analysis of textual content that generally involves a sequence of individual processing components. Text mining (TM) has been used to enhance the process of manual biocuration, but has been focused on specific databases and tasks rather than an environment integrating TM tools into the curation pipeline, catering for a variety of tasks, types of information and applications. Processing components usually come from different sources and often lack interoperability. The well established Unstructured Information Management Architecture is a framework that addresses interoperability by defining common data structures and interfaces. However, most of the efforts are targeted towards software developers and are not suitable for curators, or are otherwise inconvenient to use on a higher level of abstraction. To overcome these issues we introduce Argo, an interoperable, integrative, interactive and collaborative system for text analysis with a convenient graphic user interface to ease the development of processing workflows and boost productivity in labour-intensive manual curation. Robust, scalable text analytics follow a modular approach, adopting component modules for distinct levels of text analysis. The user interface is available entirely through a web browser that saves the user from going through often complicated and platform-dependent installation procedures. Argo comes with a predefined set of processing components commonly used in text analysis, while giving the users the ability to deposit their own components. The system accommodates various areas and levels of user expertise, from TM and computational linguistics to ontology-based curation. One of the key functionalities of Argo is its ability to seamlessly incorporate user-interactive components, such as manual annotation editors, into otherwise completely automatic pipelines. As a use case, we demonstrate the functionality of an in-built manual annotation editor that is well suited for in-text corpus annotation tasks. DATABASE URL: http://www.nactem.ac.uk/Argo.
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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.