ArticleBiomedical digital libraries2006
Conceptual biology, hypothesis discovery, and text mining: Swanson's legacy.
Article in Biomedical digital libraries, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers, 1 of them a synthesis that pooled it.
What it found
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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.
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
18 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Automated meta-analysis of the event-related potential (ERP) literature.Scientific reports · 2022Pooled it
- The speed of information propagation in the scientific network distorts biomedical research.PeerJ · 2022Article
- Recent advances in biomedical literature mining.Briefings in bioinformatics · 2021Review
- Using Literature Based Discovery to Gain Insights Into the Metabolomic Processes of Cardiac Arrest.Frontiers in research metrics and analytics · 2021Article
- Translational Biomedical Informatics and Pharmacometrics Approaches in the Drug Interactions Research.CPT: pharmacometrics & systems pharmacology · 2018Review
- β-Arrestin Based Receptor Signaling Paradigms: Potential Therapeutic Targets for Complex Age-Related Disorders.Frontiers in pharmacology · 2018Review
- Rediscovering Don Swanson: the Past, Present and Future of Literature-Based Discovery.Journal of data and information science (Warsaw, Poland) · 2017Article
- Gold-standard ontology-based anatomical annotation in the CRAFT Corpus.Database : the journal of biological databases and curation · 2017Article
- DESM: portal for microbial knowledge exploration systems.Nucleic acids research · 2016Article
- PolySearch2: a significantly improved text-mining system for discovering associations between human diseases, genes, drugs, metabolites, toxins and more.Nucleic acids research · 2015Article
- Entitymetrics: measuring the impact of entities.PloS one · 2013Article
- Discovering discovery patterns with Predication-based Semantic Indexing.Journal of biomedical informatics · 2012Article
- Mining the pharmacogenomics literature--a survey of the state of the art.Briefings in bioinformatics · 2012Article
- Hypotheses generation as supervised link discovery with automated class labeling on large-scale biomedical concept networks.BMC genomics · 2012Article
- Mining connections between chemicals, proteins, and diseases extracted from Medline annotations.Journal of biomedical informatics · 2010Article
- Knowledge structure of korean medical informatics: a social network analysis of articles in journal and proceedings.Healthcare informatics research · 2010Article
- Development of a Google-based search engine for data mining radiology reports.Journal of digital imaging · 2009Article
- Arrowsmith two-node search interface: a tutorial on finding meaningful links between two disparate sets of articles in MEDLINE.Computer methods and programs in biomedicine · 2009Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Innovative biomedical librarians and information specialists who want to expand their roles as expert searchers need to know about profound changes in biology and parallel trends in text mining. In recent years, conceptual biology has emerged as a complement to empirical biology. This is partly in response to the availability of massive digital resources such as the network of databases for molecular biologists at the National Center for Biotechnology Information. Developments in text mining and hypothesis discovery systems based on the early work of Swanson, a mathematician and information scientist, are coincident with the emergence of conceptual biology. Very little has been written to introduce biomedical digital librarians to these new trends. In this paper, background for data and text mining, as well as for knowledge discovery in databases (KDD) and in text (KDT) is presented, then a brief review of Swanson's ideas, followed by a discussion of recent approaches to hypothesis discovery and testing. 'Testing' in the context of text mining involves partially automated methods for finding evidence in the literature to support hypothetical relationships. Concluding remarks follow regarding (a) the limits of current strategies for evaluation of hypothesis discovery systems and (b) the role of literature-based discovery in concert with empirical research. Report of an informatics-driven literature review for biomarkers of systemic lupus erythematosus is mentioned. Swanson's vision of the hidden value in the literature of science and, by extension, in biomedical digital databases, is still remarkably generative for information scientists, biologists, and physicians.
Identifiers
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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.