ArticleJournal of biomedical discovery and collaboration2008
Anne O'Tate: A tool to support user-driven summarization, drill-down and browsing of PubMed search results.
Article in Journal of biomedical discovery and collaboration, 2008. 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.
- Development and validation of a geographic search filter for PubMed for retrieving studies about Nordic countries.Journal of the Medical Library Association : JMLA · 2026Article
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- Investigation of text-mining methodologies to aid the construction of search strategies in systematic reviews of diagnostic test accuracy-a case study.Research synthesis methods · 2023Article
- The Citation Cloud of a biomedical article: a free, public, web-based tool enabling citation analysis.Journal of the Medical Library Association : JMLA · 2022Article
- Text mining for identification of biological entities related to antibiotic resistant organisms.PeerJ · 2022Article
- The Role of Electronic Medical Records in Reducing Unwarranted Clinical Variation in Acute Health Care: Systematic Review.JMIR medical informatics · 2021Review
- Article
- PubTerm: a web tool for organizing, annotating and curating genes, diseases, molecules and other concepts from PubMed records.Database : the journal of biological databases and curation · 2019Article
- Gaps within the Biomedical Literature: Initial Characterization and Assessment of Strategies for Discovery.Frontiers in research metrics and analytics · 2017Article
- MeSH Now: automatic MeSH indexing at PubMed scale via learning to rank.Journal of biomedical semantics · 2017Article
- Mining biomedical images towards valuable information retrieval in biomedical and life sciences.Database : the journal of biological databases and curation · 2016Review
- Nuggets: findings shared in multiple clinical case reports.Journal of the Medical Library Association : JMLA · 2015Article
- MSL: Facilitating automatic and physical analysis of published scientific literature in PDF format.F1000Research · 2015Article
- Accessing biomedical literature in the current information landscape.Methods in molecular biology (Clifton, N.J.) · 2014Review
- PubMedMiner: Mining and Visualizing MeSH-based Associations in PubMed.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2014Article
- A practical application of text mining to literature on cognitive rehabilitation and enhancement through neurostimulation.Frontiers in systems neuroscience · 2014Review
- SEACOIN--an investigative tool for biomedical informatics researchers.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2011Article
- PubMed and beyond: a survey of web tools for searching biomedical literature.Database : the journal of biological databases and curation · 2011Review
- eGIFT: mining gene information from the literature.BMC bioinformatics · 2010Article
- MLTrends: Graphing MEDLINE term usage over time.Journal of biomedical discovery and collaboration · 2010Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
backgroundPubMed is designed to provide rapid, comprehensive retrieval of papers that discuss a given topic. However, because PubMed does not organize the search output further, it is difficult for users to grasp an overview of the retrieved literature according to non-topical dimensions, to drill-down to find individual articles relevant to a particular individual's need, or to browse the collection.
resultsIn this paper, we present Anne O'Tate, a web-based tool that processes articles retrieved from PubMed and displays multiple aspects of the articles to the user, according to pre-defined categories such as the "most important" words found in titles or abstracts; topics; journals; authors; publication years; and affiliations. Clicking on a given item opens a new window that displays all papers that contain that item. One can navigate by drilling down through the categories progressively, e.g., one can first restrict the articles according to author name and then restrict that subset by affiliation. Alternatively, one can expand small sets of articles to display the most closely related articles. We also implemented a novel cluster-by-topic method that generates a concise set of topics covering most of the retrieved articles.
conclusionAnne O'Tate is an integrated, generic tool for summarization, drill-down and browsing of PubMed search results that accommodates a wide range of biomedical users and needs. It can be accessed at 4. Peer review and editorial matters for this article were handled by Aaron Cohen.
Identifiers
What OpenQuestion holds
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.