ArticleFrontiers in neuroinformatics2015
Text mining for neuroanatomy using WhiteText with an updated corpus and a new web application.
Article in Frontiers in neuroinformatics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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.
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Who cites it
14 citing papers in PubMed, 22 citations in OpenAlex.
- A computational ontology framework for the synthesis of multi-level pathology reports from brain MRI scans.Journal of Alzheimer's disease : JAD · 2025Article
- Knowledge mining of brain connectivity in massive literature based on transfer learning.Bioinformatics (Oxford, England) · 2024Article
- Assisted neuroscience knowledge extraction via machine learning applied to neural reconstruction metadata on NeuroMorpho.Org.Brain informatics · 2022Article
- The brainstem connectome database.Scientific data · 2022Article
- Application of Supervised Machine Learning to Extract Brain Connectivity Information from Neuroscience Research Articles.Interdisciplinary sciences, computational life sciences · 2021Article
- History and Future Perspectives on the Discipline of Quantitative Systems Pharmacology Modeling and Its Applications.Frontiers in physiology · 2021Review
- Database of literature derived cellular measurements from the murine basal ganglia.Scientific data · 2020Article
- DES-ROD: Exploring Literature to Develop New Links between RNA Oxidation and Human Diseases.Oxidative medicine and cellular longevity · 2020Article
- Automated Metadata Suggestion During Repository Submission.Neuroinformatics · 2019Article
- Literature-Based Enrichment Insights into Redox Control of Vascular Biology.Oxidative medicine and cellular longevity · 2019Review
- Towards Differential Connectomics with NeuroVIISAS.Neuroinformatics · 2019Article
- Adopting Text Mining on Rehabilitation Therapy Repositioning for Stroke.Frontiers in neuroinformatics · 2019Article
- A Framework for Collaborative Curation of Neuroscientific Literature.Frontiers in neuroinformatics · 2017Article
- Automated Neuroanatomical Relation Extraction: A Linguistically Motivated Approach with a PVT Connectivity Graph Case Study.Frontiers in neuroinformatics · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
We describe the WhiteText project, and its progress towards automatically extracting statements of neuroanatomical connectivity from text. We review progress to date on the three main steps of the project: recognition of brain region mentions, standardization of brain region mentions to neuroanatomical nomenclature, and connectivity statement extraction. We further describe a new version of our manually curated corpus that adds 2,111 connectivity statements from 1,828 additional abstracts. Cross-validation classification within the new corpus replicates results on our original corpus, recalling 67% of connectivity statements at 51% precision. The resulting merged corpus provides 5,208 connectivity statements that can be used to seed species-specific connectivity matrices and to better train automated techniques. Finally, we present a new web application that allows fast interactive browsing of the over 70,000 sentences indexed by the system, as a tool for accessing the data and assisting in further curation. Software and data are freely available at http://www.chibi.ubc.ca/WhiteText/.
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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.