ReviewDatabase : the journal of biological databases and curation2016
Can we replace curation with information extraction software?
Review 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 14 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
14 citing papers in PubMed.
- An improved dataset of force fields, electronic and physicochemical descriptors of metabolic substrates.Scientific data · 2024Article
- MetaSpot: A General Approach for Recognizing the Reactive Atoms Undergoing Metabolic Reactions Based on the MetaQSAR Database.International journal of molecular sciences · 2023Article
- BLAB2CancerKD: a knowledge graph database focusing on the association between lactic acid bacteria and cancer, but beyond.Database : the journal of biological databases and curation · 2023Article
- New reasons for biologists to write with a formal language.Database : the journal of biological databases and curation · 2022Article
- MetaClass, a Comprehensive Classification System for Predicting the Occurrence of Metabolic Reactions Based on the MetaQSAR Database.Molecules (Basel, Switzerland) · 2021Article
- Metabolic networks of the Nicotiana genus in the spotlight: content, progress and outlook.Briefings in bioinformatics · 2021Article
- MetaTREE, a Novel Database Focused on Metabolic Trees, Predicts an Important Detoxification Mechanism: The Glutathione Conjugation.Molecules (Basel, Switzerland) · 2021Article
- Leveraging Curation AmongFrontiers in microbiology · 2021Article
- Data Management and Modeling in Plant Biology.Frontiers in plant science · 2021Review
- ThermoScan: Semi-automatic Identification of Protein Stability Data From PubMed.Frontiers in molecular biosciences · 2021Review
- 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
- 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
- Funding knowledgebases: Towards a sustainable funding model for the UniProt use case.F1000Research · 2017Article
- Crowd-sourcing and author submission as alternatives to professional curation.Database : the journal of biological databases and curation · 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
1 author.
Funding
Abstract
Can we use programs for automated or semi-automated information extraction from scientific texts as practical alternatives to professional curation? I show that error rates of current information extraction programs are too high to replace professional curation today. Furthermore, current IEP programs extract single narrow slivers of information, such as individual protein interactions; they cannot extract the large breadth of information extracted by professional curators for databases such as EcoCyc. They also cannot arbitrate among conflicting statements in the literature as curators can. Therefore, funding agencies should not hobble the curation efforts of existing databases on the assumption that a problem that has stymied Artificial Intelligence researchers for more than 60 years will be solved tomorrow. Semi-automated extraction techniques appear to have significantly more potential based on a review of recent tools that enhance curator productivity. But a full cost-benefit analysis for these tools is lacking. Without such analysis it is possible to expend significant effort developing information-extraction tools that automate small parts of the overall curation workflow without achieving a significant decrease in curation costs.Database URL.
Indexed as
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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.