ArticleDatabase : the journal of biological databases and curation2012
Opportunities for text mining in the FlyBase genetic literature curation workflow.
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 8 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
8 citing papers in PubMed.
- FlyBase: a guided tour of highlighted features.Genetics · 2022Article
- FlyBase: updates to the Drosophila melanogaster knowledge base.Nucleic acids research · 2021Article
- Textpresso Central: a customizable platform for searching, text mining, viewing, and curating biomedical literature.BMC bioinformatics · 2018Article
- FlyBase: establishing a Gene Group resource for Drosophila melanogaster.Nucleic acids research · 2016Article
- Biocuration with insufficient resources and fixed timelines.Database : the journal of biological databases and curation · 2015Article
- Review
- Preliminary evaluation of the CellFinder literature curation pipeline for gene expression in kidney cells and anatomical parts.Database : the journal of biological databases and curation · 2013Article
- Can inferred provenance and its visualisation be used to detect erroneous annotation? A case study using UniProtKB.PloS one · 2013Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
FlyBase is the model organism database for Drosophila genetic and genomic information. Over the last 20 years, FlyBase has had to adapt and change to keep abreast of advances in biology and database design. We are continually looking for ways to improve curation efficiency and efficacy. Genetic literature curation focuses on the extraction of genetic entities (e.g. genes, mutant alleles, transgenic constructs) and their associated phenotypes and Gene Ontology terms from the published literature. Over 2000 Drosophila research articles are now published every year. These articles are becoming ever more data-rich and there is a growing need for text mining to shoulder some of the burden of paper triage and data extraction. In this article, we describe our curation workflow, along with some of the problems and bottlenecks therein, and highlight the opportunities for text mining. We do so in the hope of encouraging the BioCreative community to help us to develop effective methods to mine this torrent of information. DATABASE URL: http://flybase.org
Indexed as
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.