Evidence map›Paper›PMID 27899582›Full record

ArticleNucleic acids research2017

The Zebrafish Model Organism Database: new support for human disease models, mutation details, gene expression phenotypes and searching.

Douglas G Howe, Yvonne M Bradford, Anne Eagle, David Fashena, Ken Frazer, Patrick Kalita, Prita Mani, Ryan Martin, Sierra Taylor Moxon, Holly Paddock and 9 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
52citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

52 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Review
  3. Article
  4. Dietary Spirulina (Animals : an open access journal from MDPI · 2025
    Article
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

19 authors.

Douglas G HoweThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA dhowe@zfin.org.
Yvonne M BradfordThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Anne EagleThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
David FashenaThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Ken FrazerThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Patrick KalitaThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Prita ManiThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Ryan MartinThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Sierra Taylor MoxonThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Holly PaddockThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Christian PichThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Sridhar RamachandranThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Leyla RuzickaThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Kevin SchaperThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Xiang ShaoThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Amy SingerThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Sabrina ToroThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Ceri Van SlykeThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.
Monte WesterfieldThe Institute of Neuroscience, University of Oregon, Eugene, OR 97403-1254, USA.

Funding

ZFIN: The Zebrafish Model Organism DatabaseU41HG002659 · NHGRI · UNIVERSITY OF OREGON · PI WESTERFIELD, MONTE · 2011 to 2020
$30.7M
NHGRI NIH HHS U41 HG002659
6 · The paper itself

Abstract

The Zebrafish Model Organism Database (ZFIN; http://zfin.org) is the central resource for zebrafish (Danio rerio) genetic, genomic, phenotypic and developmental data. ZFIN curators provide expert manual curation and integration of comprehensive data involving zebrafish genes, mutants, transgenic constructs and lines, phenotypes, genotypes, gene expressions, morpholinos, TALENs, CRISPRs, antibodies, anatomical structures, models of human disease and publications. We integrate curated, directly submitted, and collaboratively generated data, making these available to zebrafish research community. Among the vertebrate model organisms, zebrafish are superbly suited for rapid generation of sequence-targeted mutant lines, characterization of phenotypes including gene expression patterns, and generation of human disease models. The recent rapid adoption of zebrafish as human disease models is making management of these data particularly important to both the research and clinical communities. Here, we describe recent enhancements to ZFIN including use of the zebrafish experimental conditions ontology, 'Fish' records in the ZFIN database, support for gene expression phenotypes, models of human disease, mutation details at the DNA, RNA and protein levels, and updates to the ZFIN single box search.

Indexed as

Databases, GeneticSearch EngineAnimalsComputational BiologyData CurationDisease Models, AnimalGene ExpressionGenetic Association StudiesGenetic Predisposition to DiseaseGenomicsGenotypeHumansMutationPhenotypeZebrafish

Identifiers

PMID27899582
PMCPMC5210580

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
Read underepoch 390

Registered trials

None linked

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.