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ZebrafishMine specifications


Unique identifier OMICS_03815
Name ZebrafishMine
Restrictions to use None
Maintained Yes


  • Vertebrates
    • Danio rerio


  • person_outline Westerfield Monte

Publication for ZebrafishMine

ZebrafishMine citations


Zebrafish Models of Human Disease: Gaining Insight into Human Disease at ZFIN

PMCID: 5886338
PMID: 28838067
DOI: 10.1093/ilar/ilw040

[…] loaded from the ZFIN downloads files (https://zfin.org/downloads/fish_model_disease.txt). Zebrafish information related to disease and disease models is also available in ZFIN’s data mining resource, ZebrafishMine (http://www.zebrafishmine.org/begin.do). ZebrafishMine is based on the InterMine data warehousing system and offers options for customizable searches and downloads (; ). Within the Zebra […]


DANIO CODE: Toward an Encyclopedia of DNA Elements in Zebrafish

PMCID: 4742988
PMID: 26671609
DOI: 10.1089/zeb.2015.1179

[…] nce 1994. Containing about 75,000 gene expression patterns, 82,000 phenotypes, and 7,000 registered researchers, ZFIN links to major genome annotation databases and also features the data mining tool ZebrafishMine, similar to the modMINE resource of the modENCODE initiative. Monte Westerfield (University of Oregon, USA) gave an update on ZFIN's resources and how they can integrate into the DANIO-C […]


Transcriptomes of post mitotic neurons identify the usage of alternative pathways during adult and embryonic neuronal differentiation

BMC Genomics
PMCID: 4690400
PMID: 26699284
DOI: 10.1186/s12864-015-2215-8

[…] umber of genes for the purified samples between adults and embryos. Genes enriched in embryos (vs adults) were then filtered for neuronal expression, using nervous system-specific genes obtained from ZebrafishMine (http://www.zebrafishmine.org/begin.do) and Panther Classification system [] (see Additional file ). This analysis resulted in 3111 genes enriched and 559 decreased in adult versus embry […]


A GFP Tagged Gross Deletion on Chromosome 1 Causes Malignant Peripheral Nerve Sheath Tumors and Carcinomas in Zebrafish

PLoS One
PMCID: 4687860
PMID: 26695815
DOI: 10.1371/journal.pone.0145178

[…] /danRer10. The list was submitted to the PANTHER classification system (http://www.pantherdb.org) for the ontology analysis. Human orthologues of zebrafish ia2 mutant deleted genes were obtained with ZebrafishMine (http://www.zebrafishmine.org/begin.do) and submitted to STRING database (http://string-db.org/) for the protein-protein interaction analysis, with a required confidence of 0.6. The same […]


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