dbOrtho specifications

Information


Unique identifier OMICS_31299
Name dbOrtho
Interface Web user interface
Restrictions to use None
Input data An ID list and a organism of interest.
Output data A two-columns table including the inputs and the wanted ID and organisms.
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Invertebrates
    • Drosophila melanogaster
    • Plasmodium falciparum
  • Mammals
    • Bos taurus
  • Plants and Fungi
    • Arabidopsis thaliana
    • Oryza sativa
    • Saccharomyces cerevisiae
    • Schizosaccharomyces pombe
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus
  • Vertebrates
    • Danio rerio
    • Gallus gallus
    • Xenopus tropicalis

Maintainer


  • person_outline Robert Stephens <>

Additional information


https://biodbnet-abcc.ncifcrf.gov/dbInfo/faq.php

Publication for dbOrtho

dbOrtho in publications

 (4)
PMCID: 5658386
PMID: 29075020
DOI: 10.1038/s41598-017-14570-y

[…] dataset gse21069 . human wat rnas were analysed as described., human gene symbols were attributed to each murine gene using the orthologue conversion software (https://biodbnet-abcc.ncifcrf.gov/db/dbortho.php) and resulting files were analysed with the gsea software [broad institute, v2.2.2]. pathway-enrichment scores were calculated with the gsea pre-ranking tool and the kegg pathway gene […]

PMCID: 4914272
PMID: 26933814
DOI: 10.18632/oncotarget.7728

[…] 7704 genes were identified as hif binding targets [, ]. after conversion of zebrafish genes to their corresponding human orthologs using the conversion tools (http://biodbnet.abcc.ncifcrf.gov/db/dbortho.php, http://david.abcc.ncifcrf.gov) we identified a total of 76 genes induced during regeneration that were previously reported to be hif-associated gene targets in human cells, suggesting […]

PMCID: 4725869
PMID: 26766026
DOI: 10.1038/srep19421

[…] motifs for simplicity. we examined the frequencies of str motifs to determine whether there was any statistical difference in their distributions between avian species., the gene id converter (dbortho) implemented in the biological database network or biodbnet was used to search for orthologous genes between chicken and other birds. next, we investigated the ratio of str motifs identified […]

PMCID: 4288238
PMID: 25620908
DOI: 10.3389/fnins.2014.00441

[…] 2.0 microarray platform. to compare our psea-based expression predictions from human tissues to the mouse data, murine probesets were annotated with current corresponding hgnc gene assignments using dbortho tool in biodbnet (mudunuri et al., ) and the list of probesets for which psea achieved suitable expression models (tables , ) were reduced to unique hgnc ids. then for each assignment […]


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dbOrtho institution(s)
Advanced Biomedical Computing Center, Advanced Technology Program, SAIC-Frederick Inc., NCI-Frederick, Frederick, MD, USA
dbOrtho funding source(s)
Supported by National Cancer Institute; National Institutes of Health (contract N01-CO-12400).

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