DAVID pipeline

DAVID specifications

Information


Unique identifier OMICS_02220
Name DAVID
Alternative name Database for Annotation, Visualization and Integrated Discovery
Interface Web user interface, Application programming interface
Restrictions to use None
Input data A list of gene identifiers.
Programming languages Java, MATLAB, Perl, Python
Computer skills Basic
Version 6.8
Stability Stable
Maintained Yes

Maintainers


  • person_outline Richard Lempicki <>
  • person_outline Xiaoli Jiao <>

Publications for Database for Annotation, Visualization and Integrated Discovery

DAVID IN pipelines

 (270)
2018
PMCID: 5807760
PMID: 29426343
DOI: 10.1186/s12989-018-0244-6

[…] of genes and genomes (kegg, http://www.genome.jp/kegg/) pathway analysis and gene functional classification analysis (for top 3000 genes if data set is > 3000 genes) [62–65]. the web-tool david 6.8 (updated in may 2016) was used in contrast to homo sapiens background [66, 67] at ease 0.1. when fdr corrected p value was smaller than 0.05, the go annotation or kegg pathway […]

2018
PMCID: 5815850
PMID: 29400650
DOI: 10.7554/eLife.31515.026

[…] of known cardiac marker genes. genes significantly upregulated in roi (log2 fold change >2; p-value<0.05) were retrieved from the dataset and used for go term enrichment analysis using the david functional annotation tool (huang et al., 2009b; huang et al., 2009a)., for in-situ hybridization (ish) tl wild-type embryos were fixed in 4% pfa-pbs overnight and dehydrated in methanol. ish […]

2018
PMCID: 5820273
PMID: 29463813
DOI: 10.1038/s41598-018-21478-8

[…] described previously53. deseq2 was used for differential gene expression analysis of rna-seq read counts54. significantly differentially expressed genes based on fdr < 0.05 were uploaded to the database for annotation, visualization and integrated discovery (david) for functional annotation55 and gene ontology consortium (http://www.geneontology.org/) for analysis of enriched biological […]

2018
PMCID: 5832105
PMID: 29666643
DOI: 10.1155/2018/2439527

[…] often used to extract biological meaning from such data. rna-seq specific analysis packages like goseq and seqgsea are available [29]. our use of the gene functional classification tool in the nih david package and our top 66 genes provided only one cluster of genes, and treating our paired samples as two independent groups further narrowed the gene list. as igsf9 is the only common gene […]

2018
PMCID: 5832109
PMID: 29636777
DOI: 10.1155/2018/4509892

[…] genes for functional assays [14]. after selection of homo sapiens as the organism, interesting genes from the screen were entered into the genemania search bar, and the output was downloaded., david, a powerful tool for network biology, comprises an integrated biological knowledge base and analytic tools aimed at systematically extracting biological meaning from large lists of genes […]

DAVID institution(s)
Laboratory of Immunopathogenesis and Bioinformatics, Frederick, MD, USA; Advanced Biomedical Computing Center, Frederick, MD, USA; Clinical Services Program, SAIC-Frederick, Inc., National Cancer Institute at Frederick, Frederick, MD, USA; Laboratory of Immuno-regulation, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
DAVID funding source(s)
Supported by the National Institute of Allergy and Infectious Diseases (NIAID), National institutes of Health (NIH), under Contract No. NOI-CO-56000.

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