DAVID protocols

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chevron_left Gene set enrichment analysis Gene Ontology annotation Functional annotation Microarray interconversion Over-representation analysis Topology enrichment analysis chevron_right
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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

 (954)
2018
PMCID: 5758812
PMID: 29311649
DOI: 10.1038/s41598-017-17878-x

[…] null hypothesis was rejected at the 0.05 level (*), 0.01 (**) or 0.001 (***). non-significant values on statistical test are not mentioned in the figures. gene ontology analysis was performed using david., , tal yardeni and raquel fine contributed equally to this work., electronic supplementary material , supplementary information accompanies this paper at 10.1038/s41598-017-17878-x., […]

2018
PMCID: 5771341
PMID: 29344280
DOI: 10.7150/jca.18188

[…] and targetscan v7.1 (http://www.targetscan.org/vert_71/) . hypothetical mirna targets were subjected to gene-annotation enrichment analysis using database for annotation, visualization and integrated discovery (david) v6.8 (https://david-d.ncifcrf.gov/) . we summarized the results from these programs as candidate targets of hsa-mir-378 […]

2018
PMCID: 5780461
PMID: 29362391
DOI: 10.1038/s41598-018-19782-4

[…] fisher’s exact test was applied to assess statistical significance of the observed number of genes predicted to be bound by a specific tf. go-bp enrichment of cnv-associated genes was tested using david. multiple testing correction for the enrichment analysis of chip-seq tfbss, candidate tfbss, and go-bp terms was carried out using the method of benjamini and hochberg with an fdr cutoff […]

2018
PMCID: 5780853
PMID: 29363420
DOI: 10.1186/s12864-017-4335-9

[…] algorithm []. a network analysis was conducted on the grouped junctions, and the network was illustrated through cytoscape []. gene sets enrichment of the circrna host genes was conducted through david []. back spliced junction sites clustered into models containing only one types of tissue were considered as tissue-specific circrnas originated., additional file 1: additional file 2: […]

2018
PMCID: 5786109
PMID: 29374279
DOI: 10.1038/s41598-018-20057-1

[…] 0.7.2. differentially expressed genes between days 0 and 14 (false-discovery rate < 0.05) were detected using edger package version 3.16.5, and go enrichment analysis was performed using the david web server version 6.8. for principal component analysis, read counts were transformed into counts per million and then log2-transformed. to compare our ric data and the escs/ipscs data from ma […]


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DAVID in publications

 (5643)
PMCID: 5959879
PMID: 29777108
DOI: 10.1038/s41467-018-04355-w

[…] subtype. the go analysis that was selected relies on the expression analysis systematic explorer (ease) score (a p-value obtained through an adjusted fisher’s exact test) and was performed using david bioinformatics resources; the selected background was “homo sapiens”. each go category was considered for further analyses only when fulfilled these three criteria: (1) is referred to go […]

PMCID: 5955976
PMID: 29769534
DOI: 10.1038/s41598-018-22493-5

[…] the 219 potential targets described above through go annotation and kegg signaling pathway analysis. the go annotation and kegg signaling pathway were analyzed by two bioinformatics tools. the database for annotation, visualization and integrated discovery (david) and kobas, respectively. the results of go annotation and kegg pathway analysis are listed in supplemental tables  and 2, […]

PMCID: 5953404
PMID: 29764444
DOI: 10.1186/s12974-018-1187-4

[…] significantly related genes with ptpn2 expression were retrieved by using the pearson correlation analysis. gene ontology (go) analyzed related gene sets and relevant biological functions on the david website (http://david.ncifcrf.gov/) []. cluster 3.0 (human genome center, institute of medical science, university of tokyo, japan) was used to plot heat maps of ptpn2 expression and correlated […]

PMCID: 5952699
PMID: 29764446
DOI: 10.1186/s12967-018-1510-y

[…] databases in the field of microrna-target prediction research. we conducted go and kegg pathway enrichment analysis by separately mapping the target mrnas of mir-106a and mir-106b to the online tool david (database for annotation, visualization, and integrated discovery) [–]. p-value < 0.05 and count ≥ 2 were considered as the cut-off criteria., the target mrnas regulated by mir-106a […]

PMCID: 5951945
PMID: 29760376
DOI: 10.1038/s41419-018-0604-z

[…] software to map the peaks,., the function enrichments of differentially expressed genes were analysed with go classification and kyoto encyclopedia of genes and genomes (kegg) pathways from the database for annotation, visualization and integrated discovery (david, http://david.abcc.ncifcrf.gov/). the level of significance was p< 0.05., the ppi analysis of target genes was based […]


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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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