annotationSummary1: DAVID's website annotation summary example files
Description
These datasets correspond to the unfolded main summary
categories data obtained in the Annotation Summary
Results page in the Database for Annotation,
Visualization and Integrated Discovery (DAVID) website,
using as input file, the ones provided for demo purposes
(demoList1 or demoList2) with default options. No
statistical analysis is performed on these results.
Usage
data(annotationSummary1)
data(annotationSummary2)
Format
annotationSummary1/2 are data.frame for demoList1/2 input ids,
respectively, with the following columns.
- Main.Category
- factor with the main categories used in the
present analysis.
- ID
- integer to identify the annotation category.
- Name
- character with the name of category (the ones available in
getAllAnnotationCategoryNames function).
- X.
- numeric with the percentage of the gene list ids present in the
term.
- Count
- integer with the number of ids of the gene list that belong to
this term.
References
- The Database for Annotation,
Visualization and Integrated Discovery
(davidgeneList.abcc.ncifcrf.gov)
- Huang, D.
W.; Sherman, B. T.; Tan, Q.; Kir, J.; Liu, D.; Bryant,
D.; Guo, Y.; Stephens, R.; Baseler, M. W.; Lane, H. C.;
Lempicki, R. A. DAVID Bioinformatics Resources: expanded
annotation database and novel algorithms to better
extract biology from large gene lists. Nucleic Acids Res,
Laboratory of Immunopathogenesis and Bioinformatics,
SAIC-Frederick, Inc., National Cancer Institute at
Frederick, MD 21702, USA., 2007, 35, W169-W175
-
DAVID Help page
http://david.abcc.ncifcrf.gov/helps/functional_annotation.html#summary