KastenmayerRaw: Data from Kastenmayer et al. 2006

Description

Kastenmayer et al. (2006) undertook the first functional studies of small open reading frames (sORFs) in any system, using the model eukaryote Saccharomyces cerevisiae. Phenotypic analyses of the new gene-deletion strains identified 22 sORFs required for haploid growth, growth at high temperature, growth in the presence of a non-fermentable carbon source, or growth in the presence of DNA damage and replication-arrest agents.

Usage

data(KastenmayerRaw)

Arguments

Format

Kastenmayer is a 5 columns dataframe.

SYSTEMATIC: Systematic name of the sORF.
COMMUN: Commun name of the sORF.
Length: Length of the small ORF sequence in number of amino acids.
Evidence: Experimental source of the data
refHomology: Bibliographical evidence of reported homology.
Kocollection: Bibliographical evidence of reported homology.
ESSENTIAL: Indicates if the sORF knockout is essential. A blank in this column indicates that the knockout is not-essential, if available.
GFPTAP: "GFP" or "TAP" signifies that sORF was detected by the indicated technique. "both" indicates that sORF was detected both as a TAP-tagged and GFP-tagged protein. "None" indicates that sORF was not detected by either method. Empty field indicates that sORF was not tested
UPTAG: Sequence of the upstream primer.
DOWNTAG: Sequence of the downstream primer.

Source

Kastenmayer et al. (2006), supplementary information: http://www.genomeresearch.org or ftp://genome-ftp.stanford.edu/pub/yeast/systematic_results/phenotypes

References

Kastenmayer JP, Ni L, Chu A, Kitchen LE, Au WC, Yang H, Carter CD, Wheeler D, Davis RW, Boeke JD, Snyder MA, Basrai MA. (2006) Functional genomics of genes with small open reading frames (sORFs) in S. cerevisiae. Genome Res. 16(3):365-73. PMID: 16510898

Examples

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data(KastenmayerRaw)
str(KastenmayerRaw)

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