B1: Benchmark set B1

In ptest: Periodicity Tests in Short Time Series

Description

List for yeast genes which are most likely to be periodic (the benchmark set 1 in de Lichtenberg et al. (2005)).

Usage

data(B1)

Format

A vector containg 113 genes' names.

Details

A total of 113 genes previously identified as periodically expressed in small-scale experiments. The set encompasses the 104 genes used by Spellman et al. (1998) and nine genes added by Johansson et al. (2003).

Source

The raw data can be downloaded from http://www.cbs.dtu.dk/cellcycle/yeast_benchmark/benchmark.php.

References

De Lichtenberg, U., Jensen, L. J., Fausboll, A., Jensen, T. S., Bork, P.,& Brunak, S. (2005). Comparison of computational methods for the identification of cell cycle-regulated genes. Bioinformatics, 21(7), 1164-1171.

Examples

data(alpha)
data(B1)
alphaB1 <- alpha[rownames(alpha) \%in\% B1, ]

ptest documentation built on May 2, 2019, 5:58 a.m.