yeastG1 {geeVerse}

A Subset of Yeast Cell Cycle Gene Expression Data (G1 Phase)

Description

The 'yeastG1' dataset contains gene expression data from the yeast cell cycle during the G1 phase. The original dataset (Spellman et al. 1998) includes expression levels for 6178 genes measured at 18 time points. And this is a subset of 283 cell-cycled-regularized genes observed over 4 time points at G1 stage and the standardized binding probabilities of a total of 96 TFs obtained from

Usage

yeastG1

Format

A data frame with 1132 rows and 99 columns.

The dataset contains gene expression levels for the following transcription factors: ABF1, ACE2, ADR1, ARG80, ARG81, ARO80, ASH1, BAS1, CAD1, CBF1, CIN5, CRZ1, CUP9, DAL81, DAL82, DIG1, DOT6, FHL1, FKH1, FKH2, FZF1, GAL4, GAT1, GAT3, GCN4, GCR1, GCR2, GLN3, GRF10.Pho2., GTS1, HAL9, HAP2, HAP3, HAP4, HAP5, HIR1, HIR2, HMS1, HSF1, IME4, INO2, INO4, IXR1, LEU3, MAC1, MAL13, MATa1, MBP1, MCM1, MET31, MET4, MIG1, MOT3, MSN1, MSN4, MSS11, MTH1, NDD1, NRG1, PDR1, PHD1, PHO4, PUT3, RAP1, RCS1, REB1, RFX1, RGM1, RLM1, RME1, ROX1, RPH1, RTG1, RTG3, SFP1, SIG1, SIP4, SKN7, SMP1, SOK2, SRD1, STB1, STE12, STP1, STP2, SUM1, SWI4, SWI5, SWI6, YAP1, YAP5, YAP6, YFL044C, YJL206C, ZAP1, ZMS1

Source

Spellman, P. T., Sherlock, G., Zhang, M. Q., Iyer, V. R., Anders, K., Eisen, M. B., ... & Futcher, B. (1998). Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Molecular biology of the cell, 9(12), 3273-3297.

Wang, L., Zhou, J., and Qu, A. (2012). Penalized generalized estimating equations for high-dimensional longitudinal data anaysis. Biometrics, 68, 353–360.

Examples

data(yeastG1)
head(yeastG1)