In this package we offer the SOS data obtained from Uri Alon's lab (http://www.weizmann.ac.il/mcb/UriAlon/). SOS response is a general DNA repair system in bacteria which allows survival after DNA damage. This SOS dataset is taken from real experiment expression data in Escherichia coli. It contains 8 genes under Experiment 3 (UV light intensities, 4:20 Jm^(-2)).
sos.data is time series gene expression value data in ExpressionSet Class. assayData: Matrix with expression values of 8 genes in SOS pathway of Escherichia coli. These expression levels are observed at 50 time points. phenoData: Sample data.frame includes label "time", which represents the value of time points.
M. Ronen, R. Rosenberg, B. I. Shraiman, and U. Alon. Assigning numbers to the arrows: parameterizing a gene regulation network by using accurate expression kinetics. Proceedings of the National Academy of Sciences of the United States of America, Aug. 2002. PMID: 12145321.
Loading required package: Rsolnp Loading required package: Biobase Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, basename, cbind, colMeans, colSums, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which, which.max, which.min Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'.
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