ExpressionSet object containing RNA-seq count data from lymphoblastoid cell lines from 41 unrelated Caucasian individuals of European descent. These count data are employed in the vignette of the package tweeDEseq Esnaola et al. (submitted). The original experimental data was published by Cheung et al. (2010) and the table of counts in this ExpressionSet object corresponds to the one in the ReCount repository available at http://bowtie-bio.sourceforge.net/recount. Details on the pre-processing steps to obtain this table of counts from the raw reads of Cheung et al. (2010) are provided on that website and in the publication by Frazee et al. (2011).
ExpressionSet objects containing microarray and RNA-seq count data for 36 matching samples of lymphoblastoid cell lines derived from unrelated Nigerian HapMap individuals. These microarray and count data are employed in the vignette of the package tweeDEseq and supporting analysis scripts of the article by Esnaola et al. (submitted). The original experimental data was published by Huang et al. (2007) and Pickrell et al. (2010).
Genes with documented sex-specific expression and occurring within the set of genes that form the tables of counts in pickrell.eset, montgomery.eset and cheung.eset.
Housekeeping genes reported by Eisenberg and Levanon (2003) and occurring within the set of genes that form the tables of counts in pickrell.eset, montgomery.eset and cheung.eset in this experimental data package.
ExpressionSet object containing RNA-seq count data from lymphoblastoid cell lines from 60 unrelated Caucasian individuals of European descent. These count data are employed in the vignette of the package tweeDEseq Esnaola et al. (submitted). The original experimental data was published by Montgomery et al. (2010) and the table of counts in this ExpressionSet object corresponds to the one in the ReCount repository available at http://bowtie-bio.sourceforge.net/recount. Details on the pre-processing steps to obtain this table of counts from the raw reads of Montgomery et al. (2010) are provided on that website and in the publication by Frazee et al. (2011).
ExpressionSet objects containing RNA-seq count data from lymphoblastoid cell lines from 69 unrelated Nigerian individuals. These count data are employed in the vignette of the package tweeDEseq Esnaola et al. (submitted). The original experimental data was published by Pickrell et al. (2010). The table of counts in pickrell.eset corresponds to the one in the ReCount repository available at http://bowtie-bio.sourceforge.net/recount. Details on the pre-processing steps to obtain this table of counts from the raw reads of Pickrell et al. (2010) are provided on that website and in the publication by Frazee et al. (2011). The other object pickrellNorm.eset contains the corresponding filtered and normalized table of counts.
RNA-seq tables of counts employed in the vignette of the tweeDEseq package (Esnaola et al., submitted). These three data sets were downloaded from the ReCount repository at http://bowtie-bio.sourceforge.net/recount and contain tables of counts from RNA-seq experiments by Cheung et al. (2010), Montgomery et al. (2010) and Pickrell et al. (2010). The raw RNA-seq data was pre-processed according to the procedures described by Frazee et al. (2011). Please check the individual help pages of each data set for further details.
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