ERK regulates the latent process in a transcription-dependent manner, as indicated by the microarray assay (see Table S1), whereas ERK regulates the extension process in a transcription-independent manner (Figure 5A), indicating context-dependent, diverse functions of ERK for cell differentiation.
However, the reactivity of each rSEP with individual sera was quantitatively determined by the microarray assay.
For example, if a type of feature is predicted by ChromHMM to occur in the genome 100 times, and the Illumina 450 K microarray has one or more probes at 50 of these genomic locations, the feature would be said to be represented 50% of the time by the microarray assay.
Whether or not Erbb3 activation has the same consequences in both the luminal ER+ and luminal ER- cells remains to be determined and may depend on differential expression of dimerisation partners not detected by the microarray assays.
There were 12 additional ORFs that met the 3-fold cutoff for up-regulation by σ in the microarray assay, including genes for pilin biosynthesis (hofB), histidine ammonia lyase (hutH), bEBPs (ygaA, fhlA), propanediol utilization (pduG), siderophore production (iroD), and cell invasion (invG).
§0 = ct > 38; a: afterbirth; fs: foetal swab; *vaccinated flock; $ab: C. abortus; ps: C. psittaci; pc: C. pecorum; &pharyngeal swabs from premature born lambs; - : not determined; DNA obtained from seven vaginal swabs from ewes in flocks 1, 5, 11, 14, 23, 35 and 37, as well as three rectal swabs from ewes in flocks 1, 4, and 5, was additionally analysed by means of the microarray assay.
We first confirmed the expression pattern of DKK genes obtained with the microarray assay by conducting a Real-time RT-PCR analysis.
However, the relatively high proportion of globin messenger RNA present in total RNA extracted from whole blood can reduce the efficacy of the microarray assay by interfering with the detection of less abundant gene transcripts [ 1- 3].
Genes showing differential expression in the microarray assays were determined by setting the number of falsely called genes to less than one for the significant gene list output.
For more rigorous validation and testing they were tested again by the IP microarray assay in duplicate, providing 2 additional replicates of each.
The hDPI database has experimental protein-DNA interaction data for humans identified by the protein microarray assays [ 20].
