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Therefore we examined the microarray data resulting from the Sakai strain, using genes within the K12 genome.
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Using a robust multi‐array analysis (RMA) algorithm (Irizarry et al, 2003), pre‐processing of microarray data resulted in single gene log2‐transformed values from 36,079 transcripts (22,014 Entrez RefSeq. genes).
Finally, gene expression data resulting from microarray hybridizations does not allow exploration of the potential role of protein modification in the structure of multi-subunit complexes.
The PPLR (probability of positive log-ratio) method uses information about probe level variability [ 12] Clearly there are many methods available for analyzing data resulting from microarray experiments.
Differential gene expression obtained from microarray analysis was compared with data resulting from clones Δ 7 and Δ#15 versus Co 5 and Co#11 or from clone Δ 7 versus Co#11.
Several data analysis algorithms exist for the analysis of gene expression data resulting from cDNA microarray experiments.
Detailed protocols and raw data resulting from the microarray experiments have been deposited in the ArrayExpress database with the accession number E-MEXP-1953 E-MEXP-1953 E-MEXP-1953
Our preliminary studies indicated that minimal contamination of exocrine cells in our islet preparations would significantly bias data resulting from the microarray hybridizations and therefore we assessed an additional quantitative method to control the purity of islets samples as previously described [ 35].
For matters of consistency with the microarray data, gene expression resulting from qRT-PCR analysis was also calculated as the log2-ratio of normalized gene quantity in elevated pCO2 treated animals to normalized gene quantity in control pCO2 animals.
A workflow which illustrates the sequence of selection procedures, starting from microarray data and resulting in network components, is displayed in Figure 1.
However, the relative quantification format makes a direct comparison of microarray data with results from other techniques difficult.
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