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Annotations for the Gencode v.15 [ 38] microarray features for lncRNAs are summarized in Figure 2A.
The present study introduced a new set of influential microarray features for predicting bladder cancer survival.
An R-package to match array comparative genomic hybridization (CGH) and gene expression microarray features for integrative analysis purposes was provided by van Wieringen et al. (2012).
Overall, from this work it emerged that after 4 days of exposure to 0.01 μg/L BPA, approximately 4% and 2% of microarray features for fathead minnow and zebrafish females, respectively, had expression levels significantly different from controls.
Variation within microarrays between the two replicate features was estimated for each oligonucleotide probe, as a consequence of including two microarray features for each oligonucleotide probe in two separate sections of the microarray.
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Microarray features were included for further studies if at least two out of three technical replicates per platform agreed in their present calls, while MPSS tags were kept when their tag count was at least 3 tags per million.
One of these, IPP, represented by two microarray features, was selected for QPCR, another 7-dehydrocholesterol reductase was also on the array but was not significantly changed (p = 0.07).
In this study, we used our own resource CleanEx [29] for mapping microarray features to gene names, a database specifically developed for this purpose.
In some instances it is possible that microarray features differed in their specificities for duplicate gene transcripts.
Intensity data and Cy5/Cy3 ratio (raw) data were obtained for individual microarray features at each scan time using the Axon GenePix Pro software.
ESTs for all upregulated microarray features were anchored to the map-based sequence of japonica rice using the TIGR rice genome browser.
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