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The arrays used in this study assay a heterogeneous selection of tissues and biological states.
To complement this approach we included a selection of tissues from shoot and root in order to evaluate Rhizobium-legume interactions and shoot-root communication, which is known to be essential for controlling nodule number [33].
In a selection of tissues, macrophage identity was confirmed by double staining for PLXND1 and CD68.
Nevertheless, a broad selection of tissues allows for scoring of complex phenotypes affecting any combination of tissues.
To this end, the reference transcriptome included source RNA from a broad selection of tissues and temperature conditions (Table 1).
Obtaining a pool of RNA from this wide selection of tissues was aimed at providing a comprehensive collection of the expressed genes across these conditions.
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The implication is that screening of differentially expressed genes can greatly be enhanced by genetic variability and selection of tissue.
Before processing for electron microscopical analysis, MLN sections from control and terminally-scrapie-affected mice were first prepared from a selection of tissue blocks for light microscopy and immunolabelled to detect PrPd, IgG, IgM and ubiquitin.
The criteria for the selection of tissue is described in the supplementary methods.
Thus, experimental validation using strand-specific PCR supports the validity of our empirical criteria for the selection of tissue-specific antisense expression.
The selection of tissue blocks taken for microarray and neuropathological analysis depended on the clinical diagnosis of each patient (Table 1).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com