No FABP5-specific probe on the Affymetrix Canine Genome 2.0 array: data and code

Data and code underlying the article "No FABP5-specific probe on the Affymetrix CanineGenome 2.0 array: probe-level measurability of lipid and barrier genes in canine skintranscriptomes". The archive contains the a priori analysis plan with its four dated amendments, aprobe-level measurability audit of a 35-gene lipid and barrier module on two caninemicroarray platforms (GPL3738, GPL18789), a dependency-free implementation of RMA with itsvalidation against published values, sample annotation for all four datasets analysed, andevery per-gene and per-block result table and figure. The central result of the audit is that the Affymetrix Canine Genome 2.0 array carries noFABP5-specific probe: the single probeset mapping to the canine FABP5 locus is annotatedFABP5L2 by the manufacturer, and all eleven of its probes match the closest within-speciesparalogue, ten of them also matching FABP5. No module probeset shares sequence with anyother probeset on the array, so array-internal quality control cannot detect this failure. No new primary data were generated. The four datasets reanalysed are publicly availablefrom the NCBI Gene Expression Omnibus under accessions GSE39278, GSE74136, GSE58442(canine) and GSE121212 (human). Contents: 54 files in eight folders, with a file-level manifest (MANIFEST.csv) givingSHA-256 checksums. Reproduction instructions, including a built-in self-check for thenormalisation, are in README.md. Column names in the deposited tables are in Hungarian andare glossed in 07_figures/FIGURE_SOURCES.md. Licensing: all data, tables, figures and documents are released under CC BY 4.0; the codein 08_code/ is released under the MIT licence. The probe-to-probeset mapping in03_normalisation/ is derived from the Bioconductor package canine2cdf (LGPL), which shouldbe attributed when the mapping is reused.