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Ten micrograms of total RNA from each sample was processed using the Affymetrix GeneChip one-cycle target labeling kit (Affymetrix, Santa Clara, CA).
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RNA samples were processed using TruSeq mRNA-seq sample prep kit from Illumina (Illumina, Inc., CA, USA).
All the samples were processed using the same protocol.
Blood samples were processed using standard protocols.
All samples were processed using silanized glassware.
All other samples were processed using single-end sequencing.
Formalin-fixed samples were processed using the conventional method.
Blood samples were processed using standard operating procedure OXIM.SOP06-001.
The target cDNA generated from each sample was processed as per manufacturer's recommendation using an Affymetrix GeneChip Instrument System.
Data from these recordings was processed using MatLab® spectrogram function with a 1024 samples window and no overlap.
Similar samples obtained from the NM calves were processed using standardized procedures at WADDL (Pullman, WA).
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