Additional File 1:

The file contains additional materials and methods (biopsy procedure; RNA extraction, PCR, and primer design and evaluation; design and evaluation of primers; selection and evaluation of internal control genes; fatty acid analysis) accompanied by 6 tables which include performance of all steers fed in the study (Table S1), qPCR primer information (Table S2), validation (Table S3 and S4), qPCR performance (Table S5), and muscle fatty acid analysis (Table S6). The file also contains an additional 13 figures depicting cellular location and relationships among genes studied (Figure S1), relative mRNA abundance among genes (Figure S2), nutrient and energy intake of steers used for transcript profiling (Figure S3), blood concentrations of selected metabolites (Figure S4), diagram of approach used for selection of ICG (Figure S5), expression patterns of potential ICG (Figure S6), IPA interactions among selected ICG (Figure S7), longitudinal pattern of potential ICG in muscle (Figure S8), geNorm analysis of potential ICG (Figure S9), expression patterns of selected genes (Figure S10, S11), hierarchical clustering of gene expression patterns (Figure S12), and k-means clustering of gene expression patterns (Figure S13). For each figure a detailed legend is provided.

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Additional File 2:

The file contains Pearson correlations among all genes tested as well as blood metabolites (non-esterified fatty acids [NEFA], BUN, glucose, insulin) separated by steer type and diet combination (i.e., 4 separate sheets). Correlations were analyzed using PROC CORR of SAS (SAS Inst. Inc. Cary, NC, release 8.0).

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