Development and evaluation of a milk protein transcript depletion method for differential transcriptome analysis in mammary gland tissue

Table 3 Number of expressed genes with FPKM > 1 and of genes with changed FPKM values after selective RNA depletion for all groups based on the Ensembl 87 reference annotation

Groups^a	All genes with FPKM > 1	Genes with FPKM > 1 only after RNA depletion	Genes with FPKM > 1 before and FPKM < 1 after RNA depletion
0	12,546	/	/
A	12,773	554	315
B	12,817	582	304

^aSamples without RNA depletion (0) and with RNA depletion according to variants A (A) and B (B). Variants A and B differ in antisense oligonucleotide input for RNA depletion (see Materials and Methods)

ISSN: 1471-2164