Fig. 2

Reads and samples homogeneity, as well as the RPKM distribution for the group of RIP2 knockdown HD11 macrophages (shRIP2), wild type HD11 macrophages (WT), avian pathogenic E. coli infection HD11 cells (APEC), RIP2 knockdown combined with avian pathogenic E. coli infection HD11 cells (shRIP2 + APEC). A Comprehensive display of sequence coverage on the 5′ to 3′ region of all genes in the samples. B Multidimensional scaling plots for the normalized count data in mRNA samples collected from the group of shRIP2, WT, APEC, and shRIP2 + APEC. C Box plot of RPKM distribution with logarithmic values of RPKM on the vertical axis and different samples on the horizontal axis. A1, A2, and A3 indicate RIP2 knockdown HD11 macrophages (shRIP2). B1, B2, and B3 represent wild type HD11 macrophages (WT). C1, C2, and C3 mean avian pathogenic E. coli infection HD11 cells (APEC). D1, D2, and D3 indicate RIP2 knockdown combined with avian pathogenic E. coli infection HD11 cells (shRIP2 + APEC). D The heatmap of samples correlation. Abbreviations: WT, wild type HD11 cells; shRIP2, RIP2 knockdown HD11 cells; APEC, avian pathogenic E.coli challenge group. E Density plot of expression distribution with density values on the vertical axis and logarithmic values of RPKM on the horizontal axis. A1, A2, and A3 indicate RIP2 knockdown HD11 macrophages (shRIP2). B1, B2, and B3 represent wild type HD11 macrophages (WT). C1, C2, and C3 mean avian pathogenic E. coli infection HD11 cells (APEC). D1, D2, and D3 indicate RIP2 knockdown combined with avian pathogenic E. coli infection HD11 cells(shRIP2 + APEC)