Eight protein spots showing significant differences and 19 spots that were showing –differential expression trend were excised from preparative SYPRO Ruby stained gels loaded with 500 μg protein.
Other important proteins that exhibited a differential expression trend in this study, including profilin-2, flotilin-1, peroxiredoxin-6, apolipoprotein AI are also important from an immune perspective.
Between the abortion strains IA3902 and IA5908, there were only six protein spots that showed an opposite differential expression trend (up or down) when compared with those of NCTC11168.
Second a maximum-scoring subnetwork is calculated from the previously enriched subnetwork using scores for differential expression and trends in metabolic profiles.
Although no further adaptin components exhibit highly significant differential expression, a general trend of upregulation of AP1 component in BSFs and downregulation of AP3 and AP4 was evident on the microarray [see Additional file 3] which suggests developmental regulation.
Microarray data from earlier passages of the same xenograft models [ 29] showed similar trends of differential expression (data not shown).
Several of these molecules exhibited trends toward differential expression which could be investigated by more sensitive methodologies such as qRT-PCR in future studies.
Below, we present and discuss the BPNs computed to summarize the major trends of differential expression of each of these three data sets.
Despite consistent trends of differential expression, the qPCR results did not agree with the microarray data with respect to the range in fold-change (FC) range (Table 1).
Among the BURP genes, RNA-Seq data has enabled nearly the same trend of differential expression and has confirmed that Glyma04g35130 BURP gene is over expressed in CS compared to CG.
