To verify the compatibility of FPKM calculated using conventional method (RNA-seq reads mapped to the genome) and FPKM calculated using de novo contigs, we assembled RNA transcripts using murine RNA-seq reads from liver, kidney, and brain.
Therefore we next tested the differentiation-dependent expression of Mup transcripts using primary preadipocyte cultures prepared directly from murine SC WAT, and which might therefore be more reflective of the in vivo setting.
The final set of 31 human transcripts and 36 murine transcripts is listed in Additional file 7. Hypergeometric tests and Wilcoxon rank sum tests with continuity correction were performed using using R 2.4.1 [ 60].
The primers used for amplification are listed in Table 1 for murine transcripts and Table 2 for rat transcripts.
Finally, the absence of murine transcripts (Desmin and MyoD) in CHQ cultures alone indicates the specificity of the primers to amplify only murine transcripts (Figure 2C).
We now report the use of that resource to identify 17483 pairs of primers that have been experimentally verified to amplify unique sequences corresponding to distinct murine transcripts.
We identified 17483 primer pairs that amplify unique sequences that correspond to distinct murine transcripts.
The Affymetrix Mouse Genome 430 2.0 array, representing 39 000 murine gene transcripts, was used to transcriptionally profile DN3 pre-T cells purified from the thymi of CD3 C3 transgenic mice.
Dry eye was induced in murine eyes using high-flow desiccated air.
Zhang, J. et al. Systematic characterization of the murine mitochondrial proteome using functionally validated cardiac mitochondria.
