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Taken together, these statistics suggest that SFPs identified by using divergent tissue types are real.
Divergent tissue with divergent manipulation; Divergent tissue with same manipulation; Homologous tissue with different manipulation; Homologous tissue with same manipulation or same tissue with different manipulation; and Same tissue or cell type with (nearly) same manipulation.
An intriguing aspect about the sbPAC1 genes is their divergent tissue distribution and this may be the basis of their specific physiological functions and persistence in the genome.
Whole transcriptome sequencing (RNA-seq) is a promising solution for interrogation of gene structure and expression, especially in a divergent tissue like the hoof.
This resulted in the following ranking (higher is better): Divergent tissue with divergent manipulation; Divergent tissue with same manipulation; Homologous tissue with different manipulation; Homologous tissue with same manipulation or same tissue with different manipulation; and Same tissue or cell type with (nearly) same manipulation.
The aRNA from divergent tissue types was combined in equal amounts at this point and this common reference pool was labeled with Cy3 to be compared with a single individual in the experiment labeled with Cy5.
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This analysis proved that SPRR genes are highly up-regulated in more than 50 microarray screens from divergent tissues and cell types (Figure 4B), often linked to stress or tissue remodelling.
Identification of a miRNA target by usage of gene and miRNA datasets taken from two relatively divergent tissues (such as the embryonic and the adult liver) is relatively complex since, as mentioned above, the mRNAs are most likely regulated by additional machineries.
Examination of a subset of the trapped putative transcripts showed exemplarily that in a lactating cow numerous ETS displayed a divergent, tissue-specific expression pattern.
Predicted SFPs and non-SFPs from analysis of microarray data from same tissues are in rows; predicted SFPs and non-SFPs from divergent tissues are in columns.
Reproductive organs have been reported as amongst the most divergent tissues [ 54, 55], in agreement with our observation that they have the least conserved co-expression patterns.
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