Paradigm looks at gene characteristics in fungi and rice for such clients as Monsanto and Bayer.
We treated the compilation of resources for each gene as gene characteristics that could be quantified.
To address this issue we compared estimates of gene expression against several gene characteristics.
Initially, we compiled a total of 40 gene characteristics for the reference genes (see Supplementary Table S2).
We have used a variety of gene characteristics and functional annotations to select most likely candidates for this disease.
As shown in table 3, the correction for regional variables showed only a limited impact on the effects of expression profiles on gene characteristics (Table 3).
The codon usage based method also exhibits a great variability in efficiency that is unexpected due to the variety of gene characteristics inserted in the genomes.
These findings indicated that the gene characteristics that are significantly associated with fitness pleiotropy are CRE, PPI degree, and CC for the nonessential S. cerevisiae genes.
Most current synthetic gene design strategies are guided by mimicry of natural gene characteristics thought to be relevant for increased expression [4].
Here, for instance we showed how to extend the methodology to study not one but two gene characteristics at a time.
The results highlight the importance of using increasingly complete interaction data sets for studying the relationship between fitness pleiotropy and gene characteristics within the protein interaction networks.
