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Similar to Ka values, K3' values inversely correlated with breadth of gene expression (R = −0.11, p<0.01).
Breadth of gene expression was estimated as the number of organ and tissue sources of gene-specific ESTs.
In addition, we provide evidence that the level and the breadth of gene expression are related in opposite ways to many structural parameters of gene sequences.
The considered regional variables only partially accounted for the relationships between the level and breadth of gene expression and gene sequences.
We show that architecture of regulatory PK genes significantly differs from other protein coding genes and explore relationships between gene structure, evolutionary conservation, transcript levels and breadth of gene expression.
The level of non-synonymous substitutions in PK genes negatively correlated with breadth of gene expression (R = −0.82, p = 1.73×10−9, Figure 3A), which is consistent with a general trend for non-PK genes and correlations observed in protein coding regions of non-regulatory genes [26], [27].
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The scope and breadth of gene-centric studies is likely to be extended by the emergence of comprehensive disease-specific gene-centric custom SNP arrays such as the ITMAT/BROAD/CARE (IBC) 'cardio-metabolic chip' that covers around 2100 genes from lipid, inflammation, coagulation, oxidants stress, matrix and other pathways linked to CHD (http://bioinf.itmat.upenn.edu/cvdsnp/index.php) (22).
These efforts should greatly improve the breadth of genes to which pathway-based mutation impact approaches can be applied.
The genome wide distribution of CNVs and the abundance and breadth of genes overlapping CNV regions, as well as their widespread involvement in local and distant gene regulation, indicate the extensive contribution of CNVs in phenotypic variation, similar to that observed in human studies [ 25].
Finally, Foret et al. (2009) previously used an oligonucleotide microarray representing the honeybee OGS (Honeybee Genome Sequencing Consortium 2006) to assess the expression breadth of genes among the following tissues in Ap. mellifera: antenna, brain, whole-body larva, hypopharyngeal gland, ovary, and thorax.
What factors determine the levels and breadths of gene expression?
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