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Significantly regulated proteins were grouped into 11 clusters based on abundance pattern across all replicates.
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Expression level was based on abundance in an EST survey of ∼3400 sequences [10].
Models based on abundance operate very differently than models based on scarcity.
In that regard, they introduce a novel (and possibly quite sound) 'complexity hypothesis' based on abundance.
Distribution of assembled transcripts based on abundance (FPKM) and corresponding read density.
We then use these data sets to generate co-abundance networks that link proteins based on similar abundance patterns in time or across patients.
Thus, we have found five coherent compound clusters based on CH abundance patterns which clearly relate to the chemistry of CH compounds.
These differentially expressed proteins were then hierarchically clustered based on their abundance patterns across all replicates and conditions using the "Fast Ward" algorithm.
Probe sets were clustered using hierarchical clustering and the heatmap is displayed using this clustering based on the transcript abundance pattern using the program Heatplus [ 86].
Several studies have focused on kingdom or habitat classifications based on the abundance of short peptide patterns.
In the second step, the expression profile filtering was based on miRNA expression pattern using the abundance of the miRNA candidates in each library and the distribution of reads mapped to a candidate pre-miRNA according to Meyers et al. relaxed criteria [ 42].
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