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Then, if any functional components exist the top-ranked pathways will be a clustered list of small pathway variations through these components.
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The spanion cluster lists of the Human transcript proximal database and its Mouse equivalent are presented as additional files 4 and 5.
The cluster information page provides the phyletic profile of a cluster, and a list of included genes.
In order to evaluate whether any putative transcription factor-encoding genes are central to the each of the clusters, a list of all putative transcription-related entities in each cluster was obtained by assigning cluster entities to MapMan bins based on their putative biological function [ 36].
In brief, given a variable γ and a cluster α (lists of genes expressed specifically in a given tissue), we were interested in determining whether the distribution of γ in α was random.
The most common results are: a set of genes measured on a DNA chip, a cluster extracted from a hierarchical clustering or a list of differential genes issued from a statistical test.
Moreover, since routing messages are not forwarded across different clusters, a list of IP addresses and their corresponding CIDs is also included in some routing messages.
DAVID clusters the list of enriched processes into functional groups based upon associated ontological terms.
Significant enrichment of GO terms was determined using Fisher's exact test in a genome-wide context (p < 0.05) and subsequently, using hierarchical clustering (a complete list of the hierarchical clusters per tissue per age-position is found in Additional file 3: Tables S8-11).
When all samples of the combined XPN-corrected dataset were clustered by a published list of genes identified as most changed in response to neoadjuvant Letrozole [ 13, 24] the baseline and three-month samples clustered together regardless of platform.
The second author generated the allocation sequence using SPSS, and the first author enrolled the clusters and made a list of clusters.
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