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In this study, using a consensus clustering approach and a panel of routinely applicable immunohistochemical markers with relevance to BC, seven core molecular BC classes were identified.
As previously reported (Soria et al, 2010), six core BC classes, with an additional unclassifiable class, were obtained using a consensus clustering approach between different clustering methods.
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Using a consensus of clustering methodology and modelling techniques, we have developed a clinically based classification of BC based on 10 biomarkers (Green et al, 2013).
In order to identify common expression profiles across time among the differentially expressed genes, transcripts were grouped into clusters of similar expression patterns using a robust consensus cluster algorithm developed by Grotkjaer et al. 2006 [ 35].
For clusters 1 and 2 we used a consensus sequence from the cluster 3 data, and for cluster 3 we used a consensus sequence from the cluster 1 data.
For cluster 3 we used a consensus sequence from the cluster 1 data.
For clusters 1 and 2, we used a consensus sequence from the cluster 3 data to polarize segregating sites.
SSCC became a consensus clustering algorithm when it did not use prior knowledge.
A consensus clustering approach was employed to determine the proper cluster numbers and the robust members within each cluster by using R clusterCons package [ 40].
To make a consensus clustering into a semi-supervised consensus clustering algorithm, prior knowledge can be applied in base clustering, consensus function, or final clustering.
In particular, we use a robust consensus cluster algorithm [ 35] to identify distinct expression time profiles.
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