“Create a gene expression clustering dendrogram for BRCA1, BRCA2 and RAD51 as a DNA repair cluster, and EGFR, ERBB2 and MYC as a growth signalling cluster, with a cluster-distance scale and a cut at 3.”
Leggi le decisioni che ne stanno alla base.
Name each group by the biological process it represents.
Keep the merge distance visible so readers can compare separation.
Mark a cut at 3 to turn the hierarchy into an initial grouping.
Use this structure when a small set of genes needs a readable hierarchy before a larger heatmap or statistical analysis.
Domande frequenti
What does a gene expression dendrogram show?
It shows how genes or samples group together by similarity in their expression profiles. Branches that merge lower are more similar under the chosen distance measure.
What is the cut on this dendrogram?
The cut at 3 is a threshold used to turn the hierarchy into separate clusters. Changing it can merge groups or split them into smaller ones.
Should I include every gene in one dendrogram?
For a card-sized diagram, show the genes needed to explain the finding. Put a large full-tree analysis in a supplementary view.