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Tumor Evolutionary Tree (Subclonal Architecture)

Branched phylogeny showing parental clone diversifying into subclones under therapeutic pressure.

When to use this prompt

For cancer evolution, drug-resistance and intratumor heterogeneity papers.

The prompt

A tumor evolutionary tree diagram showing branched subclonal expansion under therapy.

Vertical axis (top to bottom): Time.
Horizontal axis (left to right): Genetic / phenotypic divergence.

Tree structure:
- A trunk at the top labeled "Parental clone" with a small panel listing trunk mutations (e.g., TP53, PIK3CA).
- The trunk branches into 3 main subclones at first divergence, each with one or two private mutations annotated on the branch.
- Each subclone further branches into 2-3 sub-subclones at a second divergence event.

Therapy pressure:
- A horizontal dashed line crossing the tree marked "Therapy intervention".
- Subclones above the line are pre-therapy.
- Below the line, two subclones are highlighted in red (resistant subclones that expanded), while others gray out (eliminated by therapy).

Right margin annotations:
- "Trunk mutations" shared by all clones.
- "Resistance mechanisms" listed beside the highlighted resistant branches (e.g., ESR1 mutations, EMT signature).

Style: clean phylogenetic tree style, restrained palette (slate, red accent for resistant clones), white background, sans-serif labels. Suitable for cancer biology / oncology journals.

Variations

Add cell-fraction stacked plot

Add a stacked area plot to the right of the tree showing each subclone's fraction of total cells over time, with the therapy line aligned to the same time axis.

Tips

  • Place the therapy event line horizontally — it cleanly separates pre/post phases.
  • Color resistant subclones distinctly. Tree-only figures hide the therapeutic story.
  • Annotate trunk mutations only once. Repeating them on every branch clutters the figure.

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