Sample #170 Breast tumor (breast cancer)

Overview

Overview  




This sample had limited amount of tissue, thus only 6 consecutive 12μm microtome slides were placed on membrane suitable for laser capture microdissection (LCMD). A grid of 96 (~25000 μm2) circles was used as a template for the laser capture microdissection on each membrane slide. This sample has a corresponding lymph node and liver metastases. An attempt was also made to insert a guide object (plastic string) that could be followed through the tissue (click on the picture for enlargement).



Descriptive statistics of mutant fraction found in each LCMD sample.
MF_histogram

Marker P1F1 Prime tumor
Liver met Lymph node
N 524 708 571
Min (%) 0 0 0
Max (%) 86.8 89.6 89.2
Mean (%) 34.9 22.3 50.8
First Quantile (%) 26.0 14.2 47.5
Median (%) 36.4 20.5 53.1
Third Quantile (%) 44.3 27.4 58.6

 

 

Links to 3 different approaches to visualizing the mutant fraction in the3D volume.

 

Isosurfaces of a random spread of homoplasmic cells (wild-type and/or mutant) in each LCMD volumes.

P1F1 Non-mutated Mutated

 

Isosurfaces of mutant fractions from 5% to 85% in 5% point increments.

 

  35% 70%
5% 40% 75%
10% 45% 80%
15% 50% 85%
20% 55%  
25% 60%  
30% 65%  

 

3D bubble plot of wild-type and mutant fractions.

 Bubble plot

 

 
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