DNA was extracted from FFPE sections and standardized to a concentration of 4 ng/μL using the DNeasy kit (Qiagen). Mutational landscaping was performed by the Glasgow Precision Oncology Laboratory using an in-house genomic panel assay of 151 cancer-associated genes (Supplementary Table S1; ref. 22 (link)). Targeted capture libraries were prepared from 150 to 200-ng DNA. Sequencing was performed using an Illumina HiSeq400. The maftools (23 (link)) package was used to generate oncoplots, forest plots, and co-barplots to compare the mutational landscape for primary colorectal cancer and CRLM with morphological and immune cell integration.
Mutational landscaping using an in-house genomic panel assay of 151 cancer-associated genes
dependent variables
Comparison of the mutational landscape for primary colorectal cancer and CRLM with morphological and immune cell integration
control variables
DNA was extracted from FFPE sections and standardized to a concentration of 4 ng/μL using the DNeasy kit (Qiagen)
Targeted capture libraries were prepared from 150 to 200-ng DNA
Sequencing was performed using an Illumina HiSeq400
controls
No positive or negative controls were explicitly mentioned in the information provided.
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