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Supplementary Figure Legends.
Supplementary Figure 1. Diluted DLD1 cell line DNA sample (1:3 DLD1: H460 or 25%
DLD1) was sequenced in 5 different sequencing runs to determine inter-run sequencing
reproducibility (top panel) and was sequenced as 5 distinctly barcoded samples in the
same run to establish intra-run reproducibility (bottom panel). Summarized results of 7
mutations show consistent detection of all expected heterozygous mutations with very
little variability of allelic fractions indicating high levels of inter-run and intra-run
reproducibility.
Supplementary Figure 2. The approach used for comparison of the sequence variants
detected in the tumor sample to the variants detected in the paired normal and filtering
is summarized.
Supplementary Figure 3. Two separate estimations of copy number variations (CNVs)
detection sensitivity was established using sequentially diluted H460 DNA samples with
MYC amplification and EGFR deletion are depicted.
Supplementary Figure 4. Work flow of a typical 409 gene panel sequencing run (10
samples) using Ion Proton has been summarized depicting the steps and time periods
involved.