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Fig. 1 | BMC Genomics

Fig. 1

From: Integrated genomics approach to identify biologically relevant alterations in fewer samples

Fig. 1

Genomic alterations identified in HNSCC cell lines. a Chromosomal aberrations identified by 25 independent karyotype of each cell line is represented in circular form. Chromosome numbers in each cell line are indicated by n, as observed from karyotype (*) and predicted by SNP array (^). b Heatmap representation of copy number changes in key hallmark genes identified by SNP array and validated by qPCR. Grey box indicates validated and white box indicates invalidated copy number change in respective cell line. c Scatter plot representation of hallmark gene’s expression. X-axis shows gene expression quantified by RNA sequencing and Y-axis shows gene expression quantified by RT-qPCR. Genes showed positive correlation between RNA sequencing and RT-qPCR. d Several high-quality point mutations identified by exome sequencing were validated by Sanger sequencing. Sanger sequencing trace were visualized using Mutation Surveyor software showing reference sequence trace in upper panel and mutant sequencing trace in below panel. Arrows represent mutation position with reference and mutated base indicated above the arrow

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