Fig. 1: Overview of experimental design and bioinformatic analysis. | Nature Communications

Fig. 1: Overview of experimental design and bioinformatic analysis.

From: Genomic signatures of past and present chromosomal instability in Barrett’s esophagus and early esophageal adenocarcinoma

Fig. 1

Top: 15 patients whose Barrett’s esophagus tissue samples presented early invasive esophageal adenocarcinomas (EAC) were selected. Middle: After histological review, 75 samples of early cancer (EAC) and precancerous lesions, including non-dysplastic Barrett’s esophagus (NDBE), low-grade dysplasia (LGD), and high-grade dysplasia (HGD), were collected via laser capture microdissection and subjected to whole-genome sequencing. See Supplementary Data 1 for a complete list of samples from each individual. Bottom: We perform joint variant detection on samples from each patient and then determine their phylogeny based on genetic alterations shared by two or more samples (filled triangles). Based on the phylogeny, we then infer the timing and evolution of copy-number alterations (both shared and private) on each parental chromosome (maternal or parental), including distinct copy-number changes on a single parental chromosome in related BE/EAC genomes generated by branching evolution.

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