Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2022 Mar 1;14:24. doi: 10.1186/s13073-022-01018-w

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© The Author(s) 2022

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

PMC Copyright notice

Fig. 2 — Genetic aberrations distinguish Group A and Group B. a Mutational landscape in PanNEN subgroups. Panel sequencing using in-house panel (PanNEN) and commercial cancer panel (CCP) Only genes mutated more than once are displayed here. Complete mutation profiles can be found in Additional file 2: Fig. S2b. Colors depict variant type (white spacing: no mutation identified). The DNA sequencing panel at the bottom depicts which targeted panel we used for the sample, while the ‘gene present’ annotation on the right side depicts whether the gene is present in the PanNEN panel or the CCP panel. Samples are sorted according to the PanNEN Groups; A, B and C. b Whole chromosomal aberrations in PanNEN subgroups. Hierarchical clustering of mean log2 ratios of chromosomal segments; dotted line represents cut-off used to identify amplification, low-CNA, and deletion-rich signatures; column annotation: tumor grade, tumor type and recurrently aberrated genes. c. Representative images of fluorescent in situ hybridization (FISH) validation. Red: gene probe. Green: centromere probe of chr5 (top panel), chr9 (middle panel), and chr11 (bottom panel). d Linear regression of mean copy number count of centromere derived from FISH (y-axis) and mean log2 ratios of chromosomal segments per autosome (x-axis); diagonal line: best fit model. R² = 0.6531, p=6.232 × 10⁻⁷. e Focal aberrations in Group A (top panel) and Group B (bottom panel). Blue: focal copy number losses, red: focal copy number gain. Log2 ratio range at the top and q-value at the bottom of each graph. Green: q-value cut off at 0.25 to call significance. Significantly aberrated focal regions are identified. f Chromosome 12, 13, and 14 copy number status in NETG3 (top panel) and NEC (bottom panel). Intensity values of each bin are plotted in colored dots; each color indicates ‘methylated’ and ‘unmethylated’ channels of each CpG; segments are shown as horizontal blue lines