Fig. 1
From: Comprehensive analysis of normal adjacent to tumor transcriptomes
Comparison of healthy tissues, normal, adjacent normal (NAT) tissues, and tumors. a Study design. From GTEx, we collected 1578 RNA-seq raw samples across bladder, breast, colon, liver, lung, prostate, thyroid, and uterus tissues, and matched with corresponding tumor types 428 normal adjacent tumor (NAT) and 4500 tumor samples from TCGA. We performed identical processing of all samples using the protocol presented in Rahman et al.23, and validated that the data are coherent. We then utilized several techniques to characterize the differences between healthy tissues, NAT, and tumor tissues that are shares across tissue types. Credit for the organs illustrations in this figure: © Alex Oakenman/Shutterstock.com. All rights reserved. These images are not included under the creative commons license for this article. b Pearson correlation between median healthy samples in each tissue site (rows) and each of the 428 NAT samples. In 405 of the NAT samples (94.6%), the maximal correlation coefficient was with the corresponding healthy tissue. c Median log2 expression levels of 553 housekeeping genes in healthy and NAT tissues across tissue types. Spearman coefficient is presented. The size of the point represents the standard deviation (SD) in NAT, and color represents SD in healthy. High concordance in SD is observed between NAT and healthy as well (R = 0.902)
