@article{6c80dd4e22c740a3b374154279ad9a37,
title = "Hard wiring of normal tissue-specific chromosome-wide gene expression levels is an additional factor driving cancer type-specific aneuploidies",
abstract = "Background: Many carcinomas have recurrent chromosomal aneuploidies specific to the tissue of tumor origin. The reason for this specificity is not completely understood. Methods: In this study, we looked at the frequency of chromosomal arm gains and losses in different cancer types from the The Cancer Genome Atlas (TCGA) and compared them to the mean gene expression of each chromosome arm in corresponding normal tissues of origin from the Genotype-Tissue Expression (GTEx) database, in addition to the distribution of tissue-specific oncogenes and tumor suppressors on different chromosome arms. Results: This analysis revealed a complex picture of factors driving tumor karyotype evolution in which some recurrent chromosomal copy number reflect the chromosome arm-wide gene expression levels of the their normal tissue of tumor origin. Conclusions: We conclude that the cancer type-specific distribution of chromosomal arm gains and losses is potentially “hardwiring” gene expression levels characteristic of the normal tissue of tumor origin, in addition to broadly modulating the expression of tissue-specific tumor driver genes.",
author = "Sushant Patkar and Kerstin Heselmeyer-Haddad and Noam Auslander and Daniela Hirsch and Jordi Camps and Daniel Bronder and Markus Brown and Chen, {Wei Dong} and Rachel Lokanga and Darawalee Wangsa and Danny Wangsa and Yue Hu and Annette Lischka and R{\"u}diger Braun and Georg Emons and Ghadimi, {B. Michael} and Jochen Gaedcke and Marian Grade and Cristina Montagna and Yuri Lazebnik and Difilippantonio, {Michael J.} and Habermann, {Jens K.} and Gert Auer and Eytan Ruppin and Thomas Ried",
note = "Funding Information: Funding was provided by the Intramural Research Program of the National Cancer Institute/NIH. DH and RB were supported by the Deutsche Krebshilfe, GE through the Deutsche Forschungsgemeinschaft, SP and NA through the NCI/University of Maryland Graduate Partnership Program, and DB by a Wellcome Trust/NIH PhD Studentship. Open Access funding provided by the National Institutes of Health (NIH). Funding Information: This manuscript is dedicated to the late Angelika Amon, who contributed substantially to our understanding of aneuploidy in cancer. The authors are indebted to Drs. Thomas Cremer, Marion Cremer, Reinhard Ebner, Kenneth C. Carter, W. Michael Kuehl, Javed Khan, Alejandro Sch?ffer, and E. Michael Gertz for valuable comments on the manuscript and to Buddy Chen for editorial assistance. The results published here are in part based upon data generated by the TCGA Research Network (http://cancergenome.nih.gov/) and the Genotype-Tissue Expression (GTEx) Project (https://www.gtexportal.org/home/). Publisher Copyright: {\textcopyright} 2021, The Author(s).",
year = "2021",
month = dec,
doi = "10.1186/s13073-021-00905-y",
language = "English (US)",
volume = "13",
journal = "Genome Medicine",
issn = "1756-994X",
publisher = "BioMed Central",
number = "1",
}