@article{101dac780abd43568234310d97f94bc0,
title = "Conservation of copy number profiles during engraftment and passaging of patient-derived cancer xenografts",
abstract = "Patient-derived xenografts (PDXs) are resected human tumors engrafted into mice for preclinical studies and therapeutic testing. It has been proposed that the mouse host affects tumor evolution during PDX engraftment and propagation, impacting the accuracy of PDX modeling of human cancer. Here we exhaustively analyze copy number alterations (CNAs) in 1451 PDX and matched patient tumor (PT) samples from 509 PDX models. CNA inferences based on DNA sequencing and microarray data displayed substantially higher resolution and dynamic range than gene expression-based inferences, and they also showed strong CNA conservation from PTs through late-passage PDXs. CNA recurrence analysis of 130 colorectal and breast PT/PDX-early/PDX-late trios confirmed high-resolution CNA retention. We observed no significant enrichment of cancer-related genes in PDX-specific CNAs across models. Moreover, CNA differences between patient and PDX tumors were comparable to variations in multi-region samples within patients. Our study demonstrates the lack of systematic copy number evolution driven by the PDX mouse host.",
author = "{PDXNET consortium} and {EurOPDX consortium} and Woo, {Xing Yi} and Jessica Giordano and Anuj Srivastava and Zhao, {Zi Ming} and Lloyd, {Michael W.} and {de Bruijn}, Roebi and Suh, {Yun Suhk} and Rajesh Patidar and Li Chen and Sandra Scherer and Matthew Bailey and Yang, {Chieh Hsiang} and Emilio Cortes-Sanchez and Yuanxin Xi and Jing Wang and Jayamanna Wickramasinghe and Kossenkov, {Andrew V.} and Vito Rebecca and Hua Sun and {Jay Mashl}, R. and Sherri Davies and Ryan Jeon and Christian Frech and Jelena Randjelovic and Jacqueline Rosains and Francesco Galimi and Andrea Bertotti and Adam Lafferty and O'Farrell, {Alice C.} and Elodie Modave and Diether Lambrechts and {ter Brugge}, Petra and Violeta Serra and Elisabetta Marangoni and Botty, {Rania El} and Hyunsoo Kim and Kim, {Jong Il} and Yang, {Han Kwang} and Charles Lee and Dean, {Dennis A.} and Brandi Davis-Dusenbery and Evrard, {Yvonne A.} and Doroshow, {James H.} and Welm, {Alana L.} and Welm, {Bryan E.} and Lewis, {Michael T.} and Bingliang Fang and Roth, {Jack A.} and John Minna and Luc Girard",
note = "Publisher Copyright: The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license. Copyright: Copyright 2020 Elsevier B.V., All rights reserved.",
year = "2019",
month = dec,
day = "3",
doi = "10.1101/861393",
language = "English (US)",
journal = "Seminars in Fetal and Neonatal Medicine",
issn = "1744-165X",
publisher = "W.B. Saunders Ltd",
}