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Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity
Herein, we report an oral cavity squamous cell carcinoma (OCSCC) patient-derived xenograft (PDX) platform, with genomic annotation useful for co-clinical trial and mechanistic studies. Genomic analysis included whole-exome sequencing (WES) and transcriptome sequencing (RNA-seq) on 16 tumors and matc...
Autores principales: | , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6417872/ https://www.ncbi.nlm.nih.gov/pubmed/30134176 http://dx.doi.org/10.1016/j.celrep.2018.07.058 |
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author | Campbell, Katie M. Lin, Tianxiang Zolkind, Paul Barnell, Erica K. Skidmore, Zachary L. Winkler, Ashley E. Law, Jonathan H. Mardis, Elaine R. Wartman, Lukas D. Adkins, Douglas R. Chernock, Rebecca D. Griffith, Malachi Uppaluri, Ravindra Griffith, Obi L. |
author_facet | Campbell, Katie M. Lin, Tianxiang Zolkind, Paul Barnell, Erica K. Skidmore, Zachary L. Winkler, Ashley E. Law, Jonathan H. Mardis, Elaine R. Wartman, Lukas D. Adkins, Douglas R. Chernock, Rebecca D. Griffith, Malachi Uppaluri, Ravindra Griffith, Obi L. |
author_sort | Campbell, Katie M. |
collection | PubMed |
description | Herein, we report an oral cavity squamous cell carcinoma (OCSCC) patient-derived xenograft (PDX) platform, with genomic annotation useful for co-clinical trial and mechanistic studies. Genomic analysis included whole-exome sequencing (WES) and transcriptome sequencing (RNA-seq) on 16 tumors and matched PDXs and additional whole-genome sequencing (WGS) on 9 of these pairs as a representative subset of a larger OCSCC PDX repository (n = 63). In 12 models with high purity, more than 90% of variants detected in the tumor were retained in the matched PDX. The genomic landscape across these PDXs reflected OCSCC molecular heterogeneity, including previously described basal, mesenchymal, and classical molecular subtypes. To demonstrate the integration of PDXs into a clinical trial framework, we show that pharmacological intervention in PDXs parallels clinical response and extends patient data. Together, these data describe a repository of OCSCC-specific PDXs and illustrate conservation of primary tumor genotypes, intratumoral heterogeneity, and co-clinical trial application. |
format | Online Article Text |
id | pubmed-6417872 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
record_format | MEDLINE/PubMed |
spelling | pubmed-64178722019-03-14 Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity Campbell, Katie M. Lin, Tianxiang Zolkind, Paul Barnell, Erica K. Skidmore, Zachary L. Winkler, Ashley E. Law, Jonathan H. Mardis, Elaine R. Wartman, Lukas D. Adkins, Douglas R. Chernock, Rebecca D. Griffith, Malachi Uppaluri, Ravindra Griffith, Obi L. Cell Rep Article Herein, we report an oral cavity squamous cell carcinoma (OCSCC) patient-derived xenograft (PDX) platform, with genomic annotation useful for co-clinical trial and mechanistic studies. Genomic analysis included whole-exome sequencing (WES) and transcriptome sequencing (RNA-seq) on 16 tumors and matched PDXs and additional whole-genome sequencing (WGS) on 9 of these pairs as a representative subset of a larger OCSCC PDX repository (n = 63). In 12 models with high purity, more than 90% of variants detected in the tumor were retained in the matched PDX. The genomic landscape across these PDXs reflected OCSCC molecular heterogeneity, including previously described basal, mesenchymal, and classical molecular subtypes. To demonstrate the integration of PDXs into a clinical trial framework, we show that pharmacological intervention in PDXs parallels clinical response and extends patient data. Together, these data describe a repository of OCSCC-specific PDXs and illustrate conservation of primary tumor genotypes, intratumoral heterogeneity, and co-clinical trial application. 2018-08-21 /pmc/articles/PMC6417872/ /pubmed/30134176 http://dx.doi.org/10.1016/j.celrep.2018.07.058 Text en This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Campbell, Katie M. Lin, Tianxiang Zolkind, Paul Barnell, Erica K. Skidmore, Zachary L. Winkler, Ashley E. Law, Jonathan H. Mardis, Elaine R. Wartman, Lukas D. Adkins, Douglas R. Chernock, Rebecca D. Griffith, Malachi Uppaluri, Ravindra Griffith, Obi L. Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity |
title | Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity |
title_full | Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity |
title_fullStr | Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity |
title_full_unstemmed | Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity |
title_short | Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity |
title_sort | oral cavity squamous cell carcinoma xenografts retain complex genotypes and intertumor molecular heterogeneity |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6417872/ https://www.ncbi.nlm.nih.gov/pubmed/30134176 http://dx.doi.org/10.1016/j.celrep.2018.07.058 |
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