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Genomic and Transcriptomic Characterization Links Cell Lines with Aggressive Head and Neck Cancers
Cell lines are important tools for biological and preclinical investigation, and establishing their relationship to genomic alterations in tumors could accelerate functional and therapeutic discoveries. We conducted integrated analyses of genomic and transcriptomic profiles of 15 human papillomaviru...
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/PMC6280671/ https://www.ncbi.nlm.nih.gov/pubmed/30380422 http://dx.doi.org/10.1016/j.celrep.2018.10.007 |
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author | Cheng, Hui Yang, Xinping Si, Han Saleh, Anthony D. Xiao, Wenming Coupar, Jamie Gollin, Susanne M. Ferris, Robert L. Issaeva, Natalia Yarbrough, Wendell G. Prince, Mark E. Carey, Thomas E. Van Waes, Carter Chen, Zhong |
author_facet | Cheng, Hui Yang, Xinping Si, Han Saleh, Anthony D. Xiao, Wenming Coupar, Jamie Gollin, Susanne M. Ferris, Robert L. Issaeva, Natalia Yarbrough, Wendell G. Prince, Mark E. Carey, Thomas E. Van Waes, Carter Chen, Zhong |
author_sort | Cheng, Hui |
collection | PubMed |
description | Cell lines are important tools for biological and preclinical investigation, and establishing their relationship to genomic alterations in tumors could accelerate functional and therapeutic discoveries. We conducted integrated analyses of genomic and transcriptomic profiles of 15 human papillomavirus (HPV)-negative and 11 HPV-positive head and neck squamous cell carcinoma (HNSCC) lines to compare with 279 tumors from The Cancer Genome Atlas (TCGA). We identified recurrent amplifications on chromosomes 3q22–29, 5p15, 11q13/22, and 8p11 that drive increased expression of more than 100 genes in cell lines and tumors. These alterations, together with loss or mutations of tumor suppressor genes, converge on important signaling pathways, recapitulating the genomic landscape of aggressive HNSCCs. Among these, concurrent 3q26.3 amplification and TP53 mutation in most HPV(–) cell lines reflect tumors with worse survival. Our findings elucidate and validate genomic alterations underpinning numerous discoveries made with HNSCC lines and provide valuable models for future studies. |
format | Online Article Text |
id | pubmed-6280671 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
record_format | MEDLINE/PubMed |
spelling | pubmed-62806712018-12-05 Genomic and Transcriptomic Characterization Links Cell Lines with Aggressive Head and Neck Cancers Cheng, Hui Yang, Xinping Si, Han Saleh, Anthony D. Xiao, Wenming Coupar, Jamie Gollin, Susanne M. Ferris, Robert L. Issaeva, Natalia Yarbrough, Wendell G. Prince, Mark E. Carey, Thomas E. Van Waes, Carter Chen, Zhong Cell Rep Article Cell lines are important tools for biological and preclinical investigation, and establishing their relationship to genomic alterations in tumors could accelerate functional and therapeutic discoveries. We conducted integrated analyses of genomic and transcriptomic profiles of 15 human papillomavirus (HPV)-negative and 11 HPV-positive head and neck squamous cell carcinoma (HNSCC) lines to compare with 279 tumors from The Cancer Genome Atlas (TCGA). We identified recurrent amplifications on chromosomes 3q22–29, 5p15, 11q13/22, and 8p11 that drive increased expression of more than 100 genes in cell lines and tumors. These alterations, together with loss or mutations of tumor suppressor genes, converge on important signaling pathways, recapitulating the genomic landscape of aggressive HNSCCs. Among these, concurrent 3q26.3 amplification and TP53 mutation in most HPV(–) cell lines reflect tumors with worse survival. Our findings elucidate and validate genomic alterations underpinning numerous discoveries made with HNSCC lines and provide valuable models for future studies. 2018-10-30 /pmc/articles/PMC6280671/ /pubmed/30380422 http://dx.doi.org/10.1016/j.celrep.2018.10.007 Text en http://creativecommons.org/licenses/by-nc/4.0/ This is an open access article under the CC BY license. |
spellingShingle | Article Cheng, Hui Yang, Xinping Si, Han Saleh, Anthony D. Xiao, Wenming Coupar, Jamie Gollin, Susanne M. Ferris, Robert L. Issaeva, Natalia Yarbrough, Wendell G. Prince, Mark E. Carey, Thomas E. Van Waes, Carter Chen, Zhong Genomic and Transcriptomic Characterization Links Cell Lines with Aggressive Head and Neck Cancers |
title | Genomic and Transcriptomic Characterization Links Cell Lines with
Aggressive Head and Neck Cancers |
title_full | Genomic and Transcriptomic Characterization Links Cell Lines with
Aggressive Head and Neck Cancers |
title_fullStr | Genomic and Transcriptomic Characterization Links Cell Lines with
Aggressive Head and Neck Cancers |
title_full_unstemmed | Genomic and Transcriptomic Characterization Links Cell Lines with
Aggressive Head and Neck Cancers |
title_short | Genomic and Transcriptomic Characterization Links Cell Lines with
Aggressive Head and Neck Cancers |
title_sort | genomic and transcriptomic characterization links cell lines with
aggressive head and neck cancers |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6280671/ https://www.ncbi.nlm.nih.gov/pubmed/30380422 http://dx.doi.org/10.1016/j.celrep.2018.10.007 |
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