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A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients

Microscopy image data of human cancers provide detailed phenotypes of spatially and morphologically intact tissues at single-cell resolution, thus complementing large-scale molecular analyses, e.g., next generation sequencing or proteomic profiling. Here we describe a high-resolution tissue microarr...

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Autores principales: Zhong, Qing, Guo, Tiannan, Rechsteiner, Markus, Rüschoff, Jan H., Rupp, Niels, Fankhauser, Christian, Saba, Karim, Mortezavi, Ashkan, Poyet, Cédric, Hermanns, Thomas, Zhu, Yi, Moch, Holger, Aebersold, Ruedi, Wild, Peter J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5349242/
https://www.ncbi.nlm.nih.gov/pubmed/28291248
http://dx.doi.org/10.1038/sdata.2017.14
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author Zhong, Qing
Guo, Tiannan
Rechsteiner, Markus
Rüschoff, Jan H.
Rupp, Niels
Fankhauser, Christian
Saba, Karim
Mortezavi, Ashkan
Poyet, Cédric
Hermanns, Thomas
Zhu, Yi
Moch, Holger
Aebersold, Ruedi
Wild, Peter J.
author_facet Zhong, Qing
Guo, Tiannan
Rechsteiner, Markus
Rüschoff, Jan H.
Rupp, Niels
Fankhauser, Christian
Saba, Karim
Mortezavi, Ashkan
Poyet, Cédric
Hermanns, Thomas
Zhu, Yi
Moch, Holger
Aebersold, Ruedi
Wild, Peter J.
author_sort Zhong, Qing
collection PubMed
description Microscopy image data of human cancers provide detailed phenotypes of spatially and morphologically intact tissues at single-cell resolution, thus complementing large-scale molecular analyses, e.g., next generation sequencing or proteomic profiling. Here we describe a high-resolution tissue microarray (TMA) image dataset from a cohort of 71 prostate tissue samples, which was hybridized with bright-field dual colour chromogenic and silver in situ hybridization probes for the tumour suppressor gene PTEN. These tissue samples were digitized and supplemented with expert annotations, clinical information, statistical models of PTEN genetic status, and computer source codes. For validation, we constructed an additional TMA dataset for 424 prostate tissues, hybridized with FISH probes for PTEN, and performed survival analysis on a subset of 339 radical prostatectomy specimens with overall, disease-specific and recurrence-free survival (maximum 167 months). For application, we further produced 6,036 image patches derived from two whole slides. Our curated collection of prostate cancer data sets provides reuse potential for both biomedical and computational studies.
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spelling pubmed-53492422017-03-17 A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients Zhong, Qing Guo, Tiannan Rechsteiner, Markus Rüschoff, Jan H. Rupp, Niels Fankhauser, Christian Saba, Karim Mortezavi, Ashkan Poyet, Cédric Hermanns, Thomas Zhu, Yi Moch, Holger Aebersold, Ruedi Wild, Peter J. Sci Data Data Descriptor Microscopy image data of human cancers provide detailed phenotypes of spatially and morphologically intact tissues at single-cell resolution, thus complementing large-scale molecular analyses, e.g., next generation sequencing or proteomic profiling. Here we describe a high-resolution tissue microarray (TMA) image dataset from a cohort of 71 prostate tissue samples, which was hybridized with bright-field dual colour chromogenic and silver in situ hybridization probes for the tumour suppressor gene PTEN. These tissue samples were digitized and supplemented with expert annotations, clinical information, statistical models of PTEN genetic status, and computer source codes. For validation, we constructed an additional TMA dataset for 424 prostate tissues, hybridized with FISH probes for PTEN, and performed survival analysis on a subset of 339 radical prostatectomy specimens with overall, disease-specific and recurrence-free survival (maximum 167 months). For application, we further produced 6,036 image patches derived from two whole slides. Our curated collection of prostate cancer data sets provides reuse potential for both biomedical and computational studies. Nature Publishing Group 2017-03-14 /pmc/articles/PMC5349242/ /pubmed/28291248 http://dx.doi.org/10.1038/sdata.2017.14 Text en Copyright © 2017, The Author(s) http://creativecommons.org/licenses/by/4.0 This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0 Metadata associated with this Data Descriptor is available at http://www.nature.com/sdata/ and is released under the CC0 waiver to maximize reuse.
spellingShingle Data Descriptor
Zhong, Qing
Guo, Tiannan
Rechsteiner, Markus
Rüschoff, Jan H.
Rupp, Niels
Fankhauser, Christian
Saba, Karim
Mortezavi, Ashkan
Poyet, Cédric
Hermanns, Thomas
Zhu, Yi
Moch, Holger
Aebersold, Ruedi
Wild, Peter J.
A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients
title A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients
title_full A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients
title_fullStr A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients
title_full_unstemmed A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients
title_short A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients
title_sort curated collection of tissue microarray images and clinical outcome data of prostate cancer patients
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5349242/
https://www.ncbi.nlm.nih.gov/pubmed/28291248
http://dx.doi.org/10.1038/sdata.2017.14
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