Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree

Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree

Exploring the intrinsic differences among breast cancer subtypes is of crucial importance for precise diagnosis and therapeutic decision-making in diseases of high heterogeneity. The subtypes defined with several layers of information are related but not consistent, especially using immunohistochemi...

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Main Authors: Li, Yang, Tang, Xu-Qing, Bai, Zhonghu, Dai, Xiaofeng
Format: Online
Language:English
Published: Nature Publishing Group 2016
Online Access:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5082366/
id pubmed-5082366
recordtype oai_dc
spelling pubmed-50823662016-10-31 Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree Li, Yang Tang, Xu-Qing Bai, Zhonghu Dai, Xiaofeng Article Exploring the intrinsic differences among breast cancer subtypes is of crucial importance for precise diagnosis and therapeutic decision-making in diseases of high heterogeneity. The subtypes defined with several layers of information are related but not consistent, especially using immunohistochemistry markers and gene expression profiling. Here, we explored the intrinsic differences among the subtypes defined by the estrogen receptor, progesterone receptor and human epidermal growth factor receptor 2 based on the decision tree. We identified 30 mRNAs and 7 miRNAs differentially expressed along the tree’s branches. The final signature panel contained 30 mRNAs, whose performance was validated using two public datasets based on 3 well-known classifiers. The network and pathway analysis were explored for feature genes, from which key molecules including FOXQ1 and SFRP1 were revealed to be densely connected with other molecules and participate in the validated metabolic pathways. Our study uncovered the differences among the four IHC-defined breast tumor subtypes at the mRNA and miRNA levels, presented a novel signature for breast tumor subtyping, and identified several key molecules potentially driving the heterogeneity of such tumors. The results help us further understand breast tumor heterogeneity, which could be availed in clinics. Nature Publishing Group 2016-10-27 /pmc/articles/PMC5082366/ /pubmed/27786176 http://dx.doi.org/10.1038/srep35773 Text en Copyright © 2016, 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/
repository_type Open Access Journal
institution_category Foreign Institution
institution US National Center for Biotechnology Information
building NCBI PubMed
collection Online Access
language English
format Online
author Li, Yang
Tang, Xu-Qing
Bai, Zhonghu
Dai, Xiaofeng
spellingShingle Li, Yang
Tang, Xu-Qing
Bai, Zhonghu
Dai, Xiaofeng
Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree
author_facet Li, Yang
Tang, Xu-Qing
Bai, Zhonghu
Dai, Xiaofeng
author_sort Li, Yang
title Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree
title_short Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree
title_full Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree
title_fullStr Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree
title_full_unstemmed Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree
title_sort exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree
description Exploring the intrinsic differences among breast cancer subtypes is of crucial importance for precise diagnosis and therapeutic decision-making in diseases of high heterogeneity. The subtypes defined with several layers of information are related but not consistent, especially using immunohistochemistry markers and gene expression profiling. Here, we explored the intrinsic differences among the subtypes defined by the estrogen receptor, progesterone receptor and human epidermal growth factor receptor 2 based on the decision tree. We identified 30 mRNAs and 7 miRNAs differentially expressed along the tree’s branches. The final signature panel contained 30 mRNAs, whose performance was validated using two public datasets based on 3 well-known classifiers. The network and pathway analysis were explored for feature genes, from which key molecules including FOXQ1 and SFRP1 were revealed to be densely connected with other molecules and participate in the validated metabolic pathways. Our study uncovered the differences among the four IHC-defined breast tumor subtypes at the mRNA and miRNA levels, presented a novel signature for breast tumor subtyping, and identified several key molecules potentially driving the heterogeneity of such tumors. The results help us further understand breast tumor heterogeneity, which could be availed in clinics.
publisher Nature Publishing Group
publishDate 2016
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5082366/
_version_ 1613700231468154880

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