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Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library
Thyroid nodules occur in about 60% of the population. A major challenge in thyroid nodule diagnosis is to distinguish between follicular adenoma (FA) and carcinoma (FTC). Here, we present a comprehensive thyroid spectral library covering five types of thyroid tissues. This library includes 121 960 p...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9019893/ https://www.ncbi.nlm.nih.gov/pubmed/35194950 http://dx.doi.org/10.1002/1878-0261.13198 |
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author | Sun, Yaoting Li, Lu Zhou, Yan Ge, Weigang Wang, He Wu, Runxin Liu, Wei Chen, Hao Xiao, Qi Cai, Xue Dong, Zhen Zhang, Fangfei Xiao, Junhong Wang, Guangzhi He, Yi Gao, Jinlong Kon, Oi Lian Iyer, Narayanan Gopalakrishna Guan, Haixia Teng, Xiaodong Zhu, Yi Zhao, Yongfu Guo, Tiannan |
author_facet | Sun, Yaoting Li, Lu Zhou, Yan Ge, Weigang Wang, He Wu, Runxin Liu, Wei Chen, Hao Xiao, Qi Cai, Xue Dong, Zhen Zhang, Fangfei Xiao, Junhong Wang, Guangzhi He, Yi Gao, Jinlong Kon, Oi Lian Iyer, Narayanan Gopalakrishna Guan, Haixia Teng, Xiaodong Zhu, Yi Zhao, Yongfu Guo, Tiannan |
author_sort | Sun, Yaoting |
collection | PubMed |
description | Thyroid nodules occur in about 60% of the population. A major challenge in thyroid nodule diagnosis is to distinguish between follicular adenoma (FA) and carcinoma (FTC). Here, we present a comprehensive thyroid spectral library covering five types of thyroid tissues. This library includes 121 960 peptides and 9941 protein groups. This spectral library can be used to quantify up to 7863 proteins from thyroid tissues, and can also be used to develop parallel reaction monitoring (PRM) assays for targeted protein quantification. Next, to stratify follicular thyroid tumours, we compared the proteomes of 24 FA and 22 FTC samples, and identified 204 differentially expressed proteins (DEPs). Our data suggest altered ferroptosis pathways in malignant follicular carcinoma. In all, 31 selected proteins effectively distinguished follicular tumours. Of those DEPs, nine proteins were further verified by PRM in an independent cohort of 18 FA and 19 FTC. Together, we present a comprehensive spectral library for DIA and targeted proteomics analysis of thyroid tissue specimens, and identified nine proteins that could potentially distinguish FA and FTC. |
format | Online Article Text |
id | pubmed-9019893 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-90198932022-04-25 Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library Sun, Yaoting Li, Lu Zhou, Yan Ge, Weigang Wang, He Wu, Runxin Liu, Wei Chen, Hao Xiao, Qi Cai, Xue Dong, Zhen Zhang, Fangfei Xiao, Junhong Wang, Guangzhi He, Yi Gao, Jinlong Kon, Oi Lian Iyer, Narayanan Gopalakrishna Guan, Haixia Teng, Xiaodong Zhu, Yi Zhao, Yongfu Guo, Tiannan Mol Oncol Research Articles Thyroid nodules occur in about 60% of the population. A major challenge in thyroid nodule diagnosis is to distinguish between follicular adenoma (FA) and carcinoma (FTC). Here, we present a comprehensive thyroid spectral library covering five types of thyroid tissues. This library includes 121 960 peptides and 9941 protein groups. This spectral library can be used to quantify up to 7863 proteins from thyroid tissues, and can also be used to develop parallel reaction monitoring (PRM) assays for targeted protein quantification. Next, to stratify follicular thyroid tumours, we compared the proteomes of 24 FA and 22 FTC samples, and identified 204 differentially expressed proteins (DEPs). Our data suggest altered ferroptosis pathways in malignant follicular carcinoma. In all, 31 selected proteins effectively distinguished follicular tumours. Of those DEPs, nine proteins were further verified by PRM in an independent cohort of 18 FA and 19 FTC. Together, we present a comprehensive spectral library for DIA and targeted proteomics analysis of thyroid tissue specimens, and identified nine proteins that could potentially distinguish FA and FTC. John Wiley and Sons Inc. 2022-03-12 2022-04 /pmc/articles/PMC9019893/ /pubmed/35194950 http://dx.doi.org/10.1002/1878-0261.13198 Text en © 2022 The Authors. Molecular Oncology published by John Wiley & Sons Ltd on behalf of Federation of European Biochemical Societies. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Articles Sun, Yaoting Li, Lu Zhou, Yan Ge, Weigang Wang, He Wu, Runxin Liu, Wei Chen, Hao Xiao, Qi Cai, Xue Dong, Zhen Zhang, Fangfei Xiao, Junhong Wang, Guangzhi He, Yi Gao, Jinlong Kon, Oi Lian Iyer, Narayanan Gopalakrishna Guan, Haixia Teng, Xiaodong Zhu, Yi Zhao, Yongfu Guo, Tiannan Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library |
title | Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library |
title_full | Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library |
title_fullStr | Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library |
title_full_unstemmed | Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library |
title_short | Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library |
title_sort | stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library |
topic | Research Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9019893/ https://www.ncbi.nlm.nih.gov/pubmed/35194950 http://dx.doi.org/10.1002/1878-0261.13198 |
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