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Transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer
AIM: To identify novel candidate genes for pancreatic cancer. METHODS: We performed a transcriptome‐wide association study (TWAS) analysis of pancreatic cancer (PC). GWAS summary data were driven from the published studies of PC, totally involving 558 542 SNPs in 1896 individuals with pancreatic can...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247024/ https://www.ncbi.nlm.nih.gov/pubmed/30334361 http://dx.doi.org/10.1002/cam4.1836 |
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author | Gong, Liuyun Zhang, Dan Lei, Yutiantian Qian, Yuanjie Tan, Xinyue Han, Suxia |
author_facet | Gong, Liuyun Zhang, Dan Lei, Yutiantian Qian, Yuanjie Tan, Xinyue Han, Suxia |
author_sort | Gong, Liuyun |
collection | PubMed |
description | AIM: To identify novel candidate genes for pancreatic cancer. METHODS: We performed a transcriptome‐wide association study (TWAS) analysis of pancreatic cancer (PC). GWAS summary data were driven from the published studies of PC, totally involving 558 542 SNPs in 1896 individuals with pancreatic cancer and 1939 healthy controls. FUSION software was applied to the PC GWAS summary data for tissue‐related TWAS analysis, including whole blood, peripheral blood, adipose, and pancreas. The functional relevance of identified genes with PC was further validated by Oncomine, STRING, and CluePedia tool. RESULTS: Transcriptome‐wide association study analysis identified 19 genes significantly associated with PC, such as LRP5L (P value = 5.21 × 10(‐5)), SOX4 (P value = 3.2 × 10(‐4)), and EGLN3 (P value = 6.2 × 10(‐3)). KEGG pathway enrichment analysis detected several PC‐associated pathways, such as One carbon pool by folate (P value = 1.60 × 10(‐16)), Cell cycle (P value = 1.27 × 10(‐7)), TGF‐beta signaling pathway (P value = 4.64 × 10(‐6)). Further comparing the 19 genes with previously identified overexpressed genes in PC patients found one overlapped gene SOX4. CONCLUSION: We identified some novel candidate genes and pathways associated with PC. Our results provide novel clues for the genetic mechanism studies of pancreatic cancer. |
format | Online Article Text |
id | pubmed-6247024 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-62470242018-11-26 Transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer Gong, Liuyun Zhang, Dan Lei, Yutiantian Qian, Yuanjie Tan, Xinyue Han, Suxia Cancer Med Cancer Biology AIM: To identify novel candidate genes for pancreatic cancer. METHODS: We performed a transcriptome‐wide association study (TWAS) analysis of pancreatic cancer (PC). GWAS summary data were driven from the published studies of PC, totally involving 558 542 SNPs in 1896 individuals with pancreatic cancer and 1939 healthy controls. FUSION software was applied to the PC GWAS summary data for tissue‐related TWAS analysis, including whole blood, peripheral blood, adipose, and pancreas. The functional relevance of identified genes with PC was further validated by Oncomine, STRING, and CluePedia tool. RESULTS: Transcriptome‐wide association study analysis identified 19 genes significantly associated with PC, such as LRP5L (P value = 5.21 × 10(‐5)), SOX4 (P value = 3.2 × 10(‐4)), and EGLN3 (P value = 6.2 × 10(‐3)). KEGG pathway enrichment analysis detected several PC‐associated pathways, such as One carbon pool by folate (P value = 1.60 × 10(‐16)), Cell cycle (P value = 1.27 × 10(‐7)), TGF‐beta signaling pathway (P value = 4.64 × 10(‐6)). Further comparing the 19 genes with previously identified overexpressed genes in PC patients found one overlapped gene SOX4. CONCLUSION: We identified some novel candidate genes and pathways associated with PC. Our results provide novel clues for the genetic mechanism studies of pancreatic cancer. John Wiley and Sons Inc. 2018-10-18 /pmc/articles/PMC6247024/ /pubmed/30334361 http://dx.doi.org/10.1002/cam4.1836 Text en © 2018 The Authors. Cancer Medicine published by John Wiley & Sons Ltd. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Cancer Biology Gong, Liuyun Zhang, Dan Lei, Yutiantian Qian, Yuanjie Tan, Xinyue Han, Suxia Transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer |
title | Transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer |
title_full | Transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer |
title_fullStr | Transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer |
title_full_unstemmed | Transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer |
title_short | Transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer |
title_sort | transcriptome‐wide association study identifies multiple genes and pathways associated with pancreatic cancer |
topic | Cancer Biology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247024/ https://www.ncbi.nlm.nih.gov/pubmed/30334361 http://dx.doi.org/10.1002/cam4.1836 |
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