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Bioinformatics identification of potentially involved microRNAs in Tibetan with gastric cancer based on microRNA profiling

OBJECTIVE: The incidence of gastric cancer is high in Chinese Tibetan. This study aimed to identify the differentially expressed microRNAs (miRNAs) and further explore their potential roles in Tibetan with gastric cancer so as to predict potential therapeutic targets. METHODS: A total of 10 Tibetan...

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Autores principales: Luo, Yushuang, Zhang, Chengwu, Tang, Feng, Zhao, Junhui, Shen, Cunfang, Wang, Cheng, Yu, Pengjie, Wang, Miaozhou, Li, Yan, Di, J. I., Chen, Rong, Rili, Ge
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4676900/
https://www.ncbi.nlm.nih.gov/pubmed/26692821
http://dx.doi.org/10.1186/s12935-015-0266-1
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author Luo, Yushuang
Zhang, Chengwu
Tang, Feng
Zhao, Junhui
Shen, Cunfang
Wang, Cheng
Yu, Pengjie
Wang, Miaozhou
Li, Yan
Di, J. I.
Chen, Rong
Rili, Ge
author_facet Luo, Yushuang
Zhang, Chengwu
Tang, Feng
Zhao, Junhui
Shen, Cunfang
Wang, Cheng
Yu, Pengjie
Wang, Miaozhou
Li, Yan
Di, J. I.
Chen, Rong
Rili, Ge
author_sort Luo, Yushuang
collection PubMed
description OBJECTIVE: The incidence of gastric cancer is high in Chinese Tibetan. This study aimed to identify the differentially expressed microRNAs (miRNAs) and further explore their potential roles in Tibetan with gastric cancer so as to predict potential therapeutic targets. METHODS: A total of 10 Tibetan patients (male:female = 6:4) with gastric cancer were enrolled for isolation of matched gastric cancer and adjacent non-cancerous tissue samples. Affymetrix GeneChip microRNA 3.0 Array was employed for detection of miRNA expression in samples. Differential expression analysis between two sample groups was analyzed using Limma package. Then, MultiMiR package was used to predict targets for miRNAs. Following, the target genes were put into DAVID (Database for Annotation, Visualization and Integrated Discovery) to identify the significant pathways of miRNAs. RESULTS: Using Limma package in R, a total of 27 differentially expressed miRNAs were screened out in gastric cancer, including 25 down-regulated (e.g. hsa-miR-148a-3p, hsa-miR-148b-3p and hsa-miR-363-3p) and 2 up-regulated miRNAs. According to multiMiR package, a number of 1445 target genes (e.g. Wnt1, KLF4 and S1PR1) of 13 differentially expressed miRNAs were screened out. Among those miRNAs, hsa-miR-148a-3p, hsa-miR-148b-3p and hsa-miR-363-3p were identified with the most target genes. Furthermore, three miRNAs were significantly enriched in numerous common cancer-related pathways, including “Wnt signaling pathway”, “MAPK signaling pathway” and “Jak-STAT signaling pathway”. CONCLUSIONS: The present study identified a downregulation and enrichment in cancer-related pathways of hsa-miR-148a-3p, hsa-miR-148b-3p and hsa-miR-363-3p in Tibetan with gastric cancer, which can be suggested as therapeutic targets. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12935-015-0266-1) contains supplementary material, which is available to authorized users.
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spelling pubmed-46769002015-12-13 Bioinformatics identification of potentially involved microRNAs in Tibetan with gastric cancer based on microRNA profiling Luo, Yushuang Zhang, Chengwu Tang, Feng Zhao, Junhui Shen, Cunfang Wang, Cheng Yu, Pengjie Wang, Miaozhou Li, Yan Di, J. I. Chen, Rong Rili, Ge Cancer Cell Int Primary Research OBJECTIVE: The incidence of gastric cancer is high in Chinese Tibetan. This study aimed to identify the differentially expressed microRNAs (miRNAs) and further explore their potential roles in Tibetan with gastric cancer so as to predict potential therapeutic targets. METHODS: A total of 10 Tibetan patients (male:female = 6:4) with gastric cancer were enrolled for isolation of matched gastric cancer and adjacent non-cancerous tissue samples. Affymetrix GeneChip microRNA 3.0 Array was employed for detection of miRNA expression in samples. Differential expression analysis between two sample groups was analyzed using Limma package. Then, MultiMiR package was used to predict targets for miRNAs. Following, the target genes were put into DAVID (Database for Annotation, Visualization and Integrated Discovery) to identify the significant pathways of miRNAs. RESULTS: Using Limma package in R, a total of 27 differentially expressed miRNAs were screened out in gastric cancer, including 25 down-regulated (e.g. hsa-miR-148a-3p, hsa-miR-148b-3p and hsa-miR-363-3p) and 2 up-regulated miRNAs. According to multiMiR package, a number of 1445 target genes (e.g. Wnt1, KLF4 and S1PR1) of 13 differentially expressed miRNAs were screened out. Among those miRNAs, hsa-miR-148a-3p, hsa-miR-148b-3p and hsa-miR-363-3p were identified with the most target genes. Furthermore, three miRNAs were significantly enriched in numerous common cancer-related pathways, including “Wnt signaling pathway”, “MAPK signaling pathway” and “Jak-STAT signaling pathway”. CONCLUSIONS: The present study identified a downregulation and enrichment in cancer-related pathways of hsa-miR-148a-3p, hsa-miR-148b-3p and hsa-miR-363-3p in Tibetan with gastric cancer, which can be suggested as therapeutic targets. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12935-015-0266-1) contains supplementary material, which is available to authorized users. BioMed Central 2015-12-12 /pmc/articles/PMC4676900/ /pubmed/26692821 http://dx.doi.org/10.1186/s12935-015-0266-1 Text en © Luo et al. 2015 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Primary Research
Luo, Yushuang
Zhang, Chengwu
Tang, Feng
Zhao, Junhui
Shen, Cunfang
Wang, Cheng
Yu, Pengjie
Wang, Miaozhou
Li, Yan
Di, J. I.
Chen, Rong
Rili, Ge
Bioinformatics identification of potentially involved microRNAs in Tibetan with gastric cancer based on microRNA profiling
title Bioinformatics identification of potentially involved microRNAs in Tibetan with gastric cancer based on microRNA profiling
title_full Bioinformatics identification of potentially involved microRNAs in Tibetan with gastric cancer based on microRNA profiling
title_fullStr Bioinformatics identification of potentially involved microRNAs in Tibetan with gastric cancer based on microRNA profiling
title_full_unstemmed Bioinformatics identification of potentially involved microRNAs in Tibetan with gastric cancer based on microRNA profiling
title_short Bioinformatics identification of potentially involved microRNAs in Tibetan with gastric cancer based on microRNA profiling
title_sort bioinformatics identification of potentially involved micrornas in tibetan with gastric cancer based on microrna profiling
topic Primary Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4676900/
https://www.ncbi.nlm.nih.gov/pubmed/26692821
http://dx.doi.org/10.1186/s12935-015-0266-1
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