Clinical biomarkers of pulmonary carcinoid tumors in never smokers via profiling miRNA and target mRNA

Bo Deng; Julian Molina; Marie C. Aubry; Zhifu Sun; Liang Wang; Bruce W. Eckloff; George Vasmatzis; Ming You; Eric D. Wieben; Jin Jen; Dennis A. Wigle; Ping Yang

doi:10.1186/2045-3701-4-35

Clinical biomarkers of pulmonary carcinoid tumors in never smokers via profiling miRNA and target mRNA

Bo Deng, Julian Molina, Marie C. Aubry, Zhifu Sun, Liang Wang, Bruce W. Eckloff, George Vasmatzis, Ming You, Eric D. Wieben, Jin Jen, Dennis A. Wigle, Ping Yang

Research output: Contribution to journal › Article › peer-review

8 Scopus citations

Abstract

Background: miRNAs play key regulatory roles in cellular pathological processes. We aimed to identify clinically meaningful biomarkers in pulmonary carcinoid tumors (PCTs), a member of neuroendocrine neoplasms, via profiling miRNAs and mRNAs.Results: From the total of 1145 miRNAs, we obtained 16 and 17 miRNAs that showed positive and negative fold changes (FCs, tumors vs. normal tissues) in the top 1% differentially expressed miRNAs, respectively. We uncovered the target genes that were predicted by at least two prediction tools and overlapped by at least one-half of the top miRNAs, which yielded 44 genes (FC<-2) and 56 genes (FC>2), respectively. Higher expressions of CREB5, PTPRB and COL4A3 predicted favorable disease free survival (Hazard ratio: 0.03, 0.19 and 0.36; P value: 0.03, 0.03 and 0.08). Additionally, 79 mutated genes have been found in nine PCTs where TP53 was the only repeated mutation.Conclusion: We identified that the expressions of three genes have clinical implications in PCTs. The biological functions of these biomarkers warrant further studies.

Original language	English (US)
Article number	35
Journal	Cell and Bioscience
Volume	4
Issue number	1
DOIs	https://doi.org/10.1186/2045-3701-4-35
State	Published - Jul 9 2014

Keywords

Carcinoid
Survival
mRNA
miRNA

ASJC Scopus subject areas

Biochemistry, Genetics and Molecular Biology(all)

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10.1186/2045-3701-4-35

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@article{109febfa9aed48fe9865005c0f775d9f,

title = "Clinical biomarkers of pulmonary carcinoid tumors in never smokers via profiling miRNA and target mRNA",

abstract = "Background: miRNAs play key regulatory roles in cellular pathological processes. We aimed to identify clinically meaningful biomarkers in pulmonary carcinoid tumors (PCTs), a member of neuroendocrine neoplasms, via profiling miRNAs and mRNAs.Results: From the total of 1145 miRNAs, we obtained 16 and 17 miRNAs that showed positive and negative fold changes (FCs, tumors vs. normal tissues) in the top 1% differentially expressed miRNAs, respectively. We uncovered the target genes that were predicted by at least two prediction tools and overlapped by at least one-half of the top miRNAs, which yielded 44 genes (FC<-2) and 56 genes (FC>2), respectively. Higher expressions of CREB5, PTPRB and COL4A3 predicted favorable disease free survival (Hazard ratio: 0.03, 0.19 and 0.36; P value: 0.03, 0.03 and 0.08). Additionally, 79 mutated genes have been found in nine PCTs where TP53 was the only repeated mutation.Conclusion: We identified that the expressions of three genes have clinical implications in PCTs. The biological functions of these biomarkers warrant further studies.",

keywords = "Carcinoid, Survival, mRNA, miRNA",

author = "Bo Deng and Julian Molina and Aubry, {Marie C.} and Zhifu Sun and Liang Wang and Eckloff, {Bruce W.} and George Vasmatzis and Ming You and Wieben, {Eric D.} and Jin Jen and Wigle, {Dennis A.} and Ping Yang",

note = "Funding Information: The authors thank Susan Ernst, M.A. and Dr. Mariza de Andrade for their technical and statistical assistance, respectively with the manuscript. The work was supported by U.S.A. National Institutes of Health grants (R01 CA80127 and R01 CA84354), Mayo Clinic Foundation, the National Natural Science Foundation of China (NSFC) (No. 81101782) and NSF project CQ CSTC (No. CSTC2011BB5020). Publisher Copyright: {\textcopyright} 2014 Deng et al.; licensee BioMed Central Ltd.",

year = "2014",

month = jul,

day = "9",

doi = "10.1186/2045-3701-4-35",

language = "English (US)",

volume = "4",

journal = "Cell and Bioscience",

issn = "2045-3701",

publisher = "Society of Chinese Bioscientists in America",

number = "1",

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TY - JOUR

T1 - Clinical biomarkers of pulmonary carcinoid tumors in never smokers via profiling miRNA and target mRNA

AU - Deng, Bo

AU - Molina, Julian

AU - Aubry, Marie C.

AU - Sun, Zhifu

AU - Wang, Liang

AU - Eckloff, Bruce W.

AU - Vasmatzis, George

AU - You, Ming

AU - Wieben, Eric D.

AU - Jen, Jin

AU - Wigle, Dennis A.

AU - Yang, Ping

N1 - Funding Information: The authors thank Susan Ernst, M.A. and Dr. Mariza de Andrade for their technical and statistical assistance, respectively with the manuscript. The work was supported by U.S.A. National Institutes of Health grants (R01 CA80127 and R01 CA84354), Mayo Clinic Foundation, the National Natural Science Foundation of China (NSFC) (No. 81101782) and NSF project CQ CSTC (No. CSTC2011BB5020). Publisher Copyright: © 2014 Deng et al.; licensee BioMed Central Ltd.

PY - 2014/7/9

Y1 - 2014/7/9

N2 - Background: miRNAs play key regulatory roles in cellular pathological processes. We aimed to identify clinically meaningful biomarkers in pulmonary carcinoid tumors (PCTs), a member of neuroendocrine neoplasms, via profiling miRNAs and mRNAs.Results: From the total of 1145 miRNAs, we obtained 16 and 17 miRNAs that showed positive and negative fold changes (FCs, tumors vs. normal tissues) in the top 1% differentially expressed miRNAs, respectively. We uncovered the target genes that were predicted by at least two prediction tools and overlapped by at least one-half of the top miRNAs, which yielded 44 genes (FC<-2) and 56 genes (FC>2), respectively. Higher expressions of CREB5, PTPRB and COL4A3 predicted favorable disease free survival (Hazard ratio: 0.03, 0.19 and 0.36; P value: 0.03, 0.03 and 0.08). Additionally, 79 mutated genes have been found in nine PCTs where TP53 was the only repeated mutation.Conclusion: We identified that the expressions of three genes have clinical implications in PCTs. The biological functions of these biomarkers warrant further studies.

AB - Background: miRNAs play key regulatory roles in cellular pathological processes. We aimed to identify clinically meaningful biomarkers in pulmonary carcinoid tumors (PCTs), a member of neuroendocrine neoplasms, via profiling miRNAs and mRNAs.Results: From the total of 1145 miRNAs, we obtained 16 and 17 miRNAs that showed positive and negative fold changes (FCs, tumors vs. normal tissues) in the top 1% differentially expressed miRNAs, respectively. We uncovered the target genes that were predicted by at least two prediction tools and overlapped by at least one-half of the top miRNAs, which yielded 44 genes (FC<-2) and 56 genes (FC>2), respectively. Higher expressions of CREB5, PTPRB and COL4A3 predicted favorable disease free survival (Hazard ratio: 0.03, 0.19 and 0.36; P value: 0.03, 0.03 and 0.08). Additionally, 79 mutated genes have been found in nine PCTs where TP53 was the only repeated mutation.Conclusion: We identified that the expressions of three genes have clinical implications in PCTs. The biological functions of these biomarkers warrant further studies.

KW - Carcinoid

KW - Survival

KW - mRNA

KW - miRNA

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SN - 2045-3701

VL - 4

JO - Cell and Bioscience

JF - Cell and Bioscience

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M1 - 35

ER -

Clinical biomarkers of pulmonary carcinoid tumors in never smokers via profiling miRNA and target mRNA

Abstract

Keywords

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