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lung cancer biomarker rna

Ping Shuai, Yu Zhou, Bo Gong, Zhilin Jiang, Chong Yang, Hongji Yang, Dingding Zhang, Shikai Zhu
BACKGROUND: Metastasis-associated lung adenocarcinoma transcript 1 (MALAT1), a newly discovered long intergenic noncoding RNA (lincRNA), has been reported to be aberrantly expressed in various cancers, and may serve as a novel potential biomarker for cancer prognosis. This meta-analysis was conducted to investigate the effects of MALAT1 on cancer prognosis and lymph node metastasis. METHODS: A quantitative meta-analysis was performed using a systematic search of PubMed, Medline and Web of Science databases to identify eligible papers on prognostic value of MALAT1 in cancers...
2016: SpringerPlus
Tatsuo Kido, Yun-Fai Chris Lau
Testis specific protein Y-encoded (TSPY) is a Y-located proto-oncogene predominantly expressed in normal male germ cells and various types of germ cell tumor. Significantly, TSPY is frequently expressed in somatic cancers including liver cancer but not in adjacent normal tissues, suggesting that ectopic TSPY expression could be associated with oncogenesis in non-germ cell cancers. Various studies demonstrated that TSPY expression promotes growth and proliferation in cancer cells; however, its relationship to other oncogenic events in TSPY-positive cancers remains unknown...
September 17, 2016: Journal of Genetics and Genomics, Yi Chuan Xue Bao
Lu Chen, Courtney A Kurtyka, Eric A Welsh, Jason I Rivera, Brienne E Engel, Teresita Muñoz-Antonia, Sean J Yoder, Steven A Eschrich, Ben C Creelan, Alberto A Chiappori, Jhanelle E Gray, Jose Luis Ramirez, Rafael Rosell, Matthew B Schabath, Eric B Haura, Dung-Tsa Chen, W Douglas Cress
Clinicians routinely prescribe adjuvant chemotherapy (ACT) for resected non-small cell lung cancer patients. However, ACT only improves five-year disease-free survival in stage I-III non-small cell lung cancer by 5-15%, with most patients deriving no benefit. Herein, deregulation of the E2F pathway was explored as a biomarker in lung adenocarcinoma patients. An E2F pathway scoring system, based on 74 E2F-regulated genes, was trained for RNA from two platforms: fresh-frozen (FF) or formalin-fixed paraffin-embedded (FFPE) tissues...
October 14, 2016: Oncotarget
Bernd Schmidt, Grit Rehbein, Michael Fleischhacker
Extracellular miRNAs cannot only be isolated from different body fluids like plasma and serum, but also from bronchial lavage samples (BL) obtained by bronchoscopy. Alterations in the expression of microRNAs might be useful for a discrimination of lung cancer patients from patients with a benign lung disease. We profiled extracellular microRNAs from three BL pools of lung cancer patients and three BL pools from a control group (patients with a benign lung disease) with TaqMan MicroRNA Array cards. For the confirmation of these results, we analyzed a panel of eight miRNAs in a qRT-PCR of the BL of 30 different lung cancer and non-cancerous patients...
2016: Advances in Experimental Medicine and Biology
Yongyong Xi, Liang Wang, Chengcao Sun, Cuili Yang, Feng Zhang, Dejia Li
Accumulating evidences suggest that lots of microRNAs (miRNAs) play crucial roles in (patho-)physiological processes of lung cancer, including metastasis, drug-resistance or tumorigenesis. They mediate the progression of cell growth, migration and invasion by regulating the expression of special genes. MiRNA expression patterns could also serve as diagnostic/prognostic biomarkers. Cancer therapies mediated by miRNAs remain tremendous potential and challenges. Our previous small RNA-seq assay found that the novel miR-9501 was down-regulated in lung cancer tissues compared with adjacent non-cancer tissues...
November 2016: Medical Oncology
Hui Ding, Xianhua Gui, Xubo Lin, Ruhua Chen, Tieliang Ma, Yunlu Sheng, Hourong Cai, Yan Fen
The purpose of this study was to examine the MAC30 expression in non-small cell lung cancer and to evaluate its prognostic value on therapeutic response in patients with non-small cell lung cancer receiving postoperative chemotherapy. Among a total of 218 retrospective Chinese patients with non-small cell lung cancer, 164 patients receiving adjuvant chemotherapy were enrolled in this study. Real-time polymerase chain reaction was performed to confirm the expression of MAC30 messenger RNA in 32 cases of non-small cell lung cancer tumors with the corresponding nontumor lung tissues...
September 29, 2016: Technology in Cancer Research & Treatment
Chengli Zhang, Manchao Kuang, Meng Li, Lin Feng, Kaitai Zhang, Shujun Cheng
Structural maintenance of chromosome 4 (SMC4) is a core subunit of condensin complexes that mainly contributes to chromosome condensation and segregation. Our previous study demonstrated that the gene expression profile during lung development is of great values for the study of lung cancer. In this study, we identified SMC4 through co-expression network analysis and clique percolation clustering using genes that constant changes during four stages of lung development. Gene ontology and KEGG pathway enrichment analysis demonstrated that SMC4 is closely related to cell cycle, cell adhesion, and RNA processing in lung development and carcinogenesis...
September 30, 2016: Scientific Reports
Kazuya Takamochi, Hiroko Ohmiya, Masayoshi Itoh, Kaoru Mogushi, Tsuyoshi Saito, Kieko Hara, Keiko Mitani, Yasushi Kogo, Yasunari Yamanaka, Jun Kawai, Yoshihide Hayashizaki, Shiaki Oh, Kenji Suzuki, Hideya Kawaji
BACKGROUND: Targeted therapies based on the molecular and histological features of cancer types are becoming standard practice. The most effective regimen in lung cancers is different between squamous cell carcinoma (SCC) and adenocarcinoma (AD). Therefore a precise diagnosis is crucial, but this has been difficult, particularly for poorly differentiated SCC (PDSCC) and AD without a lepidic growth component (non-lepidic AD). Biomarkers enabling a precise diagnosis are therefore urgently needed...
September 29, 2016: BMC Cancer
Qi Sun, Run Shi, Xin Wang, Demin Li, Haiwei Wu, Binhui Ren
BACKGROUND: Non-small cell lung cancer (NSCLC) has become the leading cause of cancer-related deaths. It is therefore urgent that we identify new molecular targets to help cure NSCLC patients. Here, we identified ZIC5 as a potential novel oncogene. METHODS: We detected the expression of ZIC5 in tumor and normal tissues of NSCLC patients using quantitative real-time PCR and explored its clinical appearance. We then knocked down ZIC5 to observe changes in NSCLC cell proliferation and metastasis...
October 21, 2016: Biochemical and Biophysical Research Communications
Sander Bins, Geert A Cirkel, Christa G Gadellaa-van Hooijdonk, Fleur Weeber, Isaac J Nijman, Annette H Bruggink, Paul J van Diest, Stefan M Willems, Wouter B Veldhuis, Michel M van den Heuvel, Rob J de Knegt, Marco J Koudijs, Erik van Werkhoven, Ron H J Mathijssen, Edwin Cuppen, Stefan Sleijfer, Jan H M Schellens, Emile E Voest, Marlies H G Langenberg, Maja J A de Jonge, Neeltje Steeghs, Martijn P Lolkema
BACKGROUND: The discovery of novel biomarkers that predict treatment response in advanced cancer patients requires acquisition of high-quality tumor samples. As cancer evolves over time, tissue is ideally obtained before the start of each treatment. Preferably, samples are freshly frozen to allow analysis by next-generation DNA/RNA sequencing (NGS) but also for making other emerging systematic techniques such as proteomics and metabolomics possible. Here, we describe the first 469 image-guided biopsies collected in a large collaboration in The Netherlands (Center for Personalized Cancer Treatment) and show the utility of these specimens for NGS analysis...
September 23, 2016: Oncologist
Xiaoguang Zhao, Meirong Liu, Jingjing Zhang, Ruisheng Zhang, Qing Zhang, Xiaofeng Tan
The long noncoding CPS1 intronic transcript 1 (LncRNACPS1-IT1) is a recently identified tumor suppressor in the LncRNA family of proteins. Whether this LncRNA plays any functional role in solid tumors remains largely unknown. The present study aimed to investigate the role of LncRNA CPS1-IT1 in human lung cancer. Expression of LncRNA CPS1-IT1 was initially assessed in human lung cancer and in a series of lung cancer cell lines. The effects of CPS1-IT1 overexpression on cell proliferation, migration, and invasion were examined in lung cancer cell lines A549 and 95D...
September 22, 2016: Oncology Research
Zhiyun Gong, Renquan Lu, Suhong Xie, Minglei Jiang, Kai Liu, Ran Xiao, Jiabin Shen, Yanchun Wang, Lin Guo
Pro-gastrin releasing peptide (ProGRP) plays the role of oncogene in small cell lung cancer (SCLC). In this study, we aim to explore the biological function of ProGRP in SCLC cells and its potential mechanism. Expression of ProGRP in SCLC tissues and cell lines were detected by immunohistochemistry and western blot analysis, respectively. The transduced cell lines with ProGRP down-regulation were established using RNA interference technology. Cell viability, cologenic, apoptosis-associated assay and the biomarker levels determination for cell supernatant were performed in the transduced cells to elucidate the biological functions and mechanisms of ProGRP in SCLC cells...
October 14, 2016: Biochemical and Biophysical Research Communications
Jyoti Malhotra, Tim Waterboer, Michael Pawlita, Angelika Michel, Qiuyin Cai, Wei Zheng, Yu-Tang Gao, Qing Lan, Nathaniel Rothman, Hilde Langseth, Tom K Grimsrud, Jian-Min Yuan, Woon-Puay Koh, Renwei Wang, Alan A Arslan, Anne Zeleniuch-Jacquotte, Paolo Boffetta
BACKGROUND: Lung cancer in never smokers is a significant contributor of cancer mortality worldwide. In this analysis, we explored the role of nine human polyomaviruses, including JC virus (JCV), BK virus (BKV) and Merkel cell virus (MCV), in lung cancer development in never smokers as there are data to support that polyomaviruses are potentially carcinogenic in the human lung. METHODS: We used multiplex serology to detect serum antibodies to polyomaviruses in a nested case-control design combining lung cancer cases and controls from four cohort studies - NYU Women's Health Study (NYU-WHS), Janus Serum Bank, Shanghai Women's Health Study and Singapore Chinese Health Study (SCHS)...
September 15, 2016: British Journal of Cancer
Wenjun Liang, Tangfeng Lv, Xuefei Shi, Hongbing Liu, Qingqing Zhu, Junli Zeng, Wen Yang, Jie Yin, Yong Song
The recently discovered long noncoding RNAs have the potential to regulate many biological processes, which are aberrantly expressed in many tumor types. Our previous study showed that the long noncoding RNA-growth arrest-specific transcript 5 (GAS5) was decreased in lung cancer tissue, which contributed to the proliferation and apoptosis of nonsmall cell lung cancer (NSCLC). GAS5 was also associated with the prognosis of lung cancer patients. These results suggest that GAS5 may represent a novel prognostic indicator and a target for gene therapy in NSCLC...
September 2016: Medicine (Baltimore)
Yijun Tian, Kongming Wu, Qian Liu, Na Han, Li Zhang, Qian Chu, Yuan Chen
BACKGROUND: The objective of this study was to evaluate the effect of platinum-based drugs on nuclear-factor erythroid2 like 2 (NRF2) signaling in non-small cell lung cancer cell lines with or without Kelch-like ECH-associated protein 1 (KEAP1) mutations and to determine the role of NRF2 and KEAP1 on platinum-based drug treatment. METHODS: We used real-time PCR to assess relative mRNA expression and used western blotting and immunofluorescence assays to assess protein expression...
2016: Journal of Hematology & Oncology
Brandon S Sheffield, Regan Fulton, Steve E Kalloger, Katy Milne, Georgia Geller, Martin Jones, Celine Jacquemont, Susanna Zachara, Eric Zhao, Erin Pleasance, Janessa Laskin, Steven J M Jones, Marco A Marra, Stephen Yip, Brad H Nelson, Allen M Gown, Cheryl Ho, Diana N Ionescu
Inhibitors of the programmed cell death 1 (PD-1) signaling axis have recently demonstrated efficacy and are rapidly being incorporated into the treatment of non-small cell lung cancers (NSCLCs). Despite clear benefits to certain patients, the association of these responses with a predictive biomarker remains uncertain. Several different biomarkers have been proposed, with differing results and conclusions. This study compares multiple methods of biomarker testing for treatment of NSCLCs with PD1-axis inhibitors...
October 2016: Journal of Histochemistry and Cytochemistry: Official Journal of the Histochemistry Society
Charles J Labuzzetta, Margaret L Antonio, Patricia M Watson, Robert C Wilson, Lauren A Laboissonniere, Jeffrey M Trimarchi, Baris Genc, P Hande Ozdinler, Dennis K Watson, Paul E Anderson
MOTIVATION: A central task of bioinformatics is to develop sensitive and specific means of providing medical prognoses from biomarker patterns. Common methods to predict phenotypes in RNA-Seq datasets utilize machine learning algorithms trained via gene expression. Isoforms, however, generated from alternative splicing, may provide a novel and complementary set of transcripts for phenotype prediction. In contrast to gene expression, the number of isoforms increases significantly due to numerous alternative splicing patterns, resulting in a prioritization problem for many machine learning algorithms...
September 1, 2016: Bioinformatics
Dario Nieri, Tommaso Neri, Silvia Petrini, Barbara Vagaggini, Pierluigi Paggiaro, Alessandro Celi
Cell-derived microparticles are small (0.1-1 μm) vesicles shed by most eukaryotic cells upon activation or during apoptosis. Microparticles carry on their surface, and enclose within their cytoplasm, molecules derived from the parental cell, including proteins, DNA, RNA, microRNA and phospholipids. Microparticles are now considered functional units that represent a disseminated storage pool of bioactive effectors and participate both in the maintenance of homeostasis and in the pathogenesis of diseases. The mechanisms involved in microparticle generation include intracellular calcium mobilisation, cytoskeleton rearrangement, kinase phosphorylation and activation of the nuclear factor-κB...
September 2016: European Respiratory Review: An Official Journal of the European Respiratory Society
A Zou, R Liu, X Wu
Ovarian cancer is a gynecological malignancy worldwide. Long non-coding RNAs (lncRNAs) research is an emerging area in cancer studies, but little is known about lncRNA metastasis associated lung adenocarcinoma transcript 1 (MALAT1) in ovarian cancer. This study aims to investigate expression and roles of MALAT1 in ovarian cancer. MALAT1 level was detected in 20 ovarian cancer patients. MALAT1 expression was promoted by transforming growth factor β1 (TGFB1) treatment and inhibited by siRNA transfection in human ovarian cancer cell line SK-OV-3, after which changes in cell viability, proliferation, migration and invasion were analyzed by MTT, colony formation and Transwell assays...
August 27, 2016: Neoplasma
Bo Li, Eric Severson, Jean-Christophe Pignon, Haoquan Zhao, Taiwen Li, Jesse Novak, Peng Jiang, Hui Shen, Jon C Aster, Scott Rodig, Sabina Signoretti, Jun S Liu, X Shirley Liu
BACKGROUND: Understanding the interactions between tumor and the host immune system is critical to finding prognostic biomarkers, reducing drug resistance, and developing new therapies. Novel computational methods are needed to estimate tumor-infiltrating immune cells and understand tumor-immune interactions in cancers. RESULTS: We analyze tumor-infiltrating immune cells in over 10,000 RNA-seq samples across 23 cancer types from The Cancer Genome Atlas (TCGA). Our computationally inferred immune infiltrates associate much more strongly with patient clinical features, viral infection status, and cancer genetic alterations than other computational approaches...
2016: Genome Biology
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