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https://www.readbyqxmd.com/read/29777742/a-functional-glycoproteomics-approach-identifies-cd13-as-a-novel-e-selectin-ligand-in-breast-cancer
#1
M A Carrascal, M Silva, J A Ferreira, R Azevedo, D Ferreira, A M N Silva, D Ligeiro, L L Santos, R Sackstein, P A Videira
BACKGROUND: The glycan moieties sialyl-Lewis-X and/or -A (sLeX/A ) are the primary ligands for E-selectin, regulating subsequent tumor cell extravasation into distant organs. However, the nature of the glycoprotein scaffolds displaying these glycans in breast cancer remains unclear and constitutes the focus of the present investigation. METHODS: We isolated glycoproteins that bind E-selectin from the CF1_T breast cancer cell line, derived from a patient with ductal carcinoma...
May 16, 2018: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29777697/circrna_0084043-promote-malignant-melanoma-progression-via-mir-153-3p-snail-axis
#2
Wenkang Luan, Yan Shi, Zhou Zhou, Yun Xia, Jinlong Wang
Circular RNAs (circRNAs) has been found to play an important role in the regulation of multiple diseases, and participate in cancer development. However, the role of circRNA in malignant melanoma has not been reported. In this study, human circRNA microarray was used to screen the dysregulated circRNA in melanoma. We found that circRNA_0084043 was significantly up-regulated in melanoma tissue, and the result was replicated in a larger sample size. High circRNA_0084043 expression was an independent risk factor of overall survival in melanoma patients...
May 16, 2018: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29776332/telnet-a-database-for-human-and-yeast-genes-involved-in-telomere-maintenance
#3
Delia M Braun, Inn Chung, Nick Kepper, Katharina I Deeg, Karsten Rippe
BACKGROUND: The ends of linear chromosomes, the telomeres, comprise repetitive DNA sequences in complex with proteins that protects them from being processed by the DNA repair machinery. Cancer cells need to counteract the shortening of telomere repeats during replication for their unlimited proliferation by reactivating the reverse transcriptase telomerase or by using the alternative lengthening of telomeres (ALT) pathway. The different telomere maintenance (TM) mechanisms appear to involve hundreds of proteins but their telomere repeat length related activities are only partly understood...
May 18, 2018: BMC Genetics
https://www.readbyqxmd.com/read/29775159/bioinformatics-functional-analysis-of-let-7a-mir-34a-and-mir-199a-b-reveals-novel-insights-into-immune-system-pathways-and-cancer-hallmarks-for-hepatocellular-carcinoma
#4
Bangly Soliman, Ahmed Salem, Mohamed Ghazy, Nourhan Abu-Shahba, Mahmoud El Hefnawi
Let-7a, miR-34a, and miR-199 a/b have gained a great attention as master regulators for cellular processes. In particular, these three micro-RNAs act as potential onco-suppressors for hepatocellular carcinoma. Bioinformatics can reveal the functionality of these micro-RNAs through target prediction and functional annotation analysis. In the current study, in silico analysis using innovative servers (miRror Suite, DAVID, miRGator V3.0, GeneTrail) has demonstrated the combinatorial and the individual target genes of these micro-RNAs and further explored their roles in hepatocellular carcinoma progression...
May 2018: Tumour Biology: the Journal of the International Society for Oncodevelopmental Biology and Medicine
https://www.readbyqxmd.com/read/29774118/proteomic-profiling-of-skeletal-and-cardiac-muscle-in-cancer-cachexia-alterations-in-sarcomeric-and-mitochondrial-protein-expression
#5
Angie M Y Shum, Anne Poljak, Nicholas L Bentley, Nigel Turner, Timothy C Tan, Patsie Polly
Background: Cancer cachexia is observed in more than 50% of advanced cancer patients, and impairs quality of life and prognosis. A variety of pathways are likely to be dysregulated. Hence, a broad-spectrum understanding of the disease process is best achieved by a discovery based approach such as proteomics. Results: More than 300 proteins were identified with > 95% confidence in correct sequence identification, of which 5-10% were significantly differentially expressed in cachectic tissues ( p -value of 0...
April 24, 2018: Oncotarget
https://www.readbyqxmd.com/read/29774014/oral-microbiota-community-dynamics-associated-with-oral-squamous-cell-carcinoma-staging
#6
Chia-Yu Yang, Yuan-Ming Yeh, Hai-Ying Yu, Chia-Yin Chin, Chia-Wei Hsu, Hsuan Liu, Po-Jung Huang, Song-Nian Hu, Chun-Ta Liao, Kai-Ping Chang, Yu-Liang Chang
Oral squamous cell carcinoma (OSCC) is a highly aggressive cancer and the fourth leading malignancy among males in Taiwan. Some pathogenic bacteria are associated with periodontitis and oral cancer. However, the comprehensive profile of the oral microbiome during the cancer's progression from the early stage to the late stage is still unclear. We profiled the oral microbiota and identified bacteria biomarkers associated with OSCC. The microbiota of an oral rinse from 51 healthy individuals and 197 OSCC patients at different stages were investigated using 16S rRNA V3V4 amplicon sequencing, followed by bioinformatics and statistical analyses...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29773494/plin3-is-up-regulated-and-correlates-with-poor-prognosis-in-clear-cell-renal-cell-carcinoma
#7
Keshan Wang, HaiLong Ruan, ZhengShuai Song, Qi Cao, Lin Bao, Di Liu, TianBo Xu, HaiBing Xiao, Cheng Wang, Gong Cheng, JunWei Tong, XianGui Meng, HongMei Yang, Ke Chen, XiaoPing Zhang
BACKGROUND: PLIN3, one of the members of the perilipin family, has been reported to be involved in the formation and accumulation of lipid droplets. However, the expression levels and diagnostic and prognostic value of PLIN3 in renal cell carcinoma (RCC) remain unclear. METHODS: Bioinformatic analysis was used to assess the levels of PLIN3 and the correlation between PLIN3 levels and clinicopathological parameters in renal cancer. The expression levels of PLIN3 were determined in human RCC tissues and cell lines by western blot, immunofluorescence and immunohistochemistry assays...
May 14, 2018: Urologic Oncology
https://www.readbyqxmd.com/read/29773107/-over-expression-of-mir-151a-3p-inhibits-proliferation-and-migration-of-pc-3-prostate-cancer-cells
#8
Yi Zhang, Tongtong Hao, Han Zhang, Pengtao Wei, Xiaohui Li
Objective To observe the effect of microRNA-151a-3p (miR-151a-3p) up-regulation on the proliferation and migration of prostate cancer cells and explore the possible molecular mechanism. Methods The expression of miR-151a-3p in PC-3M, C4-2B, 22RV1, DU-145, PC-3, LNCap human prostate cancer cells and RWPE-1 human normal prostate epithelial cells was detected by real-time fluorescence quantitative PCR. PC-3 cells with the lowest expression of miR-151a-3p were used for subsequent experiments. Bioinformatics and dual-luciferase reporter assay were performed to predict and test potential target genes of miR-151a-3p...
March 2018: Xi Bao Yu Fen Zi Mian Yi Xue za Zhi, Chinese Journal of Cellular and Molecular Immunology
https://www.readbyqxmd.com/read/29772434/the-interaction-of-long-non-coding-rna-miat-and-mir-133-play-a-role-in-the-proliferation-and-metastasis-of-pancreatic-carcinoma
#9
Ting-Fu Li, Jian Liu, Shi-Jie Fu
Pancreatic cancer (PC) is one of the most aggressive malignancies in humans. Despite advances in early detection and treatment of PC, the prognosis is still limited. LncRNA myocardial infarction-associated transcript (MIAT) is found abnormally expressed in a variety of cancers. However, the role of MIAT in PC is still unknown. This study aimed to explore whether MIAT was related to the progression of PC and the underlying mechanism. Bioinformatics analysis and luciferase reporter assay validated that miR-133 may target MIAT 3'-UTR...
May 14, 2018: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/29771422/has-mir-196a-2-is-up-regulated-and-acts-as-an-independent-unfavorable-prognostic-factor-in-thyroid-carcinoma
#10
Y-T Fu, D-Q Zhang, L Zhou, S-J Li, H Sun, X-L Liu, H-B Zheng
OBJECTIVE: To identify the role of hsa-miR-196a-2 in thyroid cancer by bioinformatics analysis. MATERIALS AND METHODS: The expression profiles of thyroid cancer was download from TCGA. The dysregulated microRNAs were obtained by edger R package. Then, the prognostic data were analyzed by K-M plot. The difference between different groups was analyzed by the t-test. At last, the biological processes of has-miR-196a-2 were obtained with GSEA. RESULTS: In this study, we found that has-miR-196a-2 was upregulated in thyroid carcinoma by analyzing the TCGA database, which was inversely proportional to the prognosis of patients with thyroid carcinoma...
May 2018: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29771420/imp3-promotes-tnbc-stem-cell-property-through-mirna-34a-regulation
#11
Q-D Huang, S-R Zheng, Y-J Cai, D-L Chen, Y-Y Shen, C-Q Lin, X-Q Hu, X-H Wang, H Shi, G-L Guo
OBJECTIVE: To explore the expression and function of insulin-like growth factor II (IGFII) mRNA binding protein (IMP3) in the Triple Negative Breast Cancer (TNBC). MATERIALS AND METHODS: According to previously reported gene expression array, we found that IMP3 had significantly higher expression in the CD44+CD24-ESA+ cell cluster, tumor initiating cell or cancer stem cell (CSCs), compared to other tumor cells. Based on the GEO database (GEO accession No. GSE6883), we detected the mRNA levels of IMP 1,2 and 3 by quantitative polymerase chain reaction (q-PCR) in CD44+CD24-ESA+ cell cluster and other breast tumor cell clusters...
May 2018: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29771419/mir-1275-promotes-non-small-cell-lung-cancer-cell-proliferation-and-metastasis-by-regulating-lzts3-expression
#12
J He, L Yu, C-M Wang, X-F Zhou
OBJECTIVE: To detect the expressions of micro-ribonucleic acid 1275 (miR-1275) in non-small cell lung cancer (NSCLC) tissues and cells, analyze the correlations of the expression of miR-1275 with the clinicopathological features of NSCLC, and explore its biological function and potential molecular mechanism. PATIENTS AND METHODS: Quantitative Real-time polymerase chain reaction (qRT-PCR) was used to detect the relative expression levels of miR-1275 in NSCLC tissues and cells...
May 2018: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29771290/single-cell-clustering-based-on-cell-pair-differentiability-correlation-and-variance-analysis
#13
Hao Jiang, Lydia Sohn, Haiyan Huang, Luonan Chen
Motivation: The rapid advancement of single cell technologies has shed new light on the complex mechanisms of cellular heterogeneity. Identification of intercellular transcriptomic heterogeneity is one of the most critical tasks in single-cell RNA-sequencing studies. Results: We propose a new cell similarity measure based on cell-pair differentiability correlation, which is derived from gene differential pattern among all cell pairs. Through plugging into the framework of hierarchical clustering with this new measure, we further develop a variance analysis based clustering algorithm 'Corr' that can determine cluster number automatically and identify cell types accurately...
May 16, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29771280/identification-and-characterization-of-moonlighting-long-non-coding-rnas-based-on-rna-and-protein-interactome
#14
Lixin Cheng, Kwong-Sak Leung
Motivation: Moonlighting proteins are a class of proteins having multiple distinct functions, which play essential roles in a variety of cellular and enzymatic functioning systems. Although there have long been calls for computational algorithms for the identification of moonlighting proteins, research on approaches to identify moonlighting long non-coding RNAs (lncRNAs) has never been undertaken. Here, we introduce a novel methodology, MoonFinder, for the identification of moonlighting lncRNAs...
May 16, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29767255/bioinformatic-analyses-reveal-the-key-pathways-and-genes-in-the-cxcr4-mediated-mesenchymal-subtype-of-glioblastoma
#15
Li Yi, Luqing Tong, Tao Li, Long Hai, Iruni Roshanie Abeysekera, Zhennan Tao, Haiwen Ma, Peidong Liu, Yang Xie, Jiabo Li, Feng Yuan, Shengping Yu, Xuejun Yang
Glioblastoma multiforme (GBM) is one of the most lethal types of tumour, despite severe treatment methods. The Cancer Genome Atlas has categorised GBMs into proneural, neural, classical and mesenchymal subtypes; the mesenchymal subgroup has the worst prognosis. CXCR4 has been reported as selectively overexpressed in the mesenchymal subtype and positively associated with MES markers. However, to the best of our knowledge the underlying mechanisms regarding how CXCR4 may regulate mesenchymal GBM are still unknown...
May 11, 2018: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29767254/microrna%C3%A2-433-reduces-cell-proliferation-and-invasion-in-non%C3%A2-small-cell-lung-cancer-via-directly-targeting-e2f-transcription-factor-3
#16
Nian Liu, Zhiguang Liu, Weidong Zhang, Yang Li, Jun Cao, Huan Yang, Xiuying Li
MicroRNAs (miRNA/miRs) have been associated with the initiation and progression of non‑small‑cell lung cancer (NSCLC). Hence, a comprehensive understanding of the association between dysregulated miRNAs and NSCLC may contribute to the identification of novel therapeutic methods for patients with NSCLC. MiRNA‑433 (miR‑433) has been reported to be dysregulated in numerous types of human cancers; however, its expression pattern, biological roles and associated mechanisms in NSCLC require further investigation...
May 14, 2018: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29764865/hp1%C3%AE-promotes-lung-adenocarcinoma-by-downregulating-the-transcription-repressive-regulators-ncor2-and-zbtb7a
#17
Hunain Alam, Na Li, Shilpa S Dhar, Sarah J Wu, Jie Lv, Kaifu Chen, Elsa R Flores, Laura Baseler, Min Gyu Lee
Lung adenocarcinoma (LUAD) is a major form of lung cancer, which is the leading cause of cancer death. Histone methylation reader proteins mediate the effect of histone methylation, a hallmark of epigenetic and transcriptional regulation of gene expression. However, their roles in LUAD are poorly understood. Here our bioinformatic screening and analysis in search of an LUAD-promoting histone methylation reader protein show that heterochromatin protein 1γ (HP1γ; also called CBX3) is among the most frequently overexpressed and amplified histone reader proteins in human LUAD, and that high HP1γ mRNA levels are associated with poor prognosis in LUAD patients...
May 15, 2018: Cancer Research
https://www.readbyqxmd.com/read/29764446/comprehensive-and-integrative-analysis-identifies-microrna-106-as-a-novel-non-invasive-biomarker-for-detection-of-gastric-cancer
#18
Qiliang Peng, Yi Shen, Kaisu Lin, Li Zou, Yuntian Shen, Yaqun Zhu
BACKGROUND: Recently, accumulating evidences have revealed that microRNA-106 (miR-106) may serve as a non-invasive and cost-effective biomarker in gastric cancer (GC) detection. However, inconsistent results have prevented its application to clinical practice. METHODS: As a result of this, a comprehensive meta-analysis was conducted to evaluate the diagnostic performance of miR-106 alone and miR-106-related combination markers for GC detection. Meanwhile, an integrative bioinformatics analysis was performed to explore the function of miR-106 at the systems biology level...
May 15, 2018: Journal of Translational Medicine
https://www.readbyqxmd.com/read/29763928/identification-and-verification-of-candidate-genes-regulating-neural-stem-cells-behavior-under-hypoxia
#19
Zhongju Shi, Zhijian Wei, Jiahe Li, Shiyang Yuan, Bin Pan, Fujiang Cao, Hengxing Zhou, Yan Zhang, Yao Wang, Shiwei Sun, Xiaohong Kong, Shiqing Feng
BACKGROUND/AIMS: Neural stem cells (NSCs) reside in a hypoxic environment, and hypoxia plays an important role in their development and differentiation. This study aimed to explore the underlying mechanisms by which hypoxia affects NSC behavior. METHODS: In the current study, we downloaded the gene expression dataset GSE68572 and identified the differentially expressed genes (DEGs) by analyzing high-throughput gene expression in hypoxic and normoxic NSCs. Subsequently, we analyzed these data using a combined bioinformatics approach and predicted the microRNAs (miRNAs) targeting the key gene using miRNA databases...
May 10, 2018: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/29763905/scca-tsgf-and-the-long-non-coding-rna-ac007271-3-are-effective-biomarkers-for-diagnosing-oral-squamous-cell-carcinoma
#20
Tingru Shao, Jiaxin Huang, Zenan Zheng, Qingqing Wu, Tiancai Liu, Xiaozhi Lv
BACKGROUND/AIMS: Oral squamous cell carcinoma (OSCC) is one of the most lethal malignancies worldwide and the most common type of oral cancer, characterized by invasive growth, frequent regional metastases, high recurrence, and poor prognosis. In the current study, we investigated the use of long non-coding RNAs (lncRNAs), tumor-specific growth factor (TSGF), and squamous cell carcinoma antigen (SCCA) as potential biomarkers for OSCC screening. METHODS: LncRNA expression was measured by microarray analysis in three sets of OSCC and paired normal mucosal tissues...
May 9, 2018: Cellular Physiology and Biochemistry
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