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https://www.readbyqxmd.com/read/30008905/a-risk-score-staging-system-based-on-the-expression-of-seven-genes-predicts-the-outcome-of-bladder-cancer
#1
Jianfeng Chu, Ning Li, Fengguang Li
Bladder cancer (BLCA) is among the most malignant types of cancer. At present, the prognostic tools available for this disease are insufficient. In the present study, the transcriptome of 1,049 BLCA samples from four datasets from the Gene Expression Omnibus and The Cancer Genome Atlas (TCGA) were analyzed. By utilizing the RNA-seq data provided by TCGA, a risk score staging system model was built to predict the outcome of patients with BLCA using random forest variable hunting and Cox multivariate regression...
August 2018: Oncology Letters
https://www.readbyqxmd.com/read/30006603/hippo-pathway-affects-survival-of-cancer-patients-extensive-analysis-of-tcga-data-and-review-of-literature
#2
Anello Marcello Poma, Liborio Torregrossa, Rossella Bruno, Fulvio Basolo, Gabriella Fontanini
The disruption of the Hippo pathway occurs in many cancer types and is associated with cancer progression. Herein, we investigated the impact of 32 Hippo genes on overall survival (OS) of cancer patients, by both analysing data from The Cancer Genome Atlas (TCGA) and reviewing the related literature. mRNA and protein expression data of all solid tumors except pure sarcomas were downloaded from TCGA database. Thirty-two Hippo genes were considered; for each gene, patients were dichotomized based on median expression value...
July 13, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29970902/identification-of-micror-106b-as-a-prognostic-biomarker-of-p53-like-bladder-cancers-by-actmir
#3
Eunjee Lee, Ana Collazo-Lorduy, Mireia Castillo-Martin, Yixuan Gong, Li Wang, William K Oh, Matthew D Galsky, Carlos Cordon-Cardo, Jun Zhu
Bladder cancers can be categorized into subtypes according to gene expression patterns. P53-like muscle-invasive bladder cancers are generally resistant to cisplatin-based chemotherapy, but exhibit heterogeneous clinical outcomes with a prognosis intermediate to that of the luminal and basal subtypes. The optimal approach to p53-like tumors remains poorly defined and better means to risk-stratify such tumors and identification of novel therapeutic targets is urgently needed. MicroRNAs (miRNAs) play a key role in cancer, both in tumorigenesis and tumor progression...
July 3, 2018: Oncogene
https://www.readbyqxmd.com/read/29949785/identification-of-carbonic-anhydrase-ix-as-a-novel-target-for-endoscopic-molecular-imaging-of-human-bladder-cancer
#4
Jiaqi Wang, Ruizhe Fang, Lu Wang, Guang Chen, Hongzhi Wang, Zhichao Wang, Danfeng Zhao, Valentin N Pavlov, Ildar Kabirov, Ziqi Wang, Pengyu Guo, Li Peng, Wanhai Xu
BACKGROUND/AIMS: Emerging novel optical imaging techniques with cancer-specific molecular imaging agents offer a powerful and promising platform for cancer detection and resection. White-light cystoscopy and random bladder biopsies remain the most appropriate but nonetheless suboptimal diagnostic technique for bladder cancer, which is associated with high morbidity and recurrence. However, white-light cystoscopy has intrinsic shortcomings. Although current optical imaging technologies hold great potential for improved diagnostic accuracy, there are few imaging agents for specific molecular targeting...
June 27, 2018: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/29917141/tumor-cdkn2a-associated-jak2-loss-and-susceptibility-to-immunotherapy-resistance
#5
Susanne Horn, Sonia Leonardelli, Antje Sucker, Dirk Schadendorf, Klaus G Griewank, Annette Paschen
Poor clinical responses to checkpoint blockade with anti-CTLA-4 and anti-PD-1 antibodies in melanoma have recently been associated with acquired IFNγ resistance that protects tumor cells from the antiproliferative and pro-apoptotic cytokine activity. IFNγ-resistant melanoma cells very often lack functional expression of the IFNγ signaling pathway gene JAK2 due to gene deletions or inactivating gene mutations. Analyzing melanoma cell lines (n = 46, applying next-generation targeted sequencing and single nucleotide polymorphism arrays) as well as available genomic data sets from The Cancer Genome Atlas (TCGA) tumor tissue samples (cutaneous melanoma n = 367, lung squamous cell carcinoma n = 501, bladder urothelial carcinoma n = 408, breast invasive carcinoma n = 768, colorectal adenocarcinoma n = 257), we demonstrate that the frequent chromosomal losses of the tumor suppressor CDKN2A in melanoma and other tumor entities enhance the susceptibility to IFNγ resistance by concomitant deletion of the JAK2 gene (odds ratio = 223...
June 1, 2018: Journal of the National Cancer Institute
https://www.readbyqxmd.com/read/29899832/subclassification-survival-prediction-and-drug-target-analyses-of-chemotherapy-na%C3%A3-ve-muscle-invasive-bladder-cancer-with-a-molecular-screening
#6
Sebastien Rinaldetti, Eugen Rempel, Thomas Stefan Worst, Markus Eckstein, Annette Steidler, Cleo Aaron Weiss, Christian Bolenz, Arndt Hartmann, Philipp Erben
Background: Transcriptome expression studies identified distinct muscle invasive bladder cancer (MIBC) subtypes closely related with breast cancer subclasses. Here we developed a sensitive quantification method for MIBC subclassification (luminal, basal, p53-like). In addition, the subtype specific expression of drug targets has been investigated. Methods: Absolute quantification (nCounter) of a 64-gene panel was performed on MIBC patients (n=47) treated exclusively with radical cystectomy (RC)...
May 25, 2018: Oncotarget
https://www.readbyqxmd.com/read/29888072/deep-learning-data-integration-for-better-risk-stratification-models-of-bladder-cancer
#7
Olivier B Poirion, Kumardeep Chaudhary, Lana X Garmire
We propose an unsupervised multi-omics integration pipeline, using deep-learning autoencoder algorithm, to predict the survival subtypes in bladder cancer (BC). We used TCGA dataset comprising mRNA, miRNA and methylation to infer two survival subtypes. We then constructed a supervised classification model to predict the survival subgroups of any new individual sample. Our training data gave two subgroups with significant survival differences (p-value=8e-4), where high-risk survival subgroup was enriched with KRT6/14 overexpression and PI3K-Akt pathways...
2018: AMIA Summits on Translational Science Proceedings
https://www.readbyqxmd.com/read/29872319/an-integrated-analysis-of-key-micrornas-regulatory-pathways-and-clinical-relevance-in-bladder-cancer
#8
Dongyang Li, Xuanyu Hao, Yongsheng Song
Objective: The aim of this study was to identify the key microRNAs (miRNAs) and their regulatory networks in bladder cancer (BC). Materials and methods: Three miRNA and three gene expression microarray datasets were downloaded for analysis from Gene Expression Omnibus database. The differentially expressed miRNAs (DEMs) and differentially expressed genes (DEGs) were accessed by the use of GEO2R. Gene ontology process and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses were performed by using the Database for Annotation, Visualization and Integrated Discovery program...
2018: OncoTargets and Therapy
https://www.readbyqxmd.com/read/29858066/microrna-411-downregulation-enhances-tumor-growth-by-upregulating-mllt11-expression-in-human-bladder-cancer
#9
Honglei Jin, Wenrui Sun, Yuanmei Zhang, Huiying Yan, Huating Liufu, Shuai Wang, Caiyi Chen, Jiayan Gu, Xiaohui Hua, Lingli Zhou, Guosong Jiang, Dapang Rao, Qipeng Xie, Haishan Huang, Chuanshu Huang
Although several previous studies have reported the implication of various microRNAs (miRNAs) in regulation of human bladder cancer (BC) development, alterations and function of many miRNAs in bladder cancer growth are not explored yet at present. Here, we screened 1,900 known miRNAs and first discovered that miR-411 was one of the major miRNAs, which was down-regulated in n-butyl-N-(4-hydroxybutyl)-nitrosamine (BBN)-induced BCs. This miR-411 down-regulation was also observed in human BC tissues and cell lines...
June 1, 2018: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/29769742/modified-citrus-pectin-inhibited-bladder-tumor-growth-through-downregulation-of-galectin-3
#10
Tian Fang, Dan-Dan Liu, He-Ming Ning, Dan Liu, Jing-Ya Sun, Xiao-Jing Huang, Yu Dong, Mei-Yu Geng, Shi-Feng Yun, Jun Yan, Rui-Min Huang
Modified citrus pectin (MCP) is a carbohydrate enriched complex, which has been implicated in cancer treatment and prevention. However, the effects of MCP on urinary bladder cancer (UBC) are unknown. In this study, MCP was first tested in T24 and J82 human UBC cells and showed the inhibition of cell viability by the sulforhodamine B (SRB) assay. The MCP-treated UBC cells exhibited G2 /M phase arrest with the decrease of Cyclin B1 and phosphorylated Cdc2. Caspase-3 was also activated, leading to the cleavage of Caspase-3 and PARP...
May 16, 2018: Acta Pharmacologica Sinica
https://www.readbyqxmd.com/read/29725414/upregulated-gaplinc-predicts-a-poor-prognosis-in-bladder-cancer-patients-and-promotes-tumor-proliferation-and-invasion
#11
Zaosong Zheng, Dingjun Zhu, Fengjin Zhao, Jinli Han, Haicheng Chen, Yuhong Cai, Wenlian Xie
Previous studies have demonstrated that long noncoding RNAs (lncRNAs) exhibit critical regulatory roles in cancer biology. However, few lncRNAs have been well characterized in bladder cancer. In the previous study, we demonstrated that gastric adenocarcinoma associated, positive CD44 regulator, long intergenic noncoding RNA (GAPLINC) was significantly upregulated in bladder cancer tissues compared with normal tissues in The Cancer Genome Atlas (TCGA) cohort (P=0.039) and a validated cohort of 80 patients with bladder cancer (P=0...
May 2018: Oncology Letters
https://www.readbyqxmd.com/read/29707153/diagnostic-and-prognostic-biomarker-potential-of-kallikrein-family-genes-in-different-cancer-types
#12
Prashant D Tailor, Sai Karthik Kodeboyina, Shan Bai, Nikhil Patel, Shruti Sharma, Akshay Ratnani, John A Copland, Jin-Xiong She, Ashok Sharma
Purpose: The aim of this study was to compare and contrast the expression of all members of the Kallikrein (KLK) family of genes across 15 cancer types and to evaluate their utility as diagnostic and prognostic biomarkers. Results: Severe alterations were found in the expression of different Kallikrein genes across various cancers. Interestingly, renal clear cell and papillary carcinomas have similar kallikrein expression profiles, whereas, chromophobe renal cell carcinoma has a unique expression profile...
April 3, 2018: Oncotarget
https://www.readbyqxmd.com/read/29682192/-atm-rb1-mutations-predict-shorter-overall-survival-in-urothelial-cancer
#13
Ming Yin, Petros Grivas, Hamid Emamekhoo, Prateek Mendiratta, Siraj Ali, JoAnn Hsu, Monali Vasekar, Joseph J Drabick, Sumanta Pal, Monika Joshi
Background: Mutations of DNA repair genes, e.g. ATM/RB1 , are frequently found in urothelial cancer (UC) and have been associated with better response to cisplatin-based chemotherapy. Further external validation of the prognostic value of ATM/RB1 mutations in UC can inform clinical decision making and trial designs. Results: In the discovery dataset, ATM/RB1 mutations were present in 24% of patients and were associated with shorter OS (adjusted HR 2.67, 95% CI, 1...
March 30, 2018: Oncotarget
https://www.readbyqxmd.com/read/29655996/a-genomic-clinicopathologic-nomogram-for-the-preoperative-prediction-of-lymph-node-metastasis-in-bladder-cancer
#14
Shao-Xu Wu, Jian Huang, Zhuo-Wei Liu, Hai-Ge Chen, Pi Guo, Qing-Qing Cai, Jun-Jiong Zheng, Hai-De Qin, Zao-Song Zheng, Xin Chen, Rui-Yun Zhang, Si-Liang Chen, Tian-Xin Lin
Preoperative lymph node (LN) status is important for the treatment of bladder cancer (BCa). Here, we report a genomic-clinicopathologic nomogram for preoperatively predicting LN metastasis in BCa. In the discovery stage, 325 BCa patients from TCGA were involved and LN-status-related mRNAs were selected. In the training stage, multivariate logistic regression analysis was used to developed a genomic-clinicopathologic nomogram for preoperative LN metastasis prediction in the training set (SYSMH set, n=178). In the validation stage, we validated the nomogram using two independent sample sets (SYSUCC set, n=142; RJH set, n=104) with respect to its discrimination, calibration and clinical usefulness...
May 2018: EBioMedicine
https://www.readbyqxmd.com/read/29540855/dual-strands-of-the-mir-223-duplex-mir-223-5p-and-mir-223-3p-inhibit-cancer-cell-aggressiveness-targeted-genes-are-involved-in-bladder-cancer-pathogenesis
#15
Sho Sugawara, Yasutaka Yamada, Takayuki Arai, Atsushi Okato, Tetsuya Idichi, Mayuko Kato, Keiichi Koshizuka, Tomohiko Ichikawa, Naohiko Seki
Analyses of microRNA (miRNA) expression signatures obtained by RNA sequencing revealed that some passenger miRNAs (miR-144-5p, miR-145-3p, miR-149-3p, miR-150-3p, and miR-199a-3p) acted as anti-tumor miRNAs in several types of cancer cells. The involvement of passenger strands in the pathogenesis of human cancer is a novel concept. Based on the miRNA signature of bladder cancer (BC) obtained by RNA sequencing, we focused on both strands of the miR-223-duplex (miR-223-5p and miR-223-3p) and investigated their functional significance in BC cells...
May 2018: Journal of Human Genetics
https://www.readbyqxmd.com/read/29515971/the-expression-and-prognostic-impact-of-immune-cytolytic-activity-related-markers-in-human-malignancies-a-comprehensive-meta-analysis
#16
Constantinos Roufas, Dimitrios Chasiotis, Anestis Makris, Christodoulos Efstathiades, Christos Dimopoulos, Apostolos Zaravinos
Background: Recently, immune-checkpoint blockade has shown striking clinical results in different cancer patients. However, a significant inter-individual and inter-tumor variability exists among different cancers. The expression of the toxins granzyme A (GZMA) and perforin 1 (PRF1), secreted by effector cytotoxic T cells and natural killer (NK) cells, were recently used as a denominator of the intratumoral immune cytolytic activity (CYT). These levels are significantly elevated upon CD8+ T-cell activation as well as during a productive clinical response against immune-checkpoint blockade therapies...
2018: Frontiers in Oncology
https://www.readbyqxmd.com/read/29514839/identification-and-validation-of-stromal-immunotype-predict-survival-and-benefit-from-adjuvant-chemotherapy-in-patients-with-muscle-invasive-bladder-cancer
#17
Hangcheng Fu, Yu Zhu, Yiwei Wang, Zheng Liu, Junyu Zhang, Huyang Xie, Qiang Fu, Bo Dai, Dingwei Ye, Jiejie Xu
Purpose: This study aims to construct the stromal immunotype, which could improve the prediction of postsurgical survival and adjuvant platinum-based chemotherapy in muscle-invasive bladder cancer (MIBC). Experimental Design: A total of 118 patients with MIBC from Shanghai Cancer Center, 140 patients with MIBC from Zhongshan Hospital, and 287 patients with MIBC from TCGA cohort were included in the study. Immune cell infiltration was evaluated by IHC staining or CIBERSORT method. Five immune features were selected out of 22 immune features to construct immunotypes based on the LASSO Cox regression model...
March 7, 2018: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/29456764/integrative-analysis-of-the-epigenetic-basis-of-muscle-invasive-urothelial-carcinoma
#18
Thomas Sanford, Maxwell V Meng, Reema Railkar, Piyush K Agarwal, Sima P Porten
Background: Elucidation of epigenetic alterations in bladder cancer will lead to further understanding of the biology of the disease and hopefully improved therapies. Our aim was to perform an integrative epigenetic analysis of invasive urothelial carcinoma of the bladder to identify the epigenetic abnormalities involved in the development and progression of this cancer. Methods: Pre-processed methylation data and RNA-seq data were downloaded from The Cancer Genome Atlas (TCGA) and processed using the R package TCGA-Assembler...
2018: Clinical Epigenetics
https://www.readbyqxmd.com/read/29445424/promoter-methylation-of-dna-damage-repair-ddr-genes-in-human-tumor-entities-rbbp8-ctip-is-almost-exclusively-methylated-in-bladder-cancer
#19
Jolein Mijnes, Jürgen Veeck, Nadine T Gaisa, Eduard Burghardt, Tim C de Ruijter, Sonja Gostek, Edgar Dahl, David Pfister, Sebastian C Schmid, Ruth Knüchel, Michael Rose
Background: Genome-wide studies identified pan-cancer genes and shared biological networks affected by epigenetic dysregulation among diverse tumor entities. Here, we systematically screened for hypermethylation of DNA damage repair (DDR) genes in a comprehensive candidate-approach and exemplarily identify and validate candidate DDR genes as targets of epigenetic inactivation unique to bladder cancer (BLCA), which may serve as non-invasive biomarkers. Methods: Genome-wide DNA methylation datasets (2755 CpG probes of n  = 7819 tumor and n  = 659 normal samples) of the TCGA network covering 32 tumor entities were analyzed in silico for 177 DDR genes...
2018: Clinical Epigenetics
https://www.readbyqxmd.com/read/29354491/opportunities-of-next-generation-sequencing-in-non-muscle-invasive-bladder-cancer-outcome-prediction
#20
REVIEW
Karl H Pang, Francesco Esperto, Aidan P Noon
Bladder cancer (BC) is a common disease in both sexes and majority of cases present as non-muscle invasive BC (NMIBC). The percentage of NMIBC progressing to muscle invasive BC (MIBC) varies between 25% and 75% and currently there are no reliable biomarkers that may predict the outcome of high-risk (HR) NMIBC. Whilst The Cancer Genome Atlas (TCGA) project has identified genetic alteration in MIBC using next-generation sequencing (NGS), genetic data in HR-NMIBC outcome prediction using this new technology are limited...
December 2017: Translational Andrology and Urology
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