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Renal atlas

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https://www.readbyqxmd.com/read/29452772/metabolic-and-lipidomic-reprogramming-in-renal-cell-carcinoma-subtypes-reflects-regions-of-tumor-origin
#1
Elke Schaeffeler, Florian Büttner, Anna Reustle, Verena Klumpp, Stefan Winter, Steffen Rausch, Pascale Fisel, Jörg Hennenlotter, Stephan Kruck, Arnulf Stenzl, Judith Wahrheit, Denise Sonntag, Marcus Scharpf, Falko Fend, Abbas Agaimy, Arndt Hartmann, Jens Bedke, Matthias Schwab
BACKGROUND: Renal cell carcinoma (RCC) consists of prognostic distinct subtypes derived from different cells of origin (eg, clear cell RCC [ccRCC], papillary RCC [papRCC], and chromophobe RCC [chRCC]). ccRCC is characterized by lipid accumulation and metabolic alterations, whereas data on metabolic alterations in non-ccRCC are limited. OBJECTIVE: We assessed metabolic alterations and the lipid composition of RCC subtypes and ccRCC-derived metastases. Moreover, we elucidated the potential of metabolites/lipids for subtype classification and identification of therapeutic targets...
February 13, 2018: European Urology Focus
https://www.readbyqxmd.com/read/29434939/identification-of-metabolism-associated-genes-and-pathways-involved-in-different-stages-of-clear-cell-renal-cell-carcinoma
#2
Hui-Juan Li, Wen-Xing Li, Shao-Xing Dai, Yi-Cheng Guo, Jun-Juan Zheng, Jia-Qian Liu, Qian Wang, Bi-Wen Chen, Gong-Hua Li, Jing-Fei Huang
The lack of early diagnostic markers and novel therapeutic targets for clear cell renal cell carcinoma (ccRCC) negatively affects patient prognosis. Cancer metabolism is an attractive area for the understanding of the molecular mechanism of carcinogenesis. The present study attempted to identify metabolic changes from the view of the expression of metabolism-associated genes between control samples and those of ccRCC at different disease stages. Data concerning ccRCC gene expression obtained by RNA-sequencing was obtained from The Cancer Genome Atlas and data on metabolism-associated genes were extracted using the Recon2 model...
February 2018: Oncology Letters
https://www.readbyqxmd.com/read/29417701/impact-of-novel-oncogenic-pathways-regulated-by-anti-tumor-mir-451a-in-renal-cell-carcinoma
#3
Yasutaka Yamada, Takayuki Arai, Sho Sugawara, Atsushi Okato, Mayuko Kato, Satoko Kojima, Kazuto Yamazaki, Yukio Naya, Tomohiko Ichikawa, Naohiko Seki
Recent analyses of our microRNA (miRNA) expression signatures obtained from several types of cancer have provided novel information on their molecular pathology. In renal cell carcinoma (RCC), expression of microRNA-451a (miR-451a) was significantly downregulated in patient specimens and low expression of miR-451a was significantly associated with poor prognosis of RCC patients (p = 0.00305) based on data in The Cancer Genome Atlas (TCGA). The aims of the present study were to investigate the anti-tumor roles of miR-451a and to identify novel oncogenic networks it regulated in RCC cells...
February 8, 2018: Cancer Science
https://www.readbyqxmd.com/read/29391527/high-expression-of-smarca4-or-smarca2-is-frequently-associated-with-an-opposite-prognosis-in-cancer
#4
Jose A Guerrero-Martínez, Jose C Reyes
The gene encoding the ATPase of the chromatin remodeling SWI/SNF complexes SMARCA4 (BRG1) is often mutated or silenced in tumors, suggesting a role as tumor suppressor. Nonetheless, recent reports show requirement of SMARCA4 for tumor cells growth. Here, we performed a computational meta-analysis using gene expression, prognosis, and clinicopathological data to clarify the role of SMARCA4 and the alternative SWI/SNF ATPase SMARCA2 (BRM) in cancer. We show that while the SMARCA4 gene is mostly overexpressed in tumors, SMARCA2 is almost invariably downexpressed in tumors...
February 1, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29383105/lncnetp-a-systematical-lncrna-prioritization-approach-based-on-cerna-and-disease-phenotype-association-assumptions
#5
Chaohan Xu, Yanyan Ping, Hongying Zhao, Shangwei Ning, Peng Xia, Weida Wang, Linyun Wan, Jie Li, Li Zhang, Lei Yu, Yun Xiao
Our knowledge of lncRNA is very limited and discovering novel disease-related long non-coding RNA (lncRNA) has been a major research challenge in cancer studies. In this work, we developed an LncRNA Network-based Prioritization approach, named "LncNetP" based on the competing endogenous RNA (ceRNA) and disease phenotype association assumptions. Through application to 11 cancer types with 3089 common lncRNA and miRNA samples from the Cancer Genome Atlas (TCGA), our approach yielded an average area under the ROC curve (AUC) of 83...
December 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/29371934/long-non-coding-rna-lucat1-is-a-poor-prognostic-factor-and-demonstrates-malignant-biological-behavior-in-clear-cell-renal-cell-carcinoma
#6
Haibing Xiao, Lin Bao, Wen Xiao, Hailong Ruan, Zhengshuai Song, Yan Qu, Ke Chen, Xiaoping Zhang, Hongmei Yang
Background: Many long intergenic noncoding RNAs (lincRNAs) are encoded in the human genome. However, their biological functions, molecular mechanisms and prognostic values associated with clear cell renal cell carcinoma (ccRCC) have yet to be elucidated. Methods: We screened the lncRNAs' profile in ccRCC from The Cancer Genome Atlas (TCGA) database, and selected Lucat1 for further study. MTS, colony formation assay and transwell assay were performed to examine the effect of Lucat1 on proliferation and metastasis of ccRCC...
December 26, 2017: Oncotarget
https://www.readbyqxmd.com/read/29370961/cxcr1-expression-predicts-benefit-from-tyrosine-kinase-inhibitors-therapy-in-patients-with-metastatic-renal-cell-carcinoma
#7
Xiang Chen, Li Liu, Jiajun Wang, Zhiyuan Lin, Ying Xiong, Yang Qu, Zewei Wang, Yuanfeng Yang, Jianming Guo, Jiejie Xu
PURPOSE: CXCR1 signaling promotes tumor progression in various cancers, and clinical trial has proved efficacy of CXCR1 inhibitor in metastatic breast cancer. Therefore, we investigated the prognostic value of CXCR1 in patients with metastatic renal cell carcinoma (mRCC) receiving tyrosine kinase inhibitors (TKIs) therapy. MATERIALS AND METHODS: Patients treated with sunitinib or sorafenib were retrospectively enrolled (n = 111). CXCR1 expression was assessed by immunohistochemical staining of tissue microarrays of primary tumor, and its association with prognosis and therapeutic response were evaluated...
January 19, 2018: Urologic Oncology
https://www.readbyqxmd.com/read/29340018/survival-prediction-of-kidney-renal-papillary-cell-carcinoma-by-comprehensive-lncrna-characterization
#8
Huihua Lan, Jianghui Zeng, Gang Chen, Huayi Huang
Kidney renal papillary cell carcinoma (KIRP) accounts for 10%-15% of renal cell carcinoma (RCC), patients with KIRP tend to have a poor prognosis, and there was a lack of effective prognostic indicators for this type of cancer. Currently, owing to the availability of The Cancer Genome Atlas (TCGA), long non-coding RNAs (LncRNAs) have been discovered to indicate a prognostic value in some tumors. In that regard, we analyzed lncRNA-sequencing data of KIRP in TCGA, and among 780 differentially-expressed lncRNAs, we selected 37 lncRNAs which were able to assist the prognosis...
December 19, 2017: Oncotarget
https://www.readbyqxmd.com/read/29332336/downregulation-of-guanine-nucleotide-binding-protein-beta-1-gnb1-is-associated-with-worsened-prognosis-of-clearcell-renal-cell-carcinoma-and-is-related-to-vegf-signaling-pathway
#9
C Chen, H Chi, L Min, Z Junhua
PURPOSE: Clear-cell renal cell carcinoma (ccRCC) is characterized by genetic abnormalities, while the role of Guanine Nucleotide-Binding Protein Beta 1 (GNB1) in ccRCC has not been studied. We thus aimed to evaluate the expression and prognostic value of GNB1 in ccRCC. METHODS: A two-stage study (exploration and validation) was conducted using in silico and immunohistochemical (IHC) scoring of ccRCC samples from our institute, to evaluate the association between GNB1 expression and clinicopathological parameters of ccRCC patients...
November 2017: Journal of B.U.ON.: Official Journal of the Balkan Union of Oncology
https://www.readbyqxmd.com/read/29327492/a-five-gene-signature-may-predict-sunitinib-sensitivity-and-serve-as-prognostic-biomarkers-for-renal-cell-carcinoma
#10
Yuan-Lei Chen, Guang-Ju Ge, Chao Qi, Huan Wang, Huai-Lan Wang, Li-Yang Li, Gong-Hui Li, Li-Qun Xia
Sunitinib resistance is, nowadays, the major challenge for advanced renal cell carcinoma patients. Illuminating the potential mechanisms and exploring effective strategies to overcome sunitinib resistance are highly desired. We constructed a reliable gene signature which may function as biomarkers for prediction of sunitinib sensitivity and clinical prognosis. The gene expression profiles were obtained from The Cancer Genome Atlas database. By performing GEO2R analysis, numerous differentially expressed genes (DEGs) were found to be associated with sunitinib resistance...
January 12, 2018: Journal of Cellular Physiology
https://www.readbyqxmd.com/read/29299153/identify-clear-cell-renal-cell-carcinoma-related-genes-by-gene-network
#11
Fangrong Yan, Yue Wang, Chunhui Liu, Huiling Zhao, Liya Zhang, Xiaofan Lu, Chen Chen, Yaoyan Wang, Tao Lu, Fei Wang
Clear cell renal cell carcinoma (ccRCC) is the most prominent type of kidney cancer in adults. The patients within metastatic ccRCC have a poor 5-year survival rate that is less than 10%. It is essential to identify ccRCC -related genes to help with the understanding of molecular mechanism of ccRCC. In this literature, we aim to identify genes related to ccRCC based on a gene network. We collected gene expression level data of ccRCC from the Cancer Genome Atlas (TCGA) for our analysis. We constructed a co-expression gene network as the first step of our study...
December 15, 2017: Oncotarget
https://www.readbyqxmd.com/read/29275385/oyster-related-tenosynovitis-a-rare-case-of-mycobacterium-szulgai-in-the-immunocompromised
#12
Michael Howard Baca-Atlas, Amir Homayoun Barzin
A 66-year-old man with a history of renal transplant on chronic immunosuppression presented to his primary care physician with a swollen right index finger. On examination, mild swelling was present. Conservative management failed and initial plain films were negative. Corticosteroid injection was performed by orthopaedics, but symptoms recurred several months later and an MRI showed flexor digitorum tenosynovitis and abscesses of the superficialis and profundus tendons. A flexor tenolysis was performed with cultures positive for Mycobacterium szulgai, a rare, non-tuberculous mycobacterial infection...
December 22, 2017: BMJ Case Reports
https://www.readbyqxmd.com/read/29273157/ajkd-atlas-of-renal-pathology-adenovirus-infection
#13
Mark A Lusco, Agnes B Fogo, Behzad Najafian, Charles E Alpers
No abstract text is available yet for this article.
January 2018: American Journal of Kidney Diseases: the Official Journal of the National Kidney Foundation
https://www.readbyqxmd.com/read/29258768/role-of-mir-1-expression-in-clear-cell-renal-cell-carcinoma-ccrcc-a-bioinformatics-study-based-on-geo-arrayexpress-microarrays-and-tcga-database
#14
Hai-Biao Yan, Jia-Cheng Huang, You-Rong Chen, Jian-Ni Yao, Wei-Ning Cen, Jia-Yi Li, Yi-Fan Jiang, Gang Chen, Sheng-Hua Li
PURPOSE: To investigate the clinical value and potential molecular mechanisms of miR-1 in clear cell renal cell carcinoma (ccRCC). METHODS: We searched the Gene Expression Omnibus (GEO), ArrayExpress, several online publication databases and the Cancer Genome Atlas (TCGA). Continuous variable meta-analysis and diagnostic meta-analysis were conducted, both in Stata 14, to show the expression of miR-1 in ccRCC. Furthermore, we acquired the potential targets of miR-1 from datasets that transfected miR-1 into ccRCC cells, online prediction databases, differentially expressed genes from TCGA and literature...
December 2, 2017: Pathology, Research and Practice
https://www.readbyqxmd.com/read/29227586/identification-of-potential-crucial-genes-associated-with-carcinogenesis-of-clear-cell-renal-cell-carcinoma
#15
Erlin Song, Wenting Song, Minghua Ren, Li Xing, Wenjun Ni, Yongxiang Li, Mancheng Gong, Mingbo Zhao, Xin Ma, Xu Zhang, Ruihua An
Clear cell renal cell carcinoma (ccRCC) is a common genitourinary malignancy with high mortality. However, the molecular pathogenesis of ccRCC remains unclear and effective biomarkers for daily practice are still limited. Thus, we aimed to identify the potential crucial genes and pathways associated with carcinogenesis of ccRCC and further analyze the molecular mechanisms implicated in tumorigenesis. In the present study, expression profiles GSE 66270, GSE 53757, GSE 36895 and GSE 76351 were downloaded from GEO database, including 244 matched primary and adjacent normal tissues, furthermore, the level 3 RNAseq dataset (RNAseqV2 RSEM) of KIRC was also downloaded from The Cancer Genome Atlas (TCGA), which consist of 529 ccRCC tumors and 72 normal tissues...
December 11, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/29212269/low-neighbor-of-brca1-gene-expression-predicts-poor-clinical-outcome-and-resistance-of-sunitinib-in-clear-cell-renal-cell-carcinoma
#16
Wen Xiao, Zhiyong Xiong, Changfei Yuan, Lin Bao, Di Liu, Xiong Yang, Wencheng Li, Junwei Tong, Yan Qu, Lei Liu, Haibing Xiao, Hongmei Yang, Xiaoping Zhang, Ke Chen
Objective: To study the expression of Neighbor of Brca1 gene (NBR1) in clear cell renal cell carcinoma (ccRCC), renal cancer cells and the chemoresistance cells and to elucidate its clinical prognostic and chemoresistance value. Materials and Methods: We screened the NBR1 mRNA in ccRCC from The Cancer Genome Atlas (TCGA) database and examined expression levels of NBR1 mRNA in 48 cases of ccRCC tissues, renal cancer cell lines and chemoresistance cells by qRT-PCR...
November 7, 2017: Oncotarget
https://www.readbyqxmd.com/read/29208006/identification-and-validation-of-a-44-gene-expression-signature-for-the-classification-of-renal-cell-carcinomas
#17
Qifeng Wang, Hualei Gan, Chengshu Chen, Yifeng Sun, Jinying Chen, Midie Xu, Weiwei Weng, Liyu Cao, Qinghua Xu, Jian Wang
BACKGROUND: Renal cancers account for more than 3% of all adult malignancies and cause more than 23,400 deaths per year in China alone. The four most common types of kidney tumours include clear cell, papillary, chromophobe and benign oncocytoma. These histological subtypes vary in their clinical course and prognosis, and different clinical strategies have been developed for their management. Some kidney tumours can be very difficult to distinguish based on the pathological assessment of morphology and immunohistochemistry...
December 6, 2017: Journal of Experimental & Clinical Cancer Research: CR
https://www.readbyqxmd.com/read/29181054/predictive-values-of-notch-signalling-in-renal-carcinoma
#18
Dorota Jędroszka, Magdalena Orzechowska, Andrzej K Bednarek
Introduction: Notch signalling, an evolutionarily conserved mechanism of cellular differentiation and tissue remodelling, is frequently deregulated in several human malignancies, including renal cell carcinoma (RCC). However, the prognostic value of individual Notch pathway members in RC subtypes remains indefinable. The present study investigates whether the differential expression of Notch members has a contrary effect on disease-free survival (DFS) in clear cell renal cell carcinoma (KIRC), papillary cell renal cell carcinoma (KIRP) and chromophobe renal cell carcinoma (KICH) patients...
October 2017: Archives of Medical Science: AMS
https://www.readbyqxmd.com/read/29180475/distinct-tp63-isoform-driven-transcriptional-signatures-predict-tumor-progression-and-clinical-outcomes
#19
Hussein Abbas, Ngoc Hoang Bao Bui, Kimal Rajapakshe, Justin Wong, Preethi Gunaratne, Kenneth Y Tsai, Cristian Coarfa, Elsa R Flores
TP63 is required to maintain stem cell pluripotency and suppresses the metastatic potential of cancer cells through multiple mechanisms. These functions are differentially regulated by individual isoforms, necessitating a deeper understanding of how the distinct transcriptional programs controlled by these isoforms affect cancer progression and outcomes. In this study, we conducted a pan-cancer analysis of The Cancer Genome Atlas (TCGA) to identify transcriptional networks regulated by TAp63 and ΔNp63 using transcriptomes derived from epidermal cells of TAp63-/- and ΔNp63-/- mice...
November 27, 2017: Cancer Research
https://www.readbyqxmd.com/read/29169518/ajkd-atlas-of-renal-pathology-cystinosis
#20
Mark A Lusco, Behzad Najafian, Charles E Alpers, Agnes B Fogo
No abstract text is available yet for this article.
December 2017: American Journal of Kidney Diseases: the Official Journal of the National Kidney Foundation
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