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https://www.readbyqxmd.com/read/28938681/high-mucin-5ac-expression-predicts-adverse-postoperative-recurrence-and-survival-of-patients-with-clear-cell-renal-cell-carcinoma
#1
Haijian Zhang, Yidong Liu, Huyang Xie, Weisi Liu, Qiang Fu, Dengfu Yao, Jiejie Xu, Jianxin Gu
BACKGROUND: Mucin 5AC (MUC5AC), as a member of secreted/gel-forming mucin family, was frequently found to be abnormally expressed in inflammation or malignant diseases. However, the clinic pathologic features and prognostic values of MUC5AC in clear-cell renal cell carcinoma (ccRCC) have not been reported up to now. METHODS: MUC5AC expression was analyzed by immunohistochemistry on tissue microarrays. Kaplan-Meier survival curves, Univariate and Multivariate Cox analysis and newly-established nomogram model were performed to evaluate the prognostic value...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938639/spondin2-is-a-new-prognostic-biomarker-for-lung-adenocarcinoma
#2
Xiaopeng Yuan, Tingting Bian, Jian Liu, Honggang Ke, Jia Feng, Qing Zhang, Li Qian, Xiaoli Li, Yifei Liu, Jianguo Zhang
Spondin 2 (SPON2) is a member of the F-spondin superfamily of genes that encode an extracellular matrix protein. SPON2 has been identified by mRNA differential display screening of cancerous and noncancerous lung cell lines in vitro [1], however, its role in pulmonary adenocarcinoma (ADC) patients remains unclear. In our study, we evaluated whether SPON2 can be used as a biomarker for the diagnosis of pulmonary ADC and any association between SPON2 protein levels and clinicopathological characteristics. Firstly, the mRNA levels of SPON2 in pulmonary ADCs and normal adjacent tissue samples were detected by quantitative reverse transcription polymerase chain reaction (qRT-PCR) (n = 60) assay and the expression of SPON2 protein were detected by tissue microarray immunohistochemistry analysis (TMA-IHC) (n = 280)...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938566/screening-differential-circular-rna-expression-profiles-reveals-hsa_circ_0004018-is-associated-with-hepatocellular-carcinoma
#3
Liyun Fu, Ting Yao, Qingqing Chen, Xiaoyan Mo, Yaoren Hu, Junming Guo
Circular RNAs (circRNAs) have been emerged as an indispensable part of endogenous RNA network. However, the expression significance of circRNAs in hepatocellular carcinoma (HCC) is rarely revealed. The aim of this study was to determine the circRNA expression profile in HCC, and to investigate their clinical significances and relevant mechanisms for cancer progression. The global circRNA expression profile in HCC was measured by circRNA microarray. Levels of one representative circRNAs, hsa_circ_0004018, were confirmed by real-time reverse transcription-polymerase chain reaction...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938555/exosomes-of-invasive-urothelial-carcinoma-cells-are-characterized-by-a-specific-mirna-expression-signature
#4
Sophie Baumgart, Sebastian Hölters, Carsten-Henning Ohlmann, Rainer Bohle, Michael Stöckle, Marie Stampe Ostenfeld, Lars Dyrskjøt, Kerstin Junker, Joana Heinzelmann
Muscle-invasive bladder cancer (MIBC) represents a highly aggressive tumor type compared to non-muscle-invasive tumors. MIBC is characterized by specific molecular alterations, which may also modulate extracellular tumorigenic effects. Tumor-associated exosomes, especially exosomal miRNAs, are important regulators in the interaction between tumor cells and tumor microenvironment by affecting tumor-promoting processes in target cells. It is important to analyze whether their exosomal patterns also reflect the specific molecular characteristics of MIBC...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938548/promoter-dna-methylation-analysis-reveals-a-combined-diagnosis-of-cpg-based-biomarker-for-prostate-cancer
#5
Yuanyuan Tang, Shusuan Jiang, Yinmin Gu, Weidong Li, Zengnan Mo, Yuanjie Huang, Tianyu Li, Yanling Hu
BACKGROUND: Prostate cancer (PCa) is the most common tumor in elderly men. However, the specificity and sensitivity of serum prostate-specific antigen levels in PCa diagnosis are controversial. This study aims to reveal a novel diagnosis biomarker in PCa. MATERIALS AND METHODS: The differential methylated CpG sites between 423 primary PCa and 39 adjacent samples from The Cancer Genome Atlas (TCGA) on Illumina HumanMethylation 450 platform were analyzed. The diagnostic methylation markers were mined using the Prediction Analysis of Microarrays package in Bioconductor...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938484/long-noncoding-rnas-potential-regulators-involved-in-the-pathogenesis-of-polycystic-ovary-syndrome
#6
Yu-Dong Liu, Ying Li, Shu-Xian Feng, De-Sheng Ye, Xin Chen, Xing-Yu Zhou, Shi-Ling Chen
Polycystic ovary syndrome (PCOS) is the most common cause of anovulatory infertility in women of reproductive age, and its etiology remains poorly understood. Altered activities of long noncoding RNAs (lncRNAs) have been associated with human diseases and development. However, the roles of lncRNAs are unknown in reproductive medicine. We investigated the potential role of lncRNAs in the pathogenesis of PCOS, using human granulosa cells (GCs) and the KGN cell line. We used microarrays to compare lncRNA expression profiles in GCs from 7 PCOS patients and 7 matched women...
August 31, 2017: Endocrinology
https://www.readbyqxmd.com/read/28938071/automatic-identification-and-quantification-of-extra-well-fluorescence-in-microarray-images
#7
Robert Rivera, Jie Wang, Xiaobo Yu, Gokhan Demirkan, Marika Hopper, Xiaofang Bian, Tasnia Tahsin, D Mitchell Magee, Ji Qiu, Joshua LaBaer, Garrick Wallstrom
In recent studies involving NAPPA microarrays, extra-well fluorescence is used as a key measure for identifying disease biomarkers since there is evidence to support that it is better correlated with strong antibody responses than statistical analysis involving intra-spot intensity. Since this feature is not well quantified by traditional image analysis software, identification and quantification of extra-well fluorescence is performed manually, which is both time consuming and highly susceptible to variation between raters...
September 22, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28938059/re-cut-off-value-of-nuchal-translucency-as-indication-for-chromosomal-microarray-analysis-i-maya-s-yacobson-s-kahana-j-yeshaya-t-tenne-i-agmon-fishman-l-cohen-vig-m-shohat-l-basel-vanagaite-and-r-sharony-ultrasound-obstet-gynecol-2017-50-332-335
#8
https://www.readbyqxmd.com/read/28938012/f-map-a-bayesian-approach-to-infer-the-gene-regulatory-network-using-external-hints
#9
Maryam Shahdoust, Hamid Pezeshk, Hossein Mahjub, Mehdi Sadeghi
The Common topological features of related species gene regulatory networks suggest reconstruction of the network of one species by using the further information from gene expressions profile of related species. We present an algorithm to reconstruct the gene regulatory network named; F-MAP, which applies the knowledge about gene interactions from related species. Our algorithm sets a Bayesian framework to estimate the precision matrix of one species microarray gene expressions dataset to infer the Gaussian Graphical model of the network...
2017: PloS One
https://www.readbyqxmd.com/read/28938001/cell-cycle-stage-specific-transcriptional-activation-of-cyclins-mediated-by-hat2-dependant-h4k10-acetylation-of-promoters-in-leishmania-donovani
#10
Udita Chandra, Aarti Yadav, Devanand Kumar, Swati Saha
Chromatin modifications affect several processes. In investigating the Leishmania donovani histone acetyltransferase HAT2, using in vitro biochemical assays and HAT2-heterozygous genomic knockout we found the constitutively nuclear HAT2 acetylated histone H4K10 in vitro and in vivo. HAT2 was essential. HAT2-depleted cells displayed growth and cell cycle defects, and poor survival in host cells. Real time PCR and DNA microarray analyses, as well as rescue experiments, revealed that downregulation of cyclins CYC4 and CYC9 were responsible for S phase and G2/M defects of HAT2-depleted cells respectively...
September 22, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28937892/the-effect-of-mmp-13-mmp-12-and-ambn-on-gingival-enlargement-and-root-deformation-in-a-new-type-of-gingival-fibromatosis
#11
Chung-Min Kang, Jae-Ho Lee, Mijeong Jeon, Je Seon Song, Seong-Oh Kim
This case compared gene-expression between a new type of idiopathic gingival fibromatosis (IGF) and normal gingiva, to clarify the nature of the gingival overgrowth and dental anomaly. A 6-year-old girl with generalized gingival overgrowth and root deformations was diagnosed with IGF. Gene expression profiles were compared between normal gingiva (N=9) and one IGF gingiva using cDNA microarray. Genes related to regulation of cell proliferation and proteolytic degradation were expressed strongly in IGF. MMP-13 and MMP-12 expression were 120 times and 96 times lower in IGF, respectively, whereas AMBN expression was 79 times higher...
September 22, 2017: Journal of Clinical Pediatric Dentistry
https://www.readbyqxmd.com/read/28936810/phosphorylated-cxcr4-expression-has-a-positive-prognostic-impact-in-colorectal-cancer
#12
B Weixler, F Renetseder, I Facile, N Tosti, E Cremonesi, A Tampakis, T Delko, S Eppenberger-Castori, A Tzankov, G Iezzi, C Kettelhack, S D Soysal, U von Holzen, G C Spagnoli, L Terracciano, L Tornillo, Raoul A Droeser, S Däster
BACKGROUND: The CXCL12-CXCR4 chemokine axis plays an important role in cell trafficking as well as in tumor progression. In colorectal cancer (CRC), the chemokine receptor CXCR4 has been shown to be an unfavorable prognostic factor in some studies, however, the role of its activated (phosphorylated) form, pCXCR4, has not yet been evaluated. Here, we aimed to investigate the prognostic value of CXCR4 and pCXCR4 in a large cohort of CRC patients. PATIENTS AND METHODS: A tissue microarray (TMA) of 684 patient specimens of primary CRCs was analyzed by immunohistochemistry (IHC) for the expression of CXCR4 and pCXCR4 by tumor cells and tumor-infiltrating immune cells (TICs)...
September 21, 2017: Cellular Oncology (Dordrecht)
https://www.readbyqxmd.com/read/28936661/isolation-of-rice-sperm-cells-for-transcriptional-profiling
#13
Scott D Russell, Daniel S Jones, Sarah Anderson, Xinkun Wang, Venkatesan Sundaresan, Xiaoping Gou
The male germline of flowering plants displays unexpectedly divergent transcriptional profiles compared to other cell types and tissues of plants. As these are among the smallest cells, and are harbored within pollen, isolating a pure collection of germline RNA presents unusual challenges. The sperm cells of rice represent a particularly challenging subject for study as the pollen are unusually short lived upon release from the anther, and the marker gene sequences that make FACS possible in Arabidopsis have not yet been introduced into rice...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28936621/expression-of-inflammatory-lipopolysaccharide-binding-protein-lbp-predicts-the-progression-of-conventional-renal-cell-carcinoma-a-short-report
#14
Gyula Kovacs, Lehel Peterfi, Nelli Farkas, Andras Javorhazy, Csaba Pusztai, Arpad Szanto
BACKGROUND: The mortality of conventional renal cell carcinoma (RCC) correlates directly with the presence or postoperative development of metastases. The aim of this study was to identify new markers associated with the postoperative progression of conventional RCC. METHODS: Tissue microarrays (TMA) of conventional RCC from a cohort of 414 patients were analysed by immunohistochemistry for expression of the lipopolysaccharide binding protein (LBP), which was identified as a candidate biomarker through Affymetrix U133 Plus 2...
September 21, 2017: Cellular Oncology (Dordrecht)
https://www.readbyqxmd.com/read/28936470/porcine-esophageal-submucosal-gland-culture-model-shows-capacity-for-proliferation-and-differentiation
#15
Richard J von Furstenberg, Joy Li, Christina Stolarchuk, Rachel Feder, Alexa Campbell, Leandi Kruger, Liara M Gonzalez, Anthony T Blikslager, Diana M Cardona, Shannon J McCall, Susan J Henning, Katherine S Garman
BACKGROUND & AIMS: Although cells comprising esophageal submucosal glands (ESMGs) represent a potential progenitor cell niche, new models are needed to understand their capacity to proliferate and differentiate. By histologic appearance, ESMGs have been associated with both overlying normal squamous epithelium and columnar epithelium. Our aim was to assess ESMG proliferation and differentiation in a 3-dimensional culture model. METHODS: We evaluated proliferation in human ESMGs from normal and diseased tissue by proliferating cell nuclear antigen immunohistochemistry...
November 2017: Cellular and Molecular Gastroenterology and Hepatology
https://www.readbyqxmd.com/read/28936122/depletion-of-club-cells-attenuates-bleomycin-induced-lung-injury-and-fibrosis-in-mice
#16
Tetsuya Yokoyama, Toyoshi Yanagihara, Kunihiro Suzuki, Naoki Hamada, Kazuya Tsubouchi, Saiko Ogata-Suetsugu, Hironori Mikumo, Chika Ikeda-Harada, Takashige Maeyama, Kazuyoshi Kuwano, Yoichi Nakanishi
BACKGROUND: The role of bronchiolar epithelial cells in the pathogenesis of pulmonary fibrosis has not been clarified. We previously demonstrated DNA damage in murine bronchioles in the early stages of bleomycin-induced pulmonary fibrosis that subsequently extended to alveolar cells at the advanced stages of the disease. Club cells are progenitor cells for bronchioles and are known to play protective roles against lung inflammation and damage. The aim of the present study was to elucidate the role of club cells in the development of pulmonary fibrosis...
2017: Journal of Inflammation
https://www.readbyqxmd.com/read/28935972/chromosomal-microarray-analysis-in-a-cohort-of-underrepresented-population-identifies-serinc2-as-a-novel-candidate-gene-for-autism-spectrum-disorder
#17
Areerat Hnoonual, Weerin Thammachote, Thipwimol Tim-Aroon, Kitiwan Rojnueangnit, Tippawan Hansakunachai, Tasanawat Sombuntham, Rawiwan Roongpraiwan, Juthamas Worachotekamjorn, Jariya Chuthapisith, Suthat Fucharoen, Duangrurdee Wattanasirichaigoon, Nichara Ruangdaraganon, Pornprot Limprasert, Natini Jinawath
Chromosomal microarray (CMA) is now recognized as the first-tier genetic test for detection of copy number variations (CNVs) in patients with autism spectrum disorder (ASD). The aims of this study were to identify known and novel ASD associated-CNVs and to evaluate the diagnostic yield of CMA in Thai patients with ASD. The Infinium CytoSNP-850K BeadChip was used to detect CNVs in 114 Thai patients comprised of 68 retrospective ASD patients (group 1) with the use of CMA as a second line test and 46 prospective ASD and developmental delay patients (group 2) with the use of CMA as the first-tier test...
September 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28935967/mircrorna-19a-promotes-vascular-inflammation-and-foam-cell-formation-by-targeting-hbp-1-in-atherogenesis
#18
Heming Chen, Xiaoyi Li, Shuiyi Liu, Lu Gu, Xinmin Zhou
Atherosclerosis, a serious threat to human cardiovascular health, involves inflammation throughout its various stages of development. MicroRNAs play an important regulatory role in macrophages that respond to inflammation, but the underlying mechanisms are largely unknown. In this work, we study the impact of miR-19a in macrophage-derived foam cell formation during atherogenesis. A microarray-based analysis of serums from patients with coronary heart disease in comparison with healthy controls reveals a significant enrichment of miR-19a in the serums of atherosclerosis patients...
September 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28935818/increased-mir-124-3p-in-microglial-exosomes-following-traumatic-brain-injury-inhibits-neuronal-inflammation-and-contributes-to-neurite-outgrowth-via-their-transfer-into-neurons
#19
Shan Huang, Xintong Ge, Jinwen Yu, Zhaoli Han, Zhenyu Yin, Ying Li, Fanglian Chen, Haichen Wang, Jianning Zhang, Ping Lei
Neuronal inflammation is the characteristic pathologic change of acute neurologic impairment and chronic traumatic encephalopathy after traumatic brain injury (TBI). Inhibiting the excessive inflammatory response is essential for improving the neurologic outcome. To clarify the regulatory mechanism of microglial exosomes on neuronal inflammation in TBI, we focused on studying the impact of microglial exosomal miRNAs on injured neurons in this research. We used a repetitive (r)TBI mouse model and harvested the injured brain extracts from the acute to the chronic phase of TBI to treat cultured BV2 microglia in vitro The microglial exosomes were collected for miRNA microarray analysis, which showed that the expression level of miR-124-3p increased most apparently in the miRNAs...
September 21, 2017: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/28934986/identification-of-novel-candidate-disease-genes-from-de-novo-exonic-copy-number-variants
#20
Tomasz Gambin, Bo Yuan, Weimin Bi, Pengfei Liu, Jill A Rosenfeld, Zeynep Coban-Akdemir, Amber N Pursley, Sandesh C S Nagamani, Ronit Marom, Sailaja Golla, Lauren Dengle, Heather G Petrie, Reuben Matalon, Lisa Emrick, Monica B Proud, Diane Treadwell-Deering, Hsiao-Tuan Chao, Hannele Koillinen, Chester Brown, Nora Urraca, Roya Mostafavi, Saunder Bernes, Elizabeth R Roeder, Kimberly M Nugent, Patricia I Bader, Gary Bellus, Michael Cummings, Hope Northrup, Myla Ashfaq, Rachel Westman, Robert Wildin, Anita E Beck, LaDonna Immken, Lindsay Elton, Shaun Varghese, Edward Buchanan, Laurence Faivre, Mathilde Lefebvre, Christian P Schaaf, Magdalena Walkiewicz, Yaping Yang, Sung-Hae L Kang, Seema R Lalani, Carlos A Bacino, Arthur L Beaudet, Amy M Breman, Janice L Smith, Sau Wai Cheung, James R Lupski, Ankita Patel, Chad A Shaw, Paweł Stankiewicz
BACKGROUND: Exon-targeted microarrays can detect small (<1000 bp) intragenic copy number variants (CNVs), including those that affect only a single exon. This genome-wide high-sensitivity approach increases the molecular diagnosis for conditions with known disease-associated genes, enables better genotype-phenotype correlations, and facilitates variant allele detection allowing novel disease gene discovery. METHODS: We retrospectively analyzed data from 63,127 patients referred for clinical chromosomal microarray analysis (CMA) at Baylor Genetics laboratories, including 46,755 individuals tested using exon-targeted arrays, from 2007 to 2017...
September 21, 2017: Genome Medicine
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