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https://www.readbyqxmd.com/read/29786969/hippocampal-lipidome-and-transcriptome-profile-alterations-triggered-by-acute-exposure-of-mice-to-gsm-1800-mhz-mobile-phone-radiation-an-exploratory-study
#1
Adamantia F Fragopoulou, Alexandros Polyzos, Maria-Despoina Papadopoulou, Anna Sansone, Areti K Manta, Evangelos Balafas, Nikolaos Kostomitsopoulos, Aikaterini Skouroliakou, Chryssostomos Chatgilialoglu, Alexandros Georgakilas, Dimitrios J Stravopodis, Carla Ferreri, Dimitris Thanos, Lukas H Margaritis
BACKGROUND: The widespread use of wireless devices during the last decades is raising concerns about adverse health effects of the radiofrequency electromagnetic radiation (RF-EMR) emitted from these devices. Recent research is focusing on unraveling the underlying mechanisms of RF-EMR and potential cellular targets. The "omics" high-throughput approaches are powerful tools to investigate the global effects of RF-EMR on cellular physiology. METHODS: In this work, C57BL/6 adult male mice were whole-body exposed (nE xp  = 8) for 2 hr to GSM 1800 MHz mobile phone radiation at an average electric field intensity range of 4...
May 22, 2018: Brain and Behavior
https://www.readbyqxmd.com/read/29786871/gender-specific-effects-of-selection-for-drinking-in-the-dark-on-the-network-roles-of-coding-and-non-coding-rnas
#2
Ovidiu Dan Iancu, Alex Colville, Beth Wilmot, Robert Searles, Priscila Darakjian, Christina Zheng, Shannon McWeeney, Sunita Kawane, John C Crabbe, Pamela Metten, Denesa Oberbeck, Robert Hitzemann
BACKGROUND: Transcriptional differences between Heterogeneous stock (HS/NPT) mice and High Drinking in the Dark (HDID) selected mouse lines have previously been described based on microarray technology coupled with network based analysis (Iancu et al., 2013b). The network changes were reproducible in two independent selections and largely confined to two distinct network modules; in contrast differential expression appeared more specific to each selected line. The current study extends these results by utilizing RNA-Seq technology, allowing evaluation of the relationship between genetic risk and transcription of non-coding RNA; we additionally evaluate sex-specific transcriptional effects of selection...
May 22, 2018: Alcoholism, Clinical and Experimental Research
https://www.readbyqxmd.com/read/29786789/protocols-for-tissue-microarrays-in-prostate-cancer-studies
#3
Tatjana Vlajnic, Serenella Eppenberger-Castori, Lukas Bubendorf
Tissue microarray (TMA) technology is a method for high-throughput analysis of tissue biomarkers, commonly used in translational cancer research. TMAs allow performing a variety of in situ applications on hundreds of tissue samples simultaneously using the same protocols as for conventional slides. Thereby, precious material from patient samples remains largely preserved while costs in resources and time in laboratory processing decrease. Therefore, a TMA is a powerful tool to identify and study biomarkers that may have a potential diagnostic, prognostic, and predictive value...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29785832/lectin-microarray-combined-with-mass-spectrometry-identifies-haptoglobin-related-protein-hpr-as-a-potential-serologic-biomarker-for-separating-non-bacterial-pneumonia-from-bacterial-pneumonia-in-childhood
#4
Lin Yang, Zhou Yang, Lei Cheng, Juan Cheng, Li Cheng, Yangyang Sun, Wenting Li, Kai Song, Weichun Huang, Yong Yin, Shengce Tao, Qinghua Zhang
PURPOSE: Etiological diagnosis of pediatric patients with community-acquired pneumonia is difficult. For therapy, one of the major problems is the difficulty in separating bacterial pneumonia which would benefit from antibiotics from non-bacterial pneumonia. Therefore, we sought to identify potential biomarkers for distinguishing non-bacterial pneumonia from bacterial pneumonia. EXPERIMENTAL DESIGN: Lectin microarray containing 91 lectins was used to screen serums from pediatric patients with pneumonia...
May 22, 2018: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/29785641/in-silico-analysis-of-natural-resistance-associated-macrophage-protein-nramp-family-of-transporters-in-rice
#5
Anitha Mani, Kavitha Sankaranarayanan
In Oryza sativa (rice) there are seven members in the NRAMP (natural resistance- associated macrophage protein) family of transporter proteins. They have been identified as OsNRAMP1, OsNRAMP2, OsNRAMP3, OsNRAMP4, OsNRAMP5, OsNRAMP6 and OsNRAMP7. Several metal ions like Zn2+ , Mn2+ , Fe2+ , Cd2+ etc. have been studied to be transported via NRAMP transporter proteins in rice plant. In spite of this, very little information is available regarding these transporters. Hence it is important to computationally predict and characterize the OsNRAMP family of transporters for studying and understanding their molecular insights in future studies...
May 21, 2018: Protein Journal
https://www.readbyqxmd.com/read/29785339/identification-of-potential-crucial-genes-and-pathways-associated-with-vein-graft-restenosis-based-on-gene-expression-analysis-in-experimental-rabbits
#6
Qiang Liu, Xiujie Yin, Mingzhu Li, Li Wan, Liqiao Liu, Xiang Zhong, Zhuoqi Liu, Qun Wang
Occlusive artery disease (CAD) is the leading cause of death worldwide. Bypass graft surgery remains the most prevalently performed treatment for occlusive arterial disease, and veins are the most frequently used conduits for surgical revascularization. However, the clinical efficacy of bypass graft surgery is highly affected by the long-term potency rates of vein grafts, and no optimal treatments are available for the prevention of vein graft restenosis (VGR) at present. Hence, there is an urgent need to improve our understanding of the molecular mechanisms involved in mediating VGR...
2018: PeerJ
https://www.readbyqxmd.com/read/29785125/-znf418-overexpression-protects-against-gastric-carcinoma-and-prompts-a-good-prognosis
#7
Hong-Xia Hui, Zhong-Wu Hu, Chao Jiang, Jian Wu, Yong Gao, Xiao-Wei Wang
Background: This study aimed to investigate the prognostic power of zinc-finger protein 418 ( ZNF418 ) in gastric cancer (GC) and its potential role in GC development and progression. Patients and methods: A total of 10 GC patients' individual plasmas were collected and screened for dysregulated mRNA using human microarray. Among these dysregulated mRNAs, ZNF418 was found to be significantly downregulated in IIIA-IV stage GC patients compared to IA-IIA stage GC patients...
2018: OncoTargets and Therapy
https://www.readbyqxmd.com/read/29785071/identification-of-cis-regulatory-elements-associated-with-salinity-and-drought-stress-tolerance-in-rice-from-co-expressed-gene-interaction-networks
#8
Pragya Mishra, Nisha Singh, Ajay Jain, Neha Jain, Vagish Mishra, Pushplatha G, Kiran P Sandhya, Nagendra Kumar Singh, Vandna Rai
Rice, a staple food crop, is often subjected to drought and salinity stresses thereby limiting its yield potential. Since there is a cross talk between these abiotic stresses, identification of common and/or overlapping regulatory elements is pivotal for generating rice cultivars that showed tolerance towards them. Analysis of the gene interaction network (GIN) facilitates identifying the role of individual genes and their interactions with others that constitute important molecular determinants in sensing and signaling cascade governing drought and/or salinity stresses...
2018: Bioinformation
https://www.readbyqxmd.com/read/29785064/identification-of-relevant-subtypes-via-preweighted-sparse-clustering
#9
Sheila Gaynor, Eric Bair
Cluster analysis methods are used to identify homogeneous subgroups in a data set. In biomedical applications, one frequently applies cluster analysis in order to identify biologically interesting subgroups. In particular, one may wish to identify subgroups that are associated with a particular outcome of interest. Conventional clustering methods generally do not identify such subgroups, particularly when there are a large number of high-variance features in the data set. Conventional methods may identify clusters associated with these high-variance features when one wishes to obtain secondary clusters that are more interesting biologically or more strongly associated with a particular outcome of interest...
December 2017: Computational Statistics & Data Analysis
https://www.readbyqxmd.com/read/29785040/archetypal-transcriptional-blocks-underpin-yeast-gene-regulation-in-response-to-changes-in-growth-conditions
#10
David Talavera, Christopher J Kershaw, Joseph L Costello, Lydia M Castelli, William Rowe, Paul F G Sims, Mark P Ashe, Chris M Grant, Graham D Pavitt, Simon J Hubbard
The transcriptional responses of yeast cells to diverse stresses typically include gene activation and repression. Specific stress defense, citric acid cycle and oxidative phosphorylation genes are activated, whereas protein synthesis genes are coordinately repressed. This view was achieved from comparative transcriptomic experiments delineating sets of genes whose expression greatly changed with specific stresses. Less attention has been paid to the biological significance of 1) consistent, albeit modest, changes in RNA levels across multiple conditions, and 2) the global gene expression correlations observed when comparing numerous genome-wide studies...
May 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29785020/glypican-1-immunohistochemistry-does-not-separate-mesothelioma-from-pulmonary-adenocarcinoma
#11
Kenrry Chiu, Lawrence Lee, Simon Cheung, Andrew M Churg
Immunohistochemistry (IHC) is used to help differentiate pleural mesothelioma from pulmonary adenocarcinoma in pleural biopsies and cytology specimens of pleural effusions due to overlapping morphologic features between these two malignancies. The aim of this study is to evaluate IHC glypican-1, a recently proposed marker for epithelioid mesothelioma, in our cohort of mesotheliomas and pulmonary adenocarcinoma. Tissue microarrays with duplicate cores from 33 cases of mesotheliomas (28 epithelioid type and five sarcomatoid type) and 21 cases of pulmonary adenocarcinoma were stained with glypican-1 antibody...
May 21, 2018: Modern Pathology: An Official Journal of the United States and Canadian Academy of Pathology, Inc
https://www.readbyqxmd.com/read/29785002/using-single-molecule-mrna-fluorescent-in-situ-hybridization-rna-fish-to-quantify-mrnas-in-individual-murine-oocytes-and-embryos
#12
Fang Xie, Kelsey A Timme, Jennifer R Wood
Changes in abundance of mRNAs during oocyte growth and maturation and during pre-implantation embryo development have been documented using quantitative real-time RT-PCR (qPCR), microarray analyses, and whole genome sequencing. However, these techniques require amplification of mRNAs, normalization using housekeeping genes, can be biased for abundant transcripts, and/or require large numbers of oocytes and embryos which can be difficult to acquire from mammalian species. We optimized a single molecule RNA fluorescence in situ hybridization (RNA-FISH) protocol, which amplifies fluorescence signal to detect candidate transcripts, for use with individual oocytes and embryos...
May 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29784873/chemokine-c-x-c-motif-ligand-1-cxcl1-is-associated-with-tumor-progression-and-poor-prognosis-in-patients-with-colorectal-cancer
#13
Changhua Zhuo, Xianyi Wu, Jing Li, Dan Hu, Jinliang Jian, Changjiang Chen, Xiongwei Zheng, Chunkang Yang
Chemokine (C-X-C motif) ligand 1 (CXCL1) is a chemotactic cytokine known to regulate cancer progression and invasion. However, the prognostic significance of CXCL1 expression in colorectal cancer (CRC) has not been fully characterized. This study explored the clinicopathological significance and potential role of CXCL1 in the carcinogenesis and progression of CRC. The protein expression of CXCL1 was measured immunohistochemically in tissue microarrays constructed from 276 CRC patients. CXCL1 expression levels and their associations with clinicopathological characteristics and patient survival were evaluated...
May 21, 2018: Bioscience Reports
https://www.readbyqxmd.com/read/29784674/clinically-relevant-cytotoxic-immune-cell-signatures-and-clonal-expansion-of-t-cell-receptors-in-high-risk-mycn-not-amplified-human-neuroblastoma
#14
Jun S Wei, Igor B Kuznetsov, Shile Zhang, Young K Song, Shahab Asgharzadeh, Sivasish Sindiri, Xinyu Wen, Rajesh Patidar, Sushma Nagaraj, Ashley Walton, Jaime M Guidry Auvil, Daniela S Gerhard, Aysen Yuksel, Daniel R Catchpoole, Stephen M Hewitt, Paul M Sondel, Robert C Seeger, John M Maris, Javed Khan
PURPOSE: High-risk neuroblastoma is an aggressive disease. DNA sequencing studies have revealed a paucity of actionable genomic alterations and a low mutation burden, posing challenges to develop effective novel therapies. We used RNA sequencing (RNA-seq) to investigate the biology of this disease including a focus on tumor-infiltrating lymphocytes (TILs). EXPERIMENTAL DESIGN: We performed deep RNA-seq on pre-treatment diagnostic tumors from 129 high-risk and 21 low- or intermediate-risk patients with neuroblastomas...
May 21, 2018: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/29784605/code-seq-an-augmented-whole-exome-sequencing-enables-the-accurate-detection-of-cnvs-and-mutations-in-mendelian-obesity-and-intellectual-disability
#15
Louise Montagne, Mehdi Derhourhi, Amélie Piton, Bénédicte Toussaint, Emmanuelle Durand, Emmanuel Vaillant, Dorothée Thuillier, Stefan Gaget, Franck De Graeve, Iandry Rabearivelo, Amélie Lansiaux, Bruno Lenne, Sylvie Sukno, Rachel Desailloud, Miriam Cnop, Ramona Nicolescu, Lior Cohen, Jean-François Zagury, Mélanie Amouyal, Jacques Weill, Jean Muller, Olivier Sand, Bruno Delobel, Philippe Froguel, Amélie Bonnefond
OBJECTIVE: The molecular diagnosis of extreme forms of obesity, in which accurate detection of both copy number variations (CNVs) and point mutations, is crucial for an optimal care of the patients and genetic counseling for their families. Whole-exome sequencing (WES) has benefited considerably this molecular diagnosis, but its poor ability to detect CNVs remains a major limitation. We aimed to develop a method (CoDE-seq) enabling the accurate detection of both CNVs and point mutations in one step...
May 16, 2018: Molecular Metabolism
https://www.readbyqxmd.com/read/29784365/rapid-detection-of-four-mycotoxins-in-corn-using-a-microfluidics-and-microarray-based-immunoassay-system
#16
Yiqi Chen, Xiangrui Meng, Yunzeng Zhu, Minjie Shen, Ying Lu, Jing Cheng, Youchun Xu
Mycotoxins threaten human health seriously because they usually exist in food, fodder and commodities. In this study, a rapid and sensitive immunoassay system for commonly encountered mycotoxins was established based on microfluidics and protein microarrays. Four mycotoxins (T-2 toxin, aflatoxin B1, ochratoxin A, and zearalenone) can be automatically detected in a custom-made microdevice within 30 min under the assistance of a prototype of the instrument with a fluid control system and an imaging system. Once the microdevices are fabricated, they are small-sized and user-friendly...
August 15, 2018: Talanta
https://www.readbyqxmd.com/read/29784129/the-non-psychoactive-phytocannabinoid-cannabidiol-cbd-attenuates-pro-inflammatory-mediators-t-cell-infiltration-and-thermal-sensitivity-following-spinal-cord-injury-in-mice
#17
Hongbo Li, Weimin Kong, Christina R Chambers, Daohai Yu, Doina Ganea, Ronald F Tuma, Sara Jane Ward
We evaluated the effects of the non-psychoactive cannabinoid cannabidiol (CBD) on the inflammatory response and recovery of function following spinal cord injury (SCI). Female C57Bl/6 mice were exposed to spinal cord contusion injury (T9-10) and received vehicle or CBD (1.5 mg/kg IP) injections for 10 weeks following injury. The effect of SCI and CBD treatment on inflammation was assessed via microarray, qRT-PCR and flow cytometry. Locomotor and bladder function and changes in thermal and mechanical hind paw sensitivity were also evaluated...
March 8, 2018: Cellular Immunology
https://www.readbyqxmd.com/read/29784063/protein-coding-genes-combined-with-long-noncoding-rna-as-a-novel-transcriptome-molecular-staging-model-to-predict-the-survival-of-patients-with-esophageal-squamous-cell-carcinoma
#18
Jin-Cheng Guo, Yang Wu, Yang Chen, Feng Pan, Zhi-Yong Wu, Jia-Sheng Zhang, Jian-Yi Wu, Xiu-E Xu, Jian-Mei Zhao, En-Min Li, Yi Zhao, Li-Yan Xu
BACKGROUND: Esophageal squamous cell carcinoma (ESCC) is the predominant subtype of esophageal carcinoma in China. This study was to develop a staging model to predict outcomes of patients with ESCC. METHODS: Using Cox regression analysis, principal component analysis (PCA), partitioning clustering, Kaplan-Meier analysis, receiver operating characteristic (ROC) curve analysis, and classification and regression tree (CART) analysis, we mined the Gene Expression Omnibus database to determine the expression profiles of genes in 179 patients with ESCC from GSE63624 and GSE63622 dataset...
April 9, 2018: Cancer communications
https://www.readbyqxmd.com/read/29784013/vegf-vascularization-pathway-in-human-intervertebral-disc-does-not-change-during-the-disc-degeneration-process
#19
Simona Capossela, Alessandro Bertolo, Kapila Gunasekera, Tobias Pötzel, Martin Baur, Jivko V Stoyanov
OBJECTIVE: During degeneration of the intervertebral disc ingrowth of blood vessels and nerves into the disc are associated with back pain. Vascular endothelial growth factors promote vasculogenesis by binding to the membrane vascular endothelial growth factor receptor 1, while shorter soluble forms of this receptor can inhibit vascularization. We hypothesized that membrane and soluble receptor forms might change between stages of intervertebral disc degeneration. RESULTS: Expression of soluble and membrane forms of vascular endothelial growth factor receptor 1 in human degenerated intervertebral discs and healthy bovine caudal discs was assessed by qRT-PCR and immunoblot...
May 22, 2018: BMC Research Notes
https://www.readbyqxmd.com/read/29783949/gene-copy-number-variation-in-natural-populations-of-plasmodium-falciparum-in-eastern-africa
#20
Joan Simam, Martin Rono, Joyce Ngoi, Mary Nyonda, Sachel Mok, Kevin Marsh, Zbynek Bozdech, Margaret Mackinnon
BACKGROUND: Gene copy number variants (CNVs), which consist of deletions and amplifications of single or sets of contiguous genes, contribute to the great diversity in the Plasmodium falciparum genome. In vitro studies in the laboratory have revealed their important role in parasite fitness phenotypes such as red cell invasion, transmissibility and cytoadherence. Studies of natural parasite populations indicate that CNVs are also common in the field and thus may facilitate adaptation of the parasite to its local environment...
May 21, 2018: BMC Genomics
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