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https://www.readbyqxmd.com/read/28339824/a-phase-i-trial-of-the-mek-inhibitor-selumetinib-azd6244-in-pediatric-patients-with-recurrent-or-refractory-low-grade-glioma-a-pediatric-brain-tumor-consortium-pbtc-study
#1
Anuradha Banerjee, Regina I Jakacki, Arzu Onar-Thomas, Shengjie Wu, Theodore Nicolaides, Tina Young Poussaint, Jason Fangusaro, Joanna Phillips, Arie Perry, David Turner, Michael Prados, Roger J Packer, Ibrahim Qaddoumi, Sridharan Gururangan, Ian F Pollack, Stewart Goldman, Lawrence A Doyle, Clinton F Stewart, James M Boyett, Larry E Kun, Maryam Fouladi
Background.: Activation of the mitogen-activated protein kinase pathway is important for growth of pediatric low-grade gliomas (LGGs). The aim of this study was to determine the recommended phase II dose (RP2D) and the dose-limiting toxicities (DLTs) of the MEK inhibitor selumetinib in children with progressive LGG. Methods.: Selumetinib was administered orally starting at 33 mg/m2/dose b.i.d., using the modified continual reassessment method. Pharmacokinetic analysis was performed during the first course...
February 28, 2017: Neuro-oncology
https://www.readbyqxmd.com/read/28339187/accurate-mirna-analysis-in-crude-cell-lysate-by-capillary-electrophoresis-based-hybridization-assay-in-comparison-with-quantitative-reverse-transcription-polymerase-chain-reaction
#2
Liang Hu, Alexander S Stasheuski, David W Wegman, Nan Wu, Burton B Yang, Heyam Hayder, Chun Peng, Stanley K Liu, George M Yousef, Sergey N Krylov
Accurate quantitation of microRNA (miRNA) in tissue samples is required for validation and clinical use of miRNA-based disease biomarkers. Since sample processing, such as RNA extraction, introduces undesirable biases, it is advantageous to measure miRNA in a crude cell lysate. Here we report on accurate miRNA quantitation in crude cell lysate by a CE-based hybridization assay termed direct quantitative analysis of multiple miRNAs (DQAMmiR). Accuracy and precision of miRNA quantitation were determined for miRNA samples in a crude cell lysate, RNA extract from the lysate, and a pure buffer...
March 24, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28339040/detection-assay-for-hpv16-and-hpv18-by-loop%C3%A2-mediated-isothermal-amplification-with-lateral-flow-dipstick-tests
#3
Ratchanida Kumvongpin, Patcharee Jearanaikoon, Chotchana Wilailuckana, Nattaya Sae-Ung, Prinya Prasongdee, Sakda Daduang, Metee Wongsena, Patcharee Boonsiri, Wansika Kiatpathomchai, Sukumarn Sanersak Swangvaree, Alisa Sandee, Jureerut Daduang
Cervical cancer is the third highest cause of death in developing countries and most commonly results from high‑risk human papillomavirus (HR‑HPV) infection. Among HR‑HPV genotypes, HPV16 and HPV18 are the most prevalent in cervical cancers. Therefore, the present study aimed to develop a detection assay for HPV16 and HPV18 infection using loop‑mediated isothermal amplification (LAMP) with lateral flow dipstick (LFD) tests. This assay is a simplified, user‑friendly method for the visual detection of HPV genotypes...
March 23, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28338710/the-wrky-transcription-factors-ptrwrky18-and-ptrwrky35-promote-melampsora-resistance-in-populus
#4
Yuanzhong Jiang, Li Guo, Xiaodong Ma, Xin Zhao, Bo Jiao, Chaofeng Li, Keming Luo
WRKY transcription factors play important roles in response to diverse environmental stresses, but exact functions of these proteins in poplar defense are still largely unknown. In a previous study, we have shown that poplar WRKY89 is induced by salicylic acid (SA) treatment and plays an important role in resistance against fungi in transgenic poplars. Here, we determined an increase in transcript levels of Group IIa WRKY members in transgenic poplars overexpressing WRKY89 using quantitative real-time polymerase chain reaction analysis...
February 15, 2017: Tree Physiology
https://www.readbyqxmd.com/read/28333167/a-complex-intragenic-rearrangement-of-ercc8-in-chinese-siblings-with-cockayne-syndrome
#5
Hua Xie, Xiaoyan Li, Jiping Peng, Qian Chen, ZhiJie Gao, Xiaozhen Song, WeiYu Li, Jianqiu Xiao, Caihua Li, Ting Zhang, James F Gusella, Jianmin Zhong, Xiaoli Chen
Cockayne syndrome is an autosomal recessive disorder principally characterized by postnatal growth failure and progressive neurological dysfunction, due primarily to mutations in ERCC6 and ERCC8. Here, we report our diagnostic experience for two patients in a Chinese family suspected on clinical grounds to have Cockayne syndrome. Using multiple molecular techniques, including whole exome sequencing, array comparative genomic hybridization and quantitative polymerase chain reaction, we identified compound heterozygosity for a maternal splicing variant (chr5:60195556, NM_000082:c...
March 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28332161/real-time-pcr-identification-of-six-malassezia-species
#6
Amin Ilahi, Inès Hadrich, Sourour Neji, Houaida Trabelsi, Fattouma Makni, Ali Ayadi
Lipophilic yeast Malassezia species is widely found on the skin surface of humans and other animals. This fungus can cause pityriasis versicolor, Malassezia folliculitis, and seborrheic dermatitis. Still now, there is a problem with species identification of Malassezia with conventional methods. We developed a real-time polymerase chain reaction (PCR) assay with multiple hybridization probes for detecting M. globosa, M. furfur, M. restricta, M. sympodialis, M. slooffiae, and M. pachydermatis. The amplification curves and specific melting peaks of the probes hybridized with real-time PCR product were used for species identifications...
March 22, 2017: Current Microbiology
https://www.readbyqxmd.com/read/28326155/dental-plaque-microbial-profiles-of-children-from-khartoum-sudan-with-congenital-heart-defects
#7
Hiba Mohamed Ali, Ellen Berggreen, Daniel Nguyen, Raouf Wahab Ali, Thomas E Van Dyke, Hatice Hasturk, Manal Mustafa
Few studies have focused on the bacterial species associated with the deterioration of the dental and gingival health of children with congenital heart defects (CHD). The aims of this study were (1) to examine the dental plaque of children with CHD in order to quantify bacterial load and altered bacterial composition compared with children without CHD; and (2) to investigate the correlation between the level of caries and gingivitis and dental biofilm bacteria among those children. In this cross-sectional study, participants were children (3-12 years) recruited in Khartoum State, Sudan...
2017: Journal of Oral Microbiology
https://www.readbyqxmd.com/read/28325349/nanocrystalline-cellulose-fullerene-novel-conjugates
#8
A Herreros-López, M Carini, T Da Ros, T Carofiglio, C Marega, V La Parola, V Rapozzi, L E Xodo, Ali A Alshatwi, C Hadad, M Prato
The covalent grafting of two amino-fullerene C60 derivatives (C60-LC-NH2 and C60-SC-NH2, LC=long chain and SC=short chain) onto the surface of TEMPO oxidized nanocrystalline cellulose (NCC-COOH) has been reported for the first time. These hybrids (NCC-LC-C60 and NCC-SC-C60) form stable colloidal suspensions at concentrations up to 0.5mg/mL and act as effective photosensitizers for singlet oxygen production as demonstrated by the oxidation of L-methionine-methyl ester to the corresponding sulphoxide. Using the same approach, in a one-pot reaction both a fluorescent target molecule (FITC-LC-NH2) and the C60-LC-NH2 derivative have been successfully attached covalently onto the NCC-COOH surface...
May 15, 2017: Carbohydrate Polymers
https://www.readbyqxmd.com/read/28321783/biological-and-mechanical-effects-of-micro-nanostructured-titanium-surface-on-an-osteoblastic-cell-line-in-vitro-and-osteointegration-in-vivo
#9
Jingzu Hao, Ying Li, Baoe Li, Xiaolin Wang, Haipeng Li, Shimin Liu, Chunyong Liang, Hongshui Wang
Hybrid micro-nanostructure implant surface was produced on titanium (Ti) surface by acid etching and anodic oxidation to improve the biological and mechanical properties. The biological properties of the micro-nanostructure were investigated by simulated body fluid (SBF) soaking test and MC3T3-E1 cell co-culture experiment. The cell proliferation, spreading, and bone sialoprotein (BSP) gene expression were examined by MTT, SEM, and reverse transcription-polymerase chain reaction (RT-PCR), respectively. In addition, the mechanical properties were evaluated by instrumented nanoindentation test and friction-wear test...
March 20, 2017: Applied Biochemistry and Biotechnology
https://www.readbyqxmd.com/read/28321224/specific-igg-antibodies-react-to-mimotopes-of-bk-polyomavirus-a-small-dna-tumor-virus-in-healthy-adult-sera
#10
Silvia Pietrobon, Ilaria Bononi, Elisa Mazzoni, Francesca Lotito, Marco Manfrini, Andrea Puozzo, Federica Destro, Giovanni Guerra, Pier Francesco Nocini, Fernanda Martini, Mauro G Tognon
BK polyomavirus (BKPyV) was isolated in 1971 from the urine of a kidney transplant patient. Soon after its identification, BKPyV was characterized as a kidney-tropic virus, which is responsible of a significant fraction of the rejection of transplant kidney in the host. Moreover, in experimental conditions, BKPyV is able to transform different types of animal and human cells and to induce tumors of different histotypes in experimental animals. BKPyV DNA sequences have been detected in healthy individuals and cancer patients using polymerase chain reaction/Shouthern blot hybridization methods...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28315422/sfpq-psf-tfe3-renal-cell-carcinoma-rcc-a-clinicopathologic-study-emphasizing-extended-morphology-and-reviewing-the-differences-between-sfpq-tfe3-rcc-and-the-corresponding-mesenchymal-neoplasm-despite-an-identical-gene-fusion
#11
Xiao-Tong Wang, Qiu-Yuan Xia, Hao Ni, Sheng-Bing Ye, Rui Li, Xuan Wang, Shan-Shan Shi, Xiao-Jun Zhou, Qiu Rao
Xp11 translocation renal cell carcinoma (RCC) with SFPQ/PSF-TFE3 gene fusion is a rare epithelial tumor. Of note, the appearance of the gene fusion does not necessarily mean that it is renal cell carcinoma. The corresponding mesenchymal neoplasms, including Xp11 neoplasm with melanocytic differentiation, TFE3 rearrangement-associated perivascular epithelioid cell tumor (PEComa) and melanotic Xp11 translocation renal cancer, can also harbor the identical gene fusion. However, the differences between Xp11 translocation RCC and the corresponding mesenchymal neoplasm have only recently been described...
March 14, 2017: Human Pathology
https://www.readbyqxmd.com/read/28302536/rna-chromogenic-in-situ-hybridization-assay-with-clinical-automated-platform-is-a-sensitive-method-in-detecting-high-risk-human-papillomavirus-in-squamous-cell-carcinoma
#12
Javier E Mendez-Pena, Peter M Sadow, Vania Nose, Mai P Hoang
Detection of active human papillomavirus (HPV) is clinically important, as its presence has been shown to correlate with favorable clinical outcomes and better response to treatment in oropharyngeal squamous cell carcinomas (SCC). Using a clinical automated platform, we compared the performance of commercially available HPV DNA and RNA in situ hybridization (ISH) probes in archival tissues of 57 SCC. Importantly, a clinical automated platform gives 1) consistent and reproducible results for HPV ISH and 2) better standardization across clinical laboratories...
March 13, 2017: Human Pathology
https://www.readbyqxmd.com/read/28300202/thermoalign-a-genome-aware-primer-design-tool-for-tiled-amplicon-resequencing
#13
Felix Francis, Michael D Dumas, Randall J Wisser
Isolating and sequencing specific regions in a genome is a cornerstone of molecular biology. This has been facilitated by computationally encoding the thermodynamics of DNA hybridization for automated design of hybridization and priming oligonucleotides. However, the repetitive composition of genomes challenges the identification of target-specific oligonucleotides, which limits genetics and genomics research on many species. Here, a tool called ThermoAlign was developed that ensures the design of target-specific primer pairs for DNA amplification...
March 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28299678/an-electrochemical-dna-sensing-system-using-modified-nanoparticle-probes-for-detecting-methicillin-resistant-staphylococcus-aureus
#14
Hiroaki Sakamoto, Yoshihisa Amano, Takenori Satomura, Shin-Ichiro Suye
We have developed a novel, highly sensitive, biosensing system for detecting methicillin-resistant Staphylococcus aureus (MRSA). The system employs gold nanoparticles (AuNPs), magnetic nanoparticles (mNPs), and an electrochemical detection method. We have designed and synthesized ferrocene- and single-stranded DNA-conjugated nanoparticles that hybridize to MRSA DNA. Hybridized complexes are easily separated by taking advantage of mNPs. A current response could be obtained through the oxidation of ferrocene on the AuNP surface when a constant potential of +250 mV vs...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28298621/silencing-nc886-a-non-coding-rna-induces-apoptosis-of-human-endometrial-cancer-cells-1a-in-vitro
#15
Zhuoying Hu, Hongyu Zhang, Liangdan Tang, Meng Lou, Yanqing Geng
BACKGROUND The role that nc886, a non-coding microRNA, plays in human endometrial cancer is unknown. The present study aimed to describe the functional role of nc886 in human endometrial cancer-1A (HEC-1A) cell line, which may provide another target for human endometrial cancer treatment. MATERIAL AND METHODS The expression levels of nv886 in normal human endometrial tissue and the early phase and late phase of human endometrial cancer tissues were determined and compared by fluorescence in situ hybridization (FISH)...
March 16, 2017: Medical Science Monitor: International Medical Journal of Experimental and Clinical Research
https://www.readbyqxmd.com/read/28296250/different-genetic-alteration-of-a20-in-a-s%C3%A3-zary-syndrome-case-with-v%C3%AE-2-j%C3%AE-22-t-cell-clone
#16
Lingling Zhou, Haitao Zheng, Xin Huang, Lihua Zhu, Suijing Wu, Chengwu Zeng, Lijian Yang, Shaohua Chen, Gengxin Luo, Xin Du, Yangqiu Li
BACKGROUND: The comprehensive genetic alterations underlying the pathogenesis of Sézary syndrome (SS) remains largely unknown. Previous studies showed that alterations of tumor necrosis factor-α-induced protein 3 gene (TNFAIP3; A20) are frequent in SS. In this study, we characterized the mutation and polymorphisms of A20 in a case with SS and compared with the genetic feature of A20 in T-cell acute lymphoblastic leukemia (T-ALL). METHODS: Using a novel approach based on the combination of fine-tiling array comparative genomic hybridization ( and ligation-mediated polymerase chain reaction (LM-PCR) to identify SS clone, the polymorphisms in the A20 gene (promoter, exons 2-9 [coding region] and 3'UTR) were detected by PCR and sequencing...
March 14, 2017: Asia-Pacific Journal of Clinical Oncology
https://www.readbyqxmd.com/read/28294640/evoligo-a-novel-software-to-design-and-group-libraries-of-oligonucleotides-applicable-for-nucleic-acid-based-experiments
#17
Marek C Milewski, Karol Kamel, Anna Kurzynska-Kokorniak, Marcin K Chmielewski, Marek Figlerowicz
Experimental methods based on DNA and RNA hybridization, such as multiplex polymerase chain reaction, multiplex ligation-dependent probe amplification, or microarray analysis, require the use of mixtures of multiple oligonucleotides (primers or probes) in a single test tube. To provide an optimal reaction environment, minimal self- and cross-hybridization must be achieved among these oligonucleotides. To address this problem, we developed EvOligo, which is a software package that provides the means to design and group DNA and RNA molecules with defined lengths...
March 15, 2017: Journal of Computational Biology: a Journal of Computational Molecular Cell Biology
https://www.readbyqxmd.com/read/28294517/osteogenic-differentiation-of-mesenchymal-stem-cells-using-hybrid-nanofibers-with-different-configurations-and-dimensionality
#18
D Gugutkov, F Awaja, K Belemezova, M Keremidarska, N Krasteva, S Kuyrkchiev, G GallegoFerrer, S Seker, A E Elcin, Y M Elcin, G Altankov
Novel hybrid, fibrinogen/polylactic acid (FBG/PLA) nanofibers with different configuration (random vs. aligned) and dimensionality (2D vs.3D environment) were used to control the overall behaviour and the osteogenic differentiation of human Adipose Derived Mesenchymal Stem Cells (ADMSCs). Aligned nanofibers in both the 2D and 3D configurations are proved to be favoured for osteo-differentiation. Morphologically we found that on randomly configured nanofibers, the cells developed a stellate-like morphology with multiple projections, however, time-lapse analysis showed significantly diminished cell movements...
March 11, 2017: Journal of Biomedical Materials Research. Part A
https://www.readbyqxmd.com/read/28292468/microrna-34a-targets-regulator-of-calcineurin-1-to-modulate-endothelial-inflammation-after-fetal-cardiac-bypass-in-goat-placenta
#19
Hai-Yun Yuan, Cheng-Bin Zhou, Ji-Mei Chen, Xiao-Bing Liu, Shu-Sheng Wen, Gang Xu, Jian Zhuang
INTRODUCTION: Placental dysfunction characterized by vascular endothelial inflammation is one of the most notable responses to fetal cardiac bypass. Regulator of calcineurin 1 (RCAN1) is an important regulator of inflammatory responses. MicroRNAs (miRNAs) are essential post-transcriptional modulators of gene expression, and miRNA-34a (miR-34a) was showed to activate vascular endothelial inflammation. We hypothesized that miR-34a may be a key regulator of placental dysfunction after fetal cardiac bypass...
March 2017: Placenta
https://www.readbyqxmd.com/read/28292364/comparative-analysis-of-fluorescence-in-situ-hybridization-and-real-time-polymerase-chain-reaction-in-diagnosis-of-chronic-myeloid-leukemia
#20
Javaid Ali, Saleem Ahmed Khan, Shan -E- Rauf, Muhammad Ayyub, Nadir Ali, Nabeel Khan Afridi
OBJECTIVE: To compare the sensitivity and specificity of fluorescence in situ hybridization (FISH) with real time polymerase chain reaction (RT-PCR) in the diagnosis of Chronic Myeloid Leukemia (CML). STUDY DESIGN: A cross-sectional, analytical study. PLACE AND DURATION OF STUDY: Haematology Department, Armed Forces Institute of Pathology, Rawalpindi, from January 2012 to February 2014. METHODOLOGY: A total number of 87 patients of CML were studied...
January 2017: Journal of the College of Physicians and Surgeons—Pakistan: JCPSP
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