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hybridization chain reaction

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https://www.readbyqxmd.com/read/28636556/long-non-coding-rna-ube2cp3-promotes-tumor-metastasis-by-inducing-epithelial-mesenchymal-transition-in-hepatocellular-carcinoma
#1
Shun-Wang Cao, Jin-Lan Huang, Jing Chen, Yan-Wei Hu, Xiu-Mei Hu, Ting-Yu Ren, Shi-Hao Zheng, Jin-Duan Lin, Jing Tang, Lei Zheng, Qian Wang
Hepatocellular carcinoma (HCC) is a highly aggressive, solid malignancy that has a poor prognosis. Long non-coding RNAs (lncRNAs) have been found to be dysregulated in various cancers, including HCC. However, the molecular mechanism involving lncRNAs in HCC remains largely unknown. In this study, lncRNAs differentially expressed between HCC and corresponding non-cancerous tissue were identified by microarray analysis. A specific differentially expressed lncRNA UBE2CP3 (ubiquitin conjugating enzyme E2 C pseudogene 3) was identified...
June 16, 2017: Oncotarget
https://www.readbyqxmd.com/read/28635252/proton-fueled-reversible-dna-hybridization-chain-assembly-for-ph-sensing-and-imaging
#2
Lan Liu, Jin-Wen Liu, Zhi-Mei Huang, Han Wu, Na Li, Li-Juan Tang, Jian-Hui Jiang
Design of DNA self-assembly with reversible responsiveness to external stimuli is of great interest for diverse applications. We for the first time develop a pH-responsive, fully reversible hybridization chain reaction (HCR) assembly that allows sensitive sensing and imaging of pH in living cells. Our design relies on the triplex forming sequences that form DNA triplex with toehold regions under acidic conditions and then induce a cascade of strand displacement and DNA assembly. The HCR assembly has shown dynamic responses in physiological pH ranges with excellent reversibility and demonstrated the potential for in vitro detection and live-cell imaging of pH...
June 22, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28627689/expression-of-cell-cycle-related-proteins-in-oropharyngeal-squamous-cell-carcinoma-based-on-human-papilloma-virus-status
#3
Koudai Tsuchida, Tamotsu Sugai, Noriyuki Uesugi, Kazuyuki Ishida, Kazuto Matsuura, Ikuro Sato, Kiyoto Shiga, Hiroaki Sato
The molecular association between human papilloma virus (HPV) and cell cycle-related (CCR) proteins is not fully understood in oropharyngeal squamous cell carcinoma (OPSCC). Herein, we examined the expression levels of CCRs in OPSCCs based on HPV status. In situ hybridization (ISH)- and polymerase chain reaction (PCR)-based assays were used to detect HPV status in 98 OPSCCs, and CCRs were detected by immunostaining. Of 98 tumors, 47 had HPV-positive tumors by either ISH- or PCR-based assays. Concordance analysis between ISH- and PCR-based tests showed a good agreement in OPSCC...
June 14, 2017: Oncology Reports
https://www.readbyqxmd.com/read/28622643/simultaneously-electrochemical-detection-of-micrornas-based-on-multifunctional-magnetic-nanoparticles-probe-coupling-with-hybridization-chain-reaction
#4
Yan-Hong Yuan, Yi-Di Wu, Bao-Zhu Chi, Shao-Hua Wen, Ru-Ping Liang, Jian-Ding Qiu
We report a sensor combining two distinguishable magnetic nanoprobes (DNA1/Fe3O4 NPs/Thi and DNA2/Fe3O4 NPs/Fc) with target-triggered hybridization chain reaction (HCR) strategy for the simultaneous detection of microRNA-141 (miR-141) and microRNA-21 (miR-21). In the presence of targets, the thiol-modified hairpin capture probes (HCP1 and HCP2) specifically hybridize with miR-141 and miR-21 on a gold electrode, leading to the conformation change of HCP1 and HCP2, respectively. The conformation change subsequently triggers HCR to generate plentiful bonding sequences of magnetic nanoprobes...
June 11, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28622497/feline-panleukopenia-virus-is-not-associated-with-myocarditis-or-endomyocardial-restrictive-cardiomyopathy-in-cats
#5
Laura McEndaffer, Alex Molesan, Hollis Erb, Kathleen Kelly
Canine parvovirus-2 (CPV-2) is nearly indistinguishable from feline panleukopenia virus (FPV) and is a well-known cause of viral myocarditis in young puppies; however, it is not known whether either FPV or CPV-2 naturally infects feline cardiomyocytes and causes myocarditis. Endomyocarditis (EMC) and left ventricular endomyocardial fibrosis (LVEF), clinically known as "endomyocardial restrictive cardiomyopathy," are important feline heart diseases suspected to have an infectious etiology. A continuum is suggested with EMC representing the acute reaction to an unknown infectious agent and LVEF the chronic manifestation of repair...
July 2017: Veterinary Pathology
https://www.readbyqxmd.com/read/28620890/identification-and-characterization-of-a-new-brca2-rearrangement-in-an-italian-family-with-hereditary-breast-and-ovarian-cancer-syndrome
#6
Paola Concolino, Roberta Rizza, Karl Hackmann, Angelo Minucci, Giovanni Luca Scaglione, Maria De Bonis, Alessandra Costella, Cecilia Zuppi, Evelin Schrock, Ettore Capoluongo
INTRODUCTION: Many studies document the involvement of BRCA1/2 gene rearrangements in genetic predisposition to breast and ovarian cancer. Large genomic rearrangements (LGRs) of BRCA1 account for 0-27% of all disease-causing mutations in various populations, while LGRs in BRCA2 are rarer. Here, we describe a novel BRCA2 LGR, involving the duplication of exons 4-26, in an Italian family with hereditary breast and ovarian cancer (HBOC) syndrome. OBJECTIVE: Our purpose was to provide an effective characterization of this variant using a combination of different methods able to establish the exact breakpoints of the duplication...
June 15, 2017: Molecular Diagnosis & Therapy
https://www.readbyqxmd.com/read/28617513/reaction-of-s-geranyl-2-thiouracil-modified-oligonucleotides-with-alkyl-amines-leads-to-the-n2-alkyl-isocytosine-derivatives
#7
Grazyna Leszczynska, Klaudia Sadowska, Malgorzata Sierant, Milena Sobczak, Barbara Nawrot, Elzbieta Sochacka
S-Geranylated 2-thiouridines (geS2Us) are unique hydrophobic modified nucleosides identified very recently in bacterial tRNAs. Our study on the synthesis of geS2Ura-containing oligonucleotides (geS2U-RNA and geS2dU-DNA) revealed a fast substitution of the S-geranyl moiety by methylamine (frequently used in oligonucleotide deprotection procedures) or n-butylamine, providing the corresponding N2-alkyl isocytosine (R2isoCyt) derivatives. To retain the S-geranyl moiety in the DNA or RNA chains, the optimized deprotection protocol with 8 M ethanolic ammonia should be applied...
June 15, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/28601408/expression-of-ciliated-bronchial-epithelium-1-during-human-spermatogenesis
#8
Christiane Pleuger, Daniela Fietz, Katja Hartmann, Hans-Christian Schuppe, Wolfgang Weidner, Sabine Kliesch, Mark Baker, Moira K O'Bryan, Martin Bergmann
OBJECTIVE: To define the precise cellular localization of ciliated bronchial epithelium 1 (CBE1) in the human testis and test its relationship to impaired spermatogenesis. DESIGN: Gene expression analysis, and histologic and immunohistochemical evaluation. SETTING: University research laboratories and andrologic outpatient clinic. PATIENT(S): Forty-three human testicular biopsies: 12 biopsies showing normal spermatogenesis (NSP), 8 with maturation arrest at level of spermatocytes (STA), 8 with maturation arrest at level of spermatids (SDA), 4 with scattered elongating spermatids, and 12 with Sertoli cell-only syndrome, with an additional 5 semen samples from healthy donors...
June 7, 2017: Fertility and Sterility
https://www.readbyqxmd.com/read/28599452/mir-125b-is-associated-with-renal-cell-carcinoma-cell-migration-invasion-and-apoptosis
#9
Lu Jin, Zeng Zhang, Yifan Li, Tao He, Jia Hu, Jiaju Liu, Mingwei Chen, Yaoting Gui, Yun Chen, Yongqing Lai
MicroRNA (miR)-125b has been identified as deregulated in a number of types of cancer. Previous studies have detected the expression of miR-125b in clear cell renal cell carcinoma (ccRCC) tissues by in situ hybridization and revealed that miR-125b was upregulated in ccRCC tissues, and was associated with recurrence and survival of patients with ccRCC. However, the function of miR-125b in RCC remains unclear. Thus, the expression of miR-125b was detected with quantitative polymerase chain reaction (qPCR) in 24 paired RCC and adjacent normal tissues...
June 2017: Oncology Letters
https://www.readbyqxmd.com/read/28596807/aqueous-sara-atrp-using-inorganic-sulfites
#10
Carlos M R Abreu, Liye Fu, Sheiliza Carmali, Arménio C Serra, Krzysztof Matyjaszewski, Jorge F J Coelho
Aqueous supplemental activator and reducing agent atom transfer radical polymerization (SARA ATRP) using inorganic sulfites was successfully carried out for the first time. Under optimized conditions, a well-controlled poly[oligo(ethylene oxide) methyl ether acrylate] (POEOA) was obtained with <30 ppm of soluble copper catalyst using tris(2-pyridylmethyl)amine (TPMA) ligand in the presence of an excess of halide salts (e.g. NaCl). Inorganic sulfites (e.g. Na2S2O4) were continuously fed into the reaction mixture...
January 14, 2017: Polymer Chemistry
https://www.readbyqxmd.com/read/28595732/the-novel-double-hit-t-8-22-q24-q11-myc-igl-and-t-14-15-q32-q24-igh-bcl2a1-in-diffuse-large-b-cell-lymphoma
#11
Takashi Akasaka, Chiyuki Kishimori, Katsuhiro Fukutsuka, Miho Nakagawa, Kayo Takeoka, Masahiko Hayashida, Gen Honjo, Hitoshi Ohno
An 82-year-old woman presented with generalized lymphadenopathy and skin involvement. Lymph node biopsy revealed diffuse large B-cell lymphoma with a high proliferation index. G-banding and fluorescence in situ hybridization showed a hypertetraploid karyotype with two copies of t(8;22)(q24;q11), generating the fusion of MYC and the immunoglobulin λ chain gene (IGL), and two copies of the novel immunoglobulin heavy chain gene (IGH) translocation, t(14;15)(q32;q24). A long-distance inverse polymerase chain reaction (PCR) using nested primer combinations designed for each constant gene of IGH showed that Cγ4 was juxtaposed to the downstream sequence of the BCL2A1 (BCL2-related protein A1) gene through the Sγ4 switch region...
August 2017: Cancer Genetics
https://www.readbyqxmd.com/read/28595725/ultrasensitive-detection-of-nucleic-acids-and-proteins-using-quartz-crystal-microbalance-and-surface-plasmon-resonance-sensors-based-on-target-triggering-multiple-signal-amplification-strategy
#12
Wenbo Sun, Weiling Song, Xiaoyan Guo, Zonghua Wang
In this study, quartz crystal microbalance (QCM) and surface plasmon resonance (SPR) sensors were combined with template enhanced hybridization processes (TEHP), rolling circle amplification (RCA) and biocatalytic precipitation (BCP) for ultrasensitive detection of DNA and protein. The DNA complementary to the aptamer was released by the specific binding of the aptamer to the target protein and then hybridized with the capture probe and the assistant DNA to form a ternary "Y" junction structure. The initiation chain was generated by the template-enhanced hybridization process which leaded to the rolling circle amplification reaction, and a large number of repeating unit sequences were formed...
July 25, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28592109/the-roles-of-the-active-site-zn-ii-and-residues-in-substrate-discrimination-by-threonyl-trna-synthetase-an-md-and-qm-mm-investigation
#13
Mohamed M Aboelnga, James Wilson Gauld
Threonyl-tRNA synthetase (ThrRS) is a Zn(II) containing enzyme that catalyzes the activation of threonine and its subsequent transfer to the cognate tRNA. This process is accomplished with remarkable fidelity, with ThrRS being able to discriminate its cognate substrate from similar analogs such as serine and valine. Molecular dynamics (MD) simulations and hybrid Quantum Mechanics/Molecular Mechanics (QM/MM) methods have been used to elucidate the role of Zn(II) in the aminoacylation mechanism of ThrRS. More specifically, the role of Zn(II) and active site residues in ThrRS's ability to discriminate between its cognate substrate L-threonine, and the non-cognate L-serine, L-valine and D-threonine has been examined...
June 7, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28588710/the-clinical-analysis-of-small-supernumerary-marker-chromosomes-in-17-children-with-mos-45-x-46-x-mar-karyotype
#14
Hongying Wang, Ting Wang, Naichao Yang, Yaxiang He, Linqi Chen, Liyi Hong, Xuejun Shao, Hong Li, Hong Zhu, Haibo Li
Small supernumerary maker chromosome (sSMC) is a type of structurally abnormal chromosome. In order to identify the origin, morphology and other characteristics of sSMCs in children with mos 45,X/46,X,+mar karyotype, 17 patients (16 females and 1 male) were analyzed. All patients underwent general physical examination, gonadal imaging and molecular cytogenetic analyses, including Giemsa banding, dual-color fluorescence in situ hybridization and detection of the sex-determining region Y gene by polymerase chain reaction...
June 2017: Oncology Letters
https://www.readbyqxmd.com/read/28587292/detection-of-hbv-covalently-closed-circular-dna
#15
REVIEW
Xiaoling Li, Jinghua Zhao, Quan Yuan, Ningshao Xia
Chronic hepatitis B virus (HBV) infection affects approximately 240 million people worldwide and remains a serious public health concern because its complete cure is impossible with current treatments. Covalently closed circular DNA (cccDNA) in the nucleus of infected cells cannot be eliminated by present therapeutics and may result in persistence and relapse. Drug development targeting cccDNA formation and maintenance is hindered by the lack of efficient cccDNA models and reliable cccDNA detection methods...
June 6, 2017: Viruses
https://www.readbyqxmd.com/read/28586631/tgf-%C3%AE-1-improves-biomechanical-strength-by-extracellular-matrix-accumulation-without-increasing-the-number-of-tenogenic-lineage-cells-in-a-rat-rotator-cuff-repair-model
#16
Hitoshi Arimura, Chisa Shukunami, Takuya Tokunaga, Tatsuki Karasugi, Nobukazu Okamoto, Takuya Taniwaki, Hidetoshi Sakamoto, Hiroshi Mizuta, Yuji Hiraki
BACKGROUND: Transforming growth factor β1 (TGF-β1) positively regulates the tenogenic marker genes scleraxis ( Scx) and tenomodulin ( Tnmd) in mesenchymal progenitors in vitro. However, little is known about the effect of TGF-β1 on the expression of tenogenic markers during rotator cuff (RC) healing in rats. HYPOTHESIS: TGF-β1 improves the biomechanical properties and histological maturity of reparative tissue in a rat RC repair model by stimulating the growth of tenogenic cells...
June 1, 2017: American Journal of Sports Medicine
https://www.readbyqxmd.com/read/28584720/clinical-impact-of-human-papillomavirus-in-laryngeal-squamous-cell-carcinoma-a-retrospective-study
#17
Wei-Chih Chen, Hui-Ching Chuang, Yu-Tsai Lin, Chao-Cheng Huang, Chih-Yen Chien
OBJECTIVES: The purpose of this study is to determine the prevalence and clinical impact of human papillomavirus (HPV) related laryngeal squamous cell carcinoma (LSCC). METHODS: A total of 106 LSCC patients who underwent primary surgical resection with or without adjuvant radiotherapy/chemoradiotherapy were enrolled retrospectively. Tumors collected from paraffin-embedded samples were used for HPV detection by polymerase chain reaction and in situ hybridization technique...
2017: PeerJ
https://www.readbyqxmd.com/read/28581408/integration-pattern-of-human-papillomavirus-is-a-strong-prognostic-factor-for-disease-free-survival-after-radiation-therapy-in-cervical-cancer-patients
#18
Jungnam Joo, Hye-Jin Shin, Boram Park, Seog-Yun Park, Chong-Woo Yoo, Kyong-Ah Yoon, Sun-Young Kong, Youn-Jae Kim, Sang Soo Kim, Joo-Young Kim
PURPOSE: The standard chemoradiation therapy currently used for locally advanced cervical cancer (LACC) patients does not reflect the biological heterogeneity of this disease, and there is an increasing need for the development of biomarkers that can help guide the individualized treatment regimens. The purpose of this study was to investigate the prognostic value of the integration pattern of human papillomavirus (HPV) in LACC patients. METHODS AND MATERIALS: The HPV integration pattern was determined by in situ hybridization and polymerase chain reaction, and the tumors were classified as the episomal pattern (group A), as the single-copy integrated or multicopy tandem repetition-integrated pattern (group B), or as undetectable HPV (group C)...
July 1, 2017: International Journal of Radiation Oncology, Biology, Physics
https://www.readbyqxmd.com/read/28575448/bacillus-subtilis-dna-polymerases-polc-and-dnae-are-required-for-both-leading-and-lagging-strand-synthesis-in-spp1-origin-dependent-dna-replication
#19
Elena M Seco, Silvia Ayora
Firmicutes have two distinct replicative DNA polymerases, the PolC leading strand polymerase, and PolC and DnaE synthesizing the lagging strand. We have reconstituted in vitro Bacillus subtilis bacteriophage SPP1 θ-type DNA replication, which initiates unidirectionally at oriL. With this system we show that DnaE is not only restricted to lagging strand synthesis as previously suggested. DnaG primase and DnaE polymerase are required for initiation of DNA replication on both strands. DnaE and DnaG synthesize in concert a hybrid RNA/DNA 'initiation primer' on both leading and lagging strands at the SPP1 oriL region, as it does the eukaryotic Pol α complex...
May 30, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28573667/low-dimensional-organic-tin-bromide-perovskites-and-their-photoinduced-structural-transformation
#20
Biwu Ma, Chenkun Zhou, Yu Tian, Mingchao Wang, Alyssa Rose, Tiglet Besara, Nicholas K Doyle, Zhao Yuan, Jamie C Wang, Ronald Clark, Yanyan Hu, Theo Siegrist, Shangchao Lin
Hybrid organic inorganic metal halide perovskites possess exceptional structural tunability, with three- (3D), two- (2D), one- (1D), and zero-dimensional (0D) structures on molecular level all possible. While remarkable progress has been realized in perovskite research in recent years, the focus has been mainly on 3D and 2D structures, with 1D and 0D structures significantly underexplored. Here we report the synthesis and characterization of a series of low dimensional organic tin bromide perovskites with 1D and 0D structures...
June 1, 2017: Angewandte Chemie
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