keyword
MENU ▼
Read by QxMD icon Read
search

Triplex

keyword
https://www.readbyqxmd.com/read/28214743/tio2-nanowire-arrays-modified-with-a-simultaneous-etching-doping-and-deposition-technique-for-ultrasensitive-amperometric-immunosensing
#1
Xiaoqiang Liu, Xiaohe Huo, Peipei Liu, Yunfei Tang, Jun Xu, Huangxian Ju
In this work, an ultrasensitive immunosensing scaffold was structured with TiO2 nanowire (TiNW) arrays modified with molybdenum (Mo) and MoS2 flakes by a triplex "etching, doping and deposition" technique. The triply modification of TiNW arrays improved their electron transfer, and the decoration of MoS2 flakes on TiNW arrays increased both the conductivity and the specific surface area of TiNW. Accordingly, the triply modified TiNW arrays provided a biocompatible microenviroment for the biomolecules and high specific surface area to load big amount of biomolecules...
February 14, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28210721/3-pyrene-modified-unlocked-nucleic-acids-synthesis-fluorescence-properties-and-a-surprising-stabilization-effect-on-duplexes-and-triplexes
#2
Maria Ejlersen, Niels Langkjær, Jesper Wengel
Efficient synthesis of a new 3'-O-amino-UNA monomer was developed as a scaffold for further functionalization and incorporation into oligonucleotides (ONs). Pyrene-functionalized 3'-O-amino-UNA was incorporated one, two or three times into 21-mer DNA and 2'-O-Me-RNA ONs. Duplex melting temperatures, circular dichroism (CD) spectra, steady-state fluorescence emission spectra, UV/Vis absorption spectra and triplex melting temperatures were measured for the modified duplexes. The presence of the pyrene-modified UNA monomer lead to a surprising and unprecedented thermal stabilization of especially DNA:DNA duplexes when compared to the corresponding unmodified DNA:DNA duplexes...
February 17, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/28208646/recognition-of-local-dna-structures-by-p53-protein
#3
Václav Brázda, Jan Coufal
p53 plays critical roles in regulating cell cycle, apoptosis, senescence and metabolism and is commonly mutated in human cancer. These roles are achieved by interaction with other proteins, but particularly by interaction with DNA. As a transcription factor, p53 is well known to bind consensus target sequences in linear B-DNA. Recent findings indicate that p53 binds with higher affinity to target sequences that form cruciform DNA structure. Moreover, p53 binds very tightly to non-B DNA structures and local DNA structures are increasingly recognized to influence the activity of wild-type and mutant p53...
February 10, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28194966/what-makes-telomeres-unique
#4
Adam Kazimierz Sieradzan, Pawel Krupa, David J Wales
Telomeres are repetitive nucleotide sequences, which are essential for protecting the termini of chromosomes. Thousands of such repetitions are necessary to maintain the stability of the whole chromosome. Several similar repeated telomeric sequences have been found in different species, but why has nature chosen them? What features do telomeres have in common? In this article we study the physical properties of human-like (TTAGGG), plant (TTTAGG), insect (TTAGG) and candida guilermondi (GGTGTAC) telomeres in comparison with seven, control, non-telomeric sequences...
February 14, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28169560/bovine-lactoferrin-and-lactoferricin-exert-antitumor-activities-on-human-colorectal-cancer-cells-ht-29-by-activating-various-signaling-pathways
#5
Rulan Jiang, Bo Lönnerdal
Lactoferrin (Lf) is an iron-binding glycoprotein that is present at high concentrations in milk. Bovine lactoferricin (LfcinB) is a peptide fragment generated by pepsin proteolysis of bovine lactoferrin (bLf). LfcinB consists of amino acid residues 17-41 proximal to the N-terminus of bLf and a disulfide bond between residues 19 and 36, forming a loop. Both bLf and LfcinB have been demonstrated to have antitumor activities. Colorectal cancer is the second most common cause of cancer death in developed countries...
February 2017: Biochemistry and Cell Biology, Biochimie et Biologie Cellulaire
https://www.readbyqxmd.com/read/28153952/qmc-pcrx-a-novel-method-for-rapid-mutation-detection
#6
Henry O Ebili, James Hassall, Abutaleb Asiri, Hersh Ham-Karim, Wakkas Fadhil, Ayodeji Johnson Agboola, Mohammad Ilyas
AIMS: We previously described the quick multiplex consensus PCR (QMC-PCR) as a method for rapid mutation screening in low-quality template. QMC-PCR has two-stages: a prediagnostic multiplex (PDM) reaction followed by a single specific diagnostic reaction with high-resolution melting (HRM) analysis. We aimed to develop QMC-PCRx in which second stage was multiplexed to allow testing of multiple targets. METHODS: The PDM reaction was retained without change. For the second stage, in silico design was used to identify targets amenable to a multiplex specific diagnostic reaction and multiplex HRM (mHRM) analysis...
February 2, 2017: Journal of Clinical Pathology
https://www.readbyqxmd.com/read/28138667/high-throughput-screening-of-triplex-dna-binders-from-complicated-samples-by-96-well-pate-format-in-conjunction-with-peak-area-fading-uhplc-orbitrap-ms
#7
Hongmei Yang, Wenbin Yao, Yihan Wang, Lei Shi, Rui Su, Debin Wan, Niusheng Xu, Wenhui Lian, Changbao Chen, Shuying Liu
Conventional strategies for the screening of DNA triplex binders cannot be used for complicated samples, such as ligand libraries created by combinatorial chemistry or from natural product extracts. In the current study, an ultra-high-performance liquid chromatography coupled with an Orbitrap mass spectrometry (UHPLC-Orbitrap-MS)-based approach, which we call peak area-fading (PAF) UHPLC-Orbitrap-MS and was designed for just such a purpose, is reported. The triplex DNA modified 96-well plate and the single stranded oligonucleotide modified 96-well plate (as control) were incubated with ligand libraries, and the unbound ligands were directly determined via UHPLC-ESI-MS...
January 31, 2017: Analyst
https://www.readbyqxmd.com/read/28132873/detection-of-macrolide-resistance-genes-in-culture-negative-specimens-from-bangladeshi-children-with-invasive-pneumococcal-diseases
#8
Md Hasanuzzaman, Roly Malaker, Maksuda Islam, Abdullah H Baqui, Gary L Darmstadt, Cynthia G Whitney, Samir K Saha
OBJECTIVES: In recent years, an increasing prevalence of macrolide resistance among pneumococci in Bangladesh has been observed. However, the scenario remains incomplete, as few isolates (<1%) are available from pneumonia cases and most pneumococcal meningitis cases (>80%) are culture-negative. This study optimised a triplex PCR method to detect macrolide resistance genes (MRGs) (mefA and ermB) and cpsA from culture-negative pneumococcal cases to predict the prevalence and level of macrolide resistance...
January 26, 2017: Journal of Global Antimicrobial Resistance
https://www.readbyqxmd.com/read/28131897/long-noncoding-rnas-and-sulforaphane-a-target-for-chemoprevention-and-suppression-of-prostate-cancer
#9
Laura M Beaver, Rachael Kuintzle, Alex Buchanan, Michelle W Wiley, Sarah T Glasser, Carmen P Wong, Gavin S Johnson, Jeff H Chang, Christiane V Löhr, David E Williams, Roderick H Dashwood, David A Hendrix, Emily Ho
Long noncoding RNAs (lncRNAs) have emerged as important in cancer development and progression. The impact of diet on lncRNA expression is largely unknown. Sulforaphane (SFN), obtained from vegetables like broccoli, can prevent and suppress cancer formation. Here we tested the hypothesis that SFN attenuates the expression of cancer-associated lncRNAs. We analyzed whole-genome RNA-sequencing data of normal human prostate epithelial cells and prostate cancer cells treated with 15 μM SFN or dimethylsulfoxide. SFN significantly altered expression of ~100 lncRNAs in each cell type and normalized the expression of some lncRNAs that were differentially expressed in cancer cells...
January 12, 2017: Journal of Nutritional Biochemistry
https://www.readbyqxmd.com/read/28113380/sampled-data-stabilization-for-fuzzy-genetic-regulatory-networks-with-leakage-delays
#10
M Syed Ali, N Gunasekaran, Choon Ki Ahn, Peng Shi
This paper deals with the sampled-data stabilization problem for Takagi-Sugeno (T-S) fuzzy genetic regulatory networks with leakage delays. A novel Lyapunov-Krasovskii functional (LKF) is established by the non-uniform division of the delay intervals with triplex and quadruplex integral terms. Using such LKFs for constant and time-varying delay cases, new stability conditions are obtained in the T-S fuzzy framework. Based on this, a new condition for the sampled-data controller design is proposed using a linear matrix inequality representation...
September 7, 2016: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28108011/interference-between-triplex-and-protein-binding-to-distal-sites-on-supercoiled-dna
#11
Agnes Noy, Anthony Maxwell, Sarah A Harris
We have explored the interdependence of the binding of a DNA triplex and a repressor protein to distal recognition sites on supercoiled DNA minicircles using MD simulations. We observe that the interaction between the two ligands through their influence on their DNA template is determined by a subtle interplay of DNA mechanics and electrostatics, that the changes in flexibility induced by ligand binding play an important role and that supercoiling can instigate additional ligand-DNA contacts that would not be possible in simple linear DNA sequences...
February 7, 2017: Biophysical Journal
https://www.readbyqxmd.com/read/28106202/a-colorimetric-sensing-platform-based-upon-recognizing-hybridization-chain-reaction-products-with-oligonucleotide-modified-gold-nanoparticles-through-triplex-formation
#12
Li Zou, Ruimin Li, Manjun Zhang, Yanwei Luo, Nian Zhou, Jing Wang, Liansheng Ling
A novel colorimetric sensing strategy for biomolecule assay has been developed, which integrates the signal amplification of the hybridization chain reaction (HCR) with the assembly of gold nanoparticles (AuNPs) through triplex formation. In the presence of targets, the HCR process can be triggered, the HCR products are specifically recognized by triplex-forming oligonucleotide (TFO) functionalized AuNPs, accompanying the aggregation of AuNPs and a dramatic absorbance change at 522 nm. In addition, the DNA hairpin probes can form rigid triplex structures with TFO-functionalized AuNPs in the absence of targets, resulting in a negligible background signal...
January 20, 2017: Nanoscale
https://www.readbyqxmd.com/read/28104569/interaction-of-octahedral-ruthenium-ii-polypyridyl-complex-ru-bpy-2-pip-2-with-poly-u-%C3%A2-poly-a-poly-u-triplex-increasing-third-strand-stabilization-of-the-triplex-without-affecting-the-stability-of-the-duplex
#13
Zhiyuan Zhu, Mengna Peng, Jingwen Zhang, Lifeng Tan
Triple-helical RNA are of interest because of possible biological roles as well as the potential therapeutic uses of these structures, while the stability of triplexes is usually weaker than that of the Watson-Crick base pairing duplex strand due to the electrostatic repulsion between three polyanionic strands. Therefore, how to increase the stability of the specific sequences of triplexes are of importance. In this paper the binding of a Ru(II) complex, [Ru(bpy)2(PIP)](2+) (bpy=2.2'-bipyridine, PIP=2-phenyl-1H-imidazo[4,5-f]- [1,10]-phenanthroline), with poly(U)·poly(A)*poly(U) triplex has been investigated by spectrophotometry, spectrofluorometry, viscosimetry and circular dichroism...
January 4, 2017: Journal of Inorganic Biochemistry
https://www.readbyqxmd.com/read/28092851/plasmid-dna-affinity-partitioning-using-polyethylene-glycol-sodium-sulfate-aqueous-two-phase-systems
#14
Behzad Nazer, Mohammad Reza Dehghani, Bahram Goliaei
Extraction of plasmid DNA (pDNA) from an alkaline bacterial cell lysate has been investigated using partitioning and affinity partitioning in aqueous two-phase systems (ATPSs) containing 12% (w/w) polyethylene glycol and 12% (w/w) sodium sulfate. In this work, a modified 20bp pyrimidine oligonucleotide acting as a triplex-forming oligonucleotide (TFO) was employed as an affinity ligand to improve the partition behavior. The pUC118 plasmid was chosen to be extracted because of its specific oligonucleotide recognition sequence...
January 3, 2017: Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences
https://www.readbyqxmd.com/read/28081498/enhancing-analysis-throughput-sensitivity-and-specificity-in-lc-esi-ms-ms-assay-of-plasma-25-hydroxyvitamin-d3-by-derivatization-with-triplex-4-4-dimethylaminophenyl-1-2-4-triazoline-3-5-dione-daptad-isotopologues
#15
Shoujiro Ogawa, Hiroki Kittaka, Akiho Nakata, Kenji Komatsu, Takahiro Sugiura, Mamoru Satoh, Fumio Nomura, Tatsuya Higashi
The plasma/serum concentration of 25-hydroxyvitamin D3 [25(OH)D3] is a diagnostic index for vitamin D deficiency/insufficiency, which is associated with a wide range of diseases, such as rickets, cancer and diabetes. We have reported that the derivatization with 4-(4-dimethylaminophenyl)-1,2,4-triazoline-3,5-dione (DAPTAD) works well in the liquid chromatography/electrospray ionization-tandem mass spectrometry (LC/ESI-MS/MS) assay of the serum/plasma 25(OH)D3 for enhancing the sensitivity and the separation from a potent interfering metabolite, 3-epi-25-hydroxyvitamin D3 [3-epi-25(OH)D3]...
March 20, 2017: Journal of Pharmaceutical and Biomedical Analysis
https://www.readbyqxmd.com/read/28076350/emergence-of-rare-species-of-nontuberculous-mycobacteria-as-potential-pathogens-in-saudi-arabian-clinical-setting
#16
Bright Varghese, Mushira Enani, Mohammed Shoukri, Sahar AlThawadi, Sameera AlJohani, Sahal Al-Hajoj
BACKGROUND: Clinical relevance of nontuberculous mycobacteria (NTM) is increasing worldwide including in Saudi Arabia. A high species diversity of NTM's has been noticed in a recent study. However, the identification in diagnostic laboratories is mostly limited to common species. The impact of NTM species diversity on clinical outcome is so far neglected in most of the clinical settings. METHODOLOGY/PRINCIPAL FINDINGS: During April 2014 to September 2015, a nationwide collection of suspected NTM clinical isolates with clinical and demographical data were carried out...
January 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28074208/optomagnetic-detection-of-dna-triplex-nanoswitches
#17
Gabriel Antonio S Minero, Jeppe Fock, John S McCaskill, Mikkel F Hansen
We report on optomagnetic dose-dependent detection of DNA triplex-mediated and pH-switchable clusters of functionalised magnetic nanoparticles.
January 11, 2017: Analyst
https://www.readbyqxmd.com/read/28067256/polypurine-reverse-hoogsteen-pprh-oligonucleotides-can-form-triplexes-with-their-target-sequences-even-under-conditions-where-they-fold-into-g-quadruplexes
#18
Anna Solé, Emmanuelle Delagoutte, Carlos J Ciudad, Véronique Noé, Patrizia Alberti
Polypurine reverse-Hoogsteen (PPRH) oligonucleotides are non-modified DNA molecules composed of two mirror-symmetrical polypurine stretches linked by a five-thymidine loop. They can fold into reverse-Hoogsteen hairpins and bind to their polypyrimidine target sequence by Watson-Crick bonds forming a three-stranded structure. They have been successfully used to knockdown gene expression and to repair single-point mutations in cells. In this work, we provide an in vitro characterization (UV and fluorescence spectroscopy, gel electrophoresis and nuclease assays) of the structure and stability of two repair-PPRH oligonucleotides and of the complexes they form with their single-stranded targets...
January 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28029775/combining-a-ru-ii-building-block-and-rapid-screening-approach-to-identify-dna-structure-selective-light-switch-compounds
#19
Erin Wachter, Diego Moyá, Edith C Glazer
A chemically reactive Ru(II) "building block", able to undergo condensation reactions with substituted diamines, was utilized to create a small library of luminescent "light switch" dipyrido-[3,2-a:2',3'-c] phenazine (dppz) complexes. The impact of substituent identity, position, and the number of substituents on the light switch effect was investigated. An unbiased, parallel screening approach was used to evaluate the selectivity of the compounds for a variety of different biomolecules, including protein, nucleosides, single stranded DNA, duplex DNA, triplex DNA, and G-quadruplex DNA...
December 28, 2016: ACS Combinatorial Science
https://www.readbyqxmd.com/read/28029772/oxidation-of-iron-under-physiologically-relevant-conditions-in-biological-fluids-from-healthy-and-alzheimer-s-disease-subjects
#20
Linh Q Lam, Bruce X Wong, Tony Frugier, Qiao-Xin Li, Steven J Collins, Ashley I Bush, Peter J Crack, James A Duce
Ferroxidase activity has been reported to be altered in various biological fluids in neurodegenerative disease, but the sources contributing to the altered activity are uncertain. Here we assay fractions of serum and cerebrospinal fluid with a newly validated triplex ferroxidase assay. Our data indicate that while ceruloplasmin, a multicopper ferroxidase, is the predominant source of serum activity, activity in CSF predominantly derives from a <10 kDa component, specifically from polyanions such as citrate and phosphate...
January 3, 2017: ACS Chemical Neuroscience
keyword
keyword
10228
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"