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quantitative biology

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https://www.readbyqxmd.com/read/28934629/lacking-linearity-in-quantitative-stable-isotope-lc-ms-ms-measurement-of-f2-isoprostanes-is-an-irrefutable-indicator-of-analytical-inadequacy
#1
Dimitrios Tsikas, Erik Hanff
In LC-MS/MS-basedquantitative analysis of biological substances such as the F2-isoprostanes including 8-iso-prostaglandin F2α (i.e., 8-iso-PGF2α) use of stable-isotope labelled analogues at matrix-relevant concentrations is indispensable, enables linearity in relevant concentration ranges, and minimizes matrix effects. The quality of the linearity of calibration curves is an indicator of the analytical reliability of the LC-MS/MS method. Poor linearity is a convincing evidence of lacking analytical reliability...
September 8, 2017: Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences
https://www.readbyqxmd.com/read/28934609/quantitative-measurement-of-sodium-polystyrene-sulfonate-adsorption-onto-ctab-capped-gold-nanoparticles-reveals-hard-and-soft-coronas
#2
Celina M Harris, Savannah G Miller, Kurt Andresen, Lucas B Thompson
Accumulated evidence indicates that nanoparticle behavior in complex biological environments strongly depends on the nanoparticles' surface chemistry. A common way to modify nanoparticles is to deposit oppositely charged molecules on the surfaces in a Layer-by-Layer fashion to build up thin films of polymers. While this polymer coating is a well-developed technique, the quantification of polymers deposited and physical mechanism of polymer deposition remain relatively unstudied. In this work CTAB capped gold nanoparticles, synthesized in a flow reactor, are coated with sodium polystyrene sulfonate and purified through a series of equilibrium dialysis steps...
September 9, 2017: Journal of Colloid and Interface Science
https://www.readbyqxmd.com/read/28934504/accumulation-of-histone-variant-h3-3-with-age-is-associated-with-profound-changes-in-the-histone-methylation-landscape
#3
Andrey Tvardovskiy, Veit Schwämmle, Stefan J Kempf, Adelina Rogowska-Wrzesinska, Ole N Jensen
Deposition of replication-independent histone variant H3.3 into chromatin is essential for many biological processes, including development and reproduction. Unlike replication-dependent H3.1/2 isoforms, H3.3 is expressed throughout the cell cycle and becomes enriched in postmitotic cells with age. However, lifelong dynamics of H3 variant replacement and the impact of this process on chromatin organization remain largely undefined. Using quantitative middle-down proteomics we demonstrate that H3.3 accumulates to near saturation levels in the chromatin of various mouse somatic tissues by late adulthood...
September 19, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28934236/automated-computer-assisted-quantitative-analysis-of-intact-murine-lungs-at-the-alveolar-scale
#4
Goran Lovric, Ioannis Vogiatzis Oikonomidis, Rajmund Mokso, Marco Stampanoni, Matthias Roth-Kleiner, Johannes C Schittny
Using state-of-the-art X-ray tomographic microscopy we can image lung tissue in three dimensions in intact animals down to a micrometer precision. The structural complexity and hierarchical branching scheme of the lung at this level of details, however, renders the extraction of biologically relevant quantities particularly challenging. We have developed a methodology for a detailed description of lung inflation patterns by measuring the size and the local curvature of the parenchymal airspaces. These quantitative tools for morphological and topological analyses were applied to high-resolution murine 3D lung image data, inflated at different pressure levels under immediate post mortem conditions...
2017: PloS One
https://www.readbyqxmd.com/read/28934116/experimental-comparison-of-different-carbon-fiber-composites-in-reinforcement-layouts-for-wooden-beams-of-historical-buildings
#5
Francisco J Rescalvo, Ignacio Valverde-Palacios, Elisabet Suarez, Antolino Gallego
This paper offers a detailed, quantitative and exhaustive experimental comparison in terms of mechanical properties of three different layouts of carbon composite materials (CFRP) used to strengthen existing old timber beams highly affected by diverse natural defects and biological attacks, testing the use of pultruded laminate attached on the tension side of the element (LR), CFRP fabrics totally U-shape wrapping the timber element (UR), and the combined use of both reinforcement solutions (UR-P). Moreover, unidirectional and bidirectional fabrics were considered and compared...
September 21, 2017: Materials
https://www.readbyqxmd.com/read/28934091/association-between-exposure-to-p-p-ddt-and-its-metabolite-p-p-dde-with-obesity-integrated-systematic-review-and-meta-analysis
#6
REVIEW
German Cano-Sancho, Andrew G Salmon, Michele A La Merrill
BACKGROUND: The prevalence of obesity is increasing in all countries, becoming a substantial public health concern worldwide. Increasing evidence has associated obesity with persistent pollutants such as the pesticide DDT and its metabolite p,p'-DDE. OBJECTIVES: Our objective was to systematically review the literature on the association between exposure to the pesticide DDT and its metabolites and obesity to develop hazard identification conclusions. METHODS: We applied a systematic review-based strategy to identify and integrate evidence from epidemiological, in vivo, and in vitro studies...
September 18, 2017: Environmental Health Perspectives
https://www.readbyqxmd.com/read/28933822/rod-like-virus-based-multiarm-colloidal-molecules
#7
Alexis de la Cotte, Cheng Wu, Marie Trévisan, Andrii Repula, Eric Grelet
We report on the construction of multiarm colloidal molecules by tip-linking filamentous bacteriophages, functionalized either by biological engineering or chemical conjugation. The affinity for streptavidin of a genetically modified vector phage displaying Strep-tags fused to one end of the viral particle, is measured by determining the dissociation constant, Kd. In order to both improve the colloidal stability and the efficiency of the self-assembly process, a biotinylation protocol having a chemical yield higher than 90% is presented to regio-selectively functionalize the cystein residues located at one end of the bacteriophages...
September 21, 2017: ACS Nano
https://www.readbyqxmd.com/read/28933263/anticancer-properties-of-a-new-hybrid-analog-ad-013-combining-a-coumarin-scaffold-with-an-%C3%AE-methylene-%C3%AE-lactone-motif
#8
Angelika Długosz, Katarzyna Gach-Janczak, Jacek Szymański, Dariusz Deredas, Henryk Krawczyk, Tomasz Janecki, Anna Janecka
Background Coumarin is a natural phytochemical but as such has no medical uses. However, various natural and synthetic coumarin analogs attract attention due to their interesting biological properties. </P><P> Objective Here, we evaluated and compared anticancer properties of a new synthetic hybrid compound AD-013, which integrates a coumarin moiety and an α-methylene-δ-lactone motif, with novobiocin, a natural antibiotic bearing a coumarin scaffold. </P><P> Method Cytotoxic activities of compound AD-013 and novobiocin were assessed by the MTT assay...
September 21, 2017: Anti-cancer Agents in Medicinal Chemistry
https://www.readbyqxmd.com/read/28932920/microrna-30a-inhibits-colorectal-cancer-metastasis-through-down-regulation-of-type-i-insulin-like-growth-factor-receptor
#9
Y C Liu, Y R Park, S L Kim, S T Lee, S W Kim
BACKGROUND: miR-30a expression is down-regulated and regulates tumor suppressors in various cancers. AIM: We investigated the mechanisms underlying the biological role of miR-30a in CRC. METHODS: MicroRNA, mRNA, and protein expression were analyzed by quantitative real-time PCR and Western blot. The migration and invasion abilities of CRC were determined by wound healing assay, and trans-well migration and invasion. A luciferase reporter assay was used to confirm the targets of miR-30a...
September 20, 2017: Digestive Diseases and Sciences
https://www.readbyqxmd.com/read/28932698/quantitative-magnetic-resonance-mr-neurography-for-evaluation-of-peripheral-nerves-and-plexus-injuries
#10
REVIEW
Teodoro Martín Noguerol, Rafael Barousse, Mariano Socolovsky, Antonio Luna
Traumatic conditions of peripheral nerves and plexus have been classically evaluated by morphological imaging techniques and electrophysiological tests. New magnetic resonance imaging (MRI) studies based on 3D fat-suppressed techniques are providing high accuracy for peripheral nerve injury evaluation from a qualitative point of view. However, these techniques do not provide quantitative information. Diffusion weighted imaging (DWI) and diffusion tensor imaging (DTI) are functional MRI techniques that are able to evaluate and quantify the movement of water molecules within different biological structures...
August 2017: Quantitative Imaging in Medicine and Surgery
https://www.readbyqxmd.com/read/28932224/shrimp-mir-10a-is-co-opted-by-white-spot-syndrome-virus-to-increase-viral-gene-expression-and-viral-replication
#11
Jiun-Yan Huang, Shih-Ting Kang, I-Tung Chen, Li-Kwan Chang, Shih-Shun Lin, Guang-Hsiung Kou, Chia-Ying Chu, Chu-Fang Lo
Members of the microRNA miR-10 family are highly conserved and play many important roles in diverse biological mechanisms, including immune-related responses and cancer-related processes in certain types of cancer. In this study, we found the most highly upregulated shrimp microRNA from Penaeus vannamei during white spot syndrome virus (WSSV) infection was miR-10a. After confirming the expression level of miR-10a by northern blot and quantitative RT-PCR, an in vivo experiment showed that the viral copy number was decreased in miR-10a-inhibited shrimp...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28932213/petri-net-based-model-of-helicobacter-pylori-mediated-disruption-of-tight-junction-proteins-in-stomach-lining-during-gastric-carcinoma
#12
Anam Naz, Ayesha Obaid, Faryal M Awan, Aqsa Ikram, Jamil Ahmad, Amjad Ali
Tight junctions help prevent the passage of digestive enzymes and microorganisms through the space between adjacent epithelial cells lining. However, Helicobacter pylori encoded virulence factors negatively regulate these tight junctions and contribute to dysfunction of gastric mucosa. Here, we have predicted the regulation of important tight junction proteins, such as Zonula occludens-1, Claudin-2 and Connexin32 in the presence of pathogenic proteins. Molecular events such as post translational modifications and crosstalk between phosphorylation, O-glycosylation, palmitoylation and methylation are explored which may compromise the integrity of these tight junction proteins...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28931853/flexible-polarimetric-probe-for-3%C3%A2-%C3%A3-%C3%A2-3-mueller-matrix-measurements-of-biological-tissue
#13
Sarah Forward, Adam Gribble, Sanaz Alali, Andras A Lindenmaier, I Alex Vitkin
Polarimetry is a noninvasive method that uses polarised light to assess biophysical characteristics of tissues. A series of incident polarisation states illuminates a biological sample, and analysis of sample-altered polarisation states enables polarimetric tissue assessment. The resultant information can, for example, help quantitatively differentiate healthy from pathologic tissue. However, most bio-polarimetric assessments are performed using free-space optics with bulky optical components. Extension to flexible fibre-based systems is clinically desirable, but is challenging due to polarisation-altering properties of optical fibres...
September 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28931782/tumor-necrosis-factor-%C3%AE-gene-expression-in-epicardial-adipose-tissue-is-related-to-coronary-atherosclerosis-assessed-by-computed-tomography
#14
Toshiro Kitagawa, Hideya Yamamoto, Takuya Hattori, Kazuhiro Sentani, Shinya Takahashi, Atsuhiro Senoo, Yumiko Kubo, Wataru Yasui, Taijiro Sueda, Yasuki Kihara
AIMS: Tumor necrosis factor (TNF)-α reportedly has key pro-inflammatory properties in both atherosclerosis and adipocytes. To further investigate the biologic impact of epicardial adipose tissue (EAT) on coronary atherosclerosis, we evaluated the relationship between TNF-α gene expression in EAT and clinically-assessed coronary atherosclerosis on computed tomography (CT). METHODS: We studied 47 patients before cardiac surgery (coronary artery bypass grafting [CABG], n=26; non-CABG, n=21), assessing visceral adipose tissue (VAT) area, EAT volume, coronary calcium score (CCS), and the presence of non- and/or partially-calcified coronary plaque (NCP) on CT angiography...
September 20, 2017: Journal of Atherosclerosis and Thrombosis
https://www.readbyqxmd.com/read/28931004/the-logic-of-the-floral-transition-reverse-engineering-the-switch-controlling-the-identity-of-lateral-organs
#15
Jean-Louis Dinh, Etienne Farcot, Charlie Hodgman
Much laboratory work has been carried out to determine the gene regulatory network (GRN) that results in plant cells becoming flowers instead of leaves. However, this also involves the spatial distribution of different cell types, and poses the question of whether alternative networks could produce the same set of observed results. This issue has been addressed here through a survey of the published intercellular distribution of expressed regulatory genes and techniques both developed and applied to Boolean network models...
September 20, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28930611/biomass-breakdown-a-review-on-pretreatment-instrumentations-and-methods
#16
Preeti Vyas, Ashwani Kumar, Suren Singh
Enzymatic breakdown of lignocellulosic biomass for liquid fuel production is a viable alternative to fossil fuels, due to its renewable and environmental friendly nature. Naturally, plants protect their cell wall polysaccharides by giving limited access to the cell wall degrading enzymes. Lignocellulose breakdown requires proper pretreatments that disrupt the close inter-component association between the constituents of the plant cell wall. For efficient biomass conversion, the choice of the correct pretreatment is important for removing the barriers to enhance access to microbial enzymes...
January 1, 2018: Frontiers in Bioscience (Elite Edition)
https://www.readbyqxmd.com/read/28930429/mapping-protein-targets-of-bioactive-small-molecules-using-lipid-based-chemical-proteomics
#17
Kenneth M Lum, Yoshiaki Sato, Brittney A Beyer, Warren C Plaisted, Justin L Anglin, Luke L Lairson, Benjamin F Cravatt
Lipids play critical roles in cell biology, often through direct interactions with proteins. We recently described the use of photoreactive lipid probes combined with quantitative mass spectrometry to globally map lipid-protein interactions, and the effects of drugs on these interactions, in cells. Here, we investigate the broader potential of lipid-based chemical proteomic probes for determining the cellular targets of biologically active small molecules, including natural product derivatives and repurposed drugs of ill-defined mechanisms...
September 20, 2017: ACS Chemical Biology
https://www.readbyqxmd.com/read/28930247/chemical-composition-and-in-vitro-cytotoxic-and-antimicrobial-activities-of-the-essential-oil-from-leaves-of-zanthoxylum-monogynum-st-hill-rutaceae
#18
Fernanda B da Silva, Nara O Dos Santos, Renata C Pascon, Marcelo A Vallim, Carlos R Figueiredo, Roberto C Campos Martins, Patricia Sartorelli
Background: The Zanthoxylum monogynum species belongs to the family Rutaceae and is found in Southeast, Midwest, and Northeast Brazil. For this genus several biological activities have been described. Methods: The essential oil (EO) was obtained from the leaves of Zanthoxylum monogynum by hydro-distillation and was analyzed by gas chromatograph and gas chromatograph/mass spectrometry (GC and GC/MS). Also the EO of Z. monogynum was evaluated for in vitro cytotoxic activity against six tumor cell lines and for antimicrobial activity, performing disk diffusion and MIC assays with yeast and bacterial strains...
May 19, 2017: Medicines (Basel, Switzerland)
https://www.readbyqxmd.com/read/28929780/characteristics-of-tables-for-disseminating-biobehavioral-results
#19
Barbara St Pierre Schneider, Ed Nagelhout, Du Feng
BACKGROUND: To report the complexity and richness of study variables within biological nursing research, authors often use tables; however, the ease with which consumers understand, synthesize, evaluate, and build upon findings depends partly upon table design. OBJECTIVES: To assess and compare table characteristics within research and review articles published in Biological Research for Nursing and Nursing Research. METHOD: A total of 10 elements in tables from 48 biobehavioral or biological research or review articles were analyzed...
January 1, 2017: Biological Research for Nursing
https://www.readbyqxmd.com/read/28928871/twisted-gastrulation-bmp-signaling-modulator-1-regulates-papillary-thyroid-cancer-cell-motility-and-proliferation
#20
Shujun Xia, Ri Ji, Yongmin Xu, Xiaofeng Ni, Yijie Dong, Weiwei Zhan
Bone morphogenetic proteins (BMPs) are growth factors that have important functions in cell proliferation, migration and differentiation. To date, BMP pathway activation has been found in multiple human tumors and is associated with enhanced malignant tumor growth and metastasis. BMP activity is tightly regulated by a family of soluble extracellular secreted BMP modulators. Twisted gastrulation BMP signaling modulator 1 (TWSG1) is a direct BMP regulator that is required for the full signaling activity of BMPs...
2017: Journal of Cancer
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