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https://www.readbyqxmd.com/read/28422971/comparison-of-chemical-use-between-hydraulic-fracturing-acidizing-and-routine-oil-and-gas-development
#1
William T Stringfellow, Mary Kay Camarillo, Jeremy K Domen, Seth B C Shonkoff
The potential hazards and risks associated with well-stimulation in unconventional oil and gas development (hydraulic fracturing, acid fracturing, and matrix acidizing) have been investigated and evaluated and federal and state regulations requiring chemical disclosure for well-stimulation have been implemented as part of an overall risk management strategy for unconventional oil and gas development. Similar evaluations for chemicals used in other routine oil and gas development activities, such as maintenance acidizing, gravel packing, and well drilling, have not been previously conducted, in part due to a lack of reliable information concerning on-field chemical-use...
2017: PloS One
https://www.readbyqxmd.com/read/28412350/patient-sample-oriented-analysis-of-gene-expression-highlights-extracellular-signatures-in-breast-cancer-progression
#2
Yourae Hong, Nayoung Kim, Chao Li, Euna Jeong, Sukjoon Yoon
Although a large collection of cancer cell lines are useful surrogates for patient samples, the physiological relevance of observed molecular phenotypes in cell lines remains controversial. Because transcriptome data are a representative set of molecular phenotypes in cancers, we systematically analyzed the discrepancy of global gene expression profiles between patient samples and cell lines in breast cancers. While the majority of genes exhibited general consistency between patient samples and cell lines, the expression of genes in the categories of extracellular matrix, collagen trimers, receptor activity, catalytic activity and transporter activity were significantly up-regulated only in tissue samples...
April 12, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28410607/aprecisekure-an-approach-of-precision-medicine-in-a-rare-disease
#3
Ottavia Spiga, Vittoria Cicaloni, Andrea Bernini, Andrea Zatkova, Annalisa Santucci
BACKGROUND: Alkaptonuria (AKU; OMIM:203500) is a classic Mendelian genetic disorder described by Garrod already in 1902. It causes urine to turn black upon exposure to air and also leads to ochronosis as well as early osteoarthritis. Our objective is the implementation of a Precision Medicine (PM) approach to AKU. We present here a novel ApreciseKUre database facilitating the collection, integration and analysis of patient data in order to create an AKU-dedicated "PM Ecosystem" in which genetic, biochemical and clinical resources can be shared among registered researchers...
April 14, 2017: BMC Medical Informatics and Decision Making
https://www.readbyqxmd.com/read/28407189/molecular-analysis-of-genetic-diversity-among-vine-accessions-using-dna-markers
#4
A F da Costa, P E Teodoro, L L Bhering, F D Tardin, R F Daher, W F Campos, A P Viana, M G Pereira
Viticulture presents a number of economic and social advantages, such as increasing employment levels and fixing the labor force in rural areas. With the aim of initiating a program of genetic improvement in grapevine from the State University of the state of Rio de Janeiro North Darcy Ribeiro, genetic diversity between 40 genotypes (varieties, rootstock, and species of different subgenera) was evaluated using Random amplified polymorphic DNA (RAPD) molecular markers. We built a matrix of binary data, whereby the presence of a band was assigned as "1" and the absence of a band was assigned as "0...
April 13, 2017: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/28401407/molecular-analysis-of-amantadine-resistant-influenza-a-h1n1-pdm09-virus-isolated-from-slum-dwellers-of-dhaka-bangladesh
#5
Mozibur Rahman, Sheikh Ariful Hoque, Mohammad Ariful Islam, Sabita Rezwana Rahman
Influenza is a highly contagious viral infection associated with excessive hospitalizations and deaths throughout the world. Continuous antigenic shift and drift is not only responsible for this devastating effect of influenza but also causes ineffectiveness of antiviral drugs and vaccines. In this study, we investigated the effectiveness of ribavirin, oseltamivir, and amantadine drugs in vitro against nine influenza A isolates collected during June 2012-August 2013 from different slums in Dhaka city. The effectiveness of these drugs was determined by measuring the inhibition of virus-induced cytopathic effect on MDCK cells through MTT assay (3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide)...
April 11, 2017: Virus Genes
https://www.readbyqxmd.com/read/28398127/near-infrared-spectroscopy-predicts-compositional-and-mechanical-properties-of-hyaluronic-acid-based-engineered-cartilage-constructs
#6
Farzad Yousefi, Minwook Kim, Syeda Yusra Nahri, Robert Leon Mauck, Nancy Pleshko
Hyaluronic acid (HA) has been widely used for cartilage tissue engineering applications. However, the optimal time point to harvest HA-based engineered constructs for cartilage repair is still under investigation. Here, we investigated the ability of a non-destructive modality, near infrared spectroscopic (NIR) analysis, to predict compositional and mechanical properties of HA-based engineered cartilage constructs. NIR spectral data were collected from control, unseeded constructs, and twice per week via fiber optic from constructs seeded with chondrocytes during their development over an 8 week period...
April 11, 2017: Tissue Engineering. Part A
https://www.readbyqxmd.com/read/28379208/analysis-of-optimal-sensor-positions-for-activity-classification-and-application-on-a-different-data-collection-scenario
#7
Natthapon Pannurat, Surapa Thiemjarus, Ekawit Nantajeewarawat, Isara Anantavrasilp
This paper focuses on optimal sensor positioning for monitoring activities of daily living and investigates different combinations of features and models on different sensor positions, i.e., the side of the waist, front of the waist, chest, thigh, head, upper arm, wrist, and ankle. Nineteen features are extracted, and the feature importance is measured by using the Relief-F feature selection algorithm. Eight classification algorithms are evaluated on a dataset collected from young subjects and a dataset collected from elderly subjects, with two different experimental settings...
April 5, 2017: Sensors
https://www.readbyqxmd.com/read/28370605/metabolite-mapping-by-consecutive-nanostructure-and-silver-assisted-mass-spectrometry-imaging-on-tissue-sections
#8
O J R Gustafsson, T M Guinan, D Rudd, H Kobus, K Benkendorff, N H Voelcker
RATIONALE: Nanostructure-based mass spectrometry imaging (MSI) is a promising technology for molecular imaging of small molecules, without the complex chemical background typically encountered in matrix-assisted molecular imaging approaches.Here, we have enhanced these surfaces with silver (Ag) to provide a second tier of MSI data from a single sample. METHODS: MSI data was acquired through the application of laser desorption/ionization mass spectrometry to biological samples imprinted onto desorption/ionisation on silicon (DIOS) substrates...
March 31, 2017: Rapid Communications in Mass Spectrometry: RCM
https://www.readbyqxmd.com/read/28369339/hic-spector-a-matrix-library-for-spectral-and-reproducibility-analysis-of-hi-c-contact-maps
#9
Koon-Kiu Yan, Galip Gürkan Yardimci, Chengfei Yan, William S Noble, Mark Gerstein
Summary: Genome-wide proximity ligation based assays like Hi-C have opened a window to the 3D organization of the genome. In so doing, they present data structures that are different from conventional 1D signal tracks. To exploit the 2D nature of Hi-C contact maps, matrix techniques like spectral analysis are particularly useful. Here, we present HiC-spector, a collection of matrix-related functions for analyzing Hi-C contact maps. In particular, we introduce a novel reproducibility metric for quantifying the similarity between contact maps based on spectral decomposition...
March 22, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28367546/delineation-of-disease-phenotypes-associated-with-esophageal-adenocarcinoma-by-maldi-ims-ms-analysis-of-serum-n-linked-glycans
#10
M M Gaye, T Ding, H Shion, A Hussein, Y Hu, S Zhou, Z T Hammoud, B K Lavine, Y Mechref, J C Gebler, D E Clemmer
N-Linked glycans, extracted from patient sera and healthy control individuals, are analyzed by Matrix-assisted laser desorption ionization (MALDI) in combination with ion mobility spectrometry (IMS), mass spectrometry (MS) and pattern recognition methods. MALDI-IMS-MS data were collected in duplicate for 58 serum samples obtained from individuals diagnosed with Barrett's esophagus (BE, 14 patients), high-grade dysplasia (HGD, 7 patients), esophageal adenocarcinoma (EAC, 20 patients) and disease-free control (NC, 17 individuals)...
April 3, 2017: Analyst
https://www.readbyqxmd.com/read/28357075/de-novo-systemic-deleterious-amino-acid-substitutions-are-common-in-large-cytoskeleton-related-protein-coding-regions
#11
Rebecca J Stoll, Grace R Thompson, Mohammad D Samy, George Blanck
Human mutagenesis is largely random, thus large coding regions, simply on the basis of probability, represent relatively large mutagenesis targets. Thus, we considered the possibility that large cytoskeletal-protein related coding regions (CPCRs), including extra-cellular matrix (ECM) coding regions, would have systemic nucleotide variants that are not present in common SNP databases. Presumably, such variants arose recently in development or in recent, preceding generations. Using matched breast cancer and blood-derived normal datasets from the cancer genome atlas, CPCR single nucleotide variants (SNVs) not present in the All SNPs(142) or 1000 Genomes databases were identified...
February 2017: Biomedical Reports
https://www.readbyqxmd.com/read/28351133/monitoring-the-behavior-of-emerging-contaminants-in-wastewater-impacted-rivers-based-on-the-use-of-fluorescence-excitation-emission-matrixes-eem
#12
Massimiliano Sgroi, Paolo Roccaro, Gregory V Korshin, Federico G A Vagliasindi
This study investigated the applicability of fluorescence indexes based on the interpretation of excitation emission matrices (EEMs) by PARAFAC analysis and by selecting fluorescence intensities at a priori defined excitation/emission pairs as surrogates for monitoring the behavior of emerging organic compounds (EOCs) in two catchment basins impacted by wastewater discharges. Relevant EOC and EEM data were obtained for a 90 km stretch of the Simeto River, the main river in Sicily, and the smaller San Leonardo River, which was investigated for a 17 km stretch...
April 6, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28340744/simultaneous-multi-residue-determination-of-twenty-one-veterinary-drugs-in-poultry-litter-by-modeling-three-way-liquid-chromatography-with-fluorescence-and-absorption-detection-data
#13
Carla M Teglia, Paola M Peltzer, Silvia N Seib, Rafael C Lajmanovich, María J Culzoni, Héctor C Goicoechea
A method for the simultaneous investigation of twenty one veterinary active ingredients in poultry litter based on MCR-ALS modeling of three-way liquid chromatography with fluorescence and UV detection data is presented. The chromatographic procedure was optimized in terms of both the nature of the organic solvent and the pH of the mobile phase to maximize the resolution of the analytes. In order to improve the simultaneous extraction efficiency of the twenty one veterinary drugs, a simplex-centroid design with combinations of the three components of the extracting mixture, i...
May 15, 2017: Talanta
https://www.readbyqxmd.com/read/28338311/validation-of-self-confidence-scale-for-clean-urinary-intermittent-self-catheterization-for-patients-and-health-caregivers
#14
Cintia Fernandes Baccarin Biaziolo, Alessandra Mazzo, José Carlos Amado Martins, Beatriz Maria Jorge, Rui Carlos Negrão Batista, Silvio Júnior Tucci
OBJECTIVE: To validate a measurement instrument for clean intermittent self-catheterization for patients and health-caregivers. MATERIAL AND METHODS: Methodological study of instrument validation performed at a Rehabilitation Center in a University hospital for patients submitted to clean intermittent self-catheterization and their health-caregivers. Following ethical criteria, data were collected during interview with nurse staff using a Likert question form containing 16 items with 5 points each: "no confidence"=1, "little confidence"=2, "confident"=3, "very confident"=4 and "completely confident"=5...
March 24, 2017: International Braz J Urol: Official Journal of the Brazilian Society of Urology
https://www.readbyqxmd.com/read/28337400/prototype-of-an-interface-for-hyphenating-distillation-with-gas-chromatography-and-mass-spectrometry
#15
Ya-Ru Tang, Hui-Hsien Yang, Pawel L Urban
Chemical analysis of complex matrices-containing hundreds of compounds-is challenging. Two-dimensional separation techniques provide an efficient way to reduce complexity of mixtures analyzed by mass spectrometry (MS). For example, gasoline is a mixture of numerous compounds, which can be fractionated by distillation techniques. However, coupling conventional distillation with other separations as well as MS is not straightforward. We have established an automatic system for online coupling of simple microscale distillation with gas chromatography (GC) and electron ionization MS...
2017: Mass Spectrometry
https://www.readbyqxmd.com/read/28333993/integrated-transcriptomic-and-proteomic-analysis-of-the-molecular-cargo-of-extracellular-vesicles-derived-from-porcine-adipose-tissue-derived-mesenchymal-stem-cells
#16
Alfonso Eirin, Xiang-Yang Zhu, Amrutesh S Puranik, John R Woollard, Hui Tang, Surendra Dasari, Amir Lerman, Andre J van Wijnen, Lilach O Lerman
BACKGROUND: Mesenchymal stromal/stem cell (MSC) transplantation is a promising therapy for tissue regeneration. Extracellular vesicles (EVs) released by MSCs act as their paracrine effectors by delivering proteins and genetic material to recipient cells. To assess how their cargo mediates biological processes that drive their therapeutic effects, we integrated miRNA, mRNA, and protein expression data of EVs from porcine adipose tissue-derived MSCs. METHODS: Simultaneous expression profiles of miRNAs, mRNAs, and proteins were obtained by high-throughput sequencing and LC-MS/MS proteomic analysis in porcine MSCs and their daughter EVs (n = 3 each)...
2017: PloS One
https://www.readbyqxmd.com/read/28324852/a-novel-water-quality-data-analysis-framework-based-on-time-series-data-mining
#17
Weihui Deng, Guoyin Wang
The rapid development of time-series data mining provides an emerging method for water resource management research. In this paper, based on the time-series data mining methodology, we propose a novel and general analysis framework for water quality time-series data. It consists of two parts: implementation components and common tasks of time-series data mining in water quality data. In the first part, we propose to granulate the time series into several two-dimensional normal clouds and calculate the similarities in the granulated level...
March 18, 2017: Journal of Environmental Management
https://www.readbyqxmd.com/read/28318483/automated-atom-by-atom-three-dimensional-3d-reconstruction-of-field-ion-microscopy-data
#18
Michal Dagan, Baptiste Gault, George D W Smith, Paul A J Bagot, Michael P Moody
An automated procedure has been developed for the reconstruction of field ion microscopy (FIM) data that maintains its atomistic nature. FIM characterizes individual atoms on the specimen's surface, evolving subject to field evaporation, in a series of two-dimensional (2D) images. Its unique spatial resolution enables direct imaging of crystal defects as small as single vacancies. To fully exploit FIM's potential, automated analysis tools are required. The reconstruction algorithm developed here relies on minimal assumptions and is sensitive to atomic coordinates of all imaged atoms...
March 20, 2017: Microscopy and Microanalysis
https://www.readbyqxmd.com/read/28306162/analysis-of-the-effects-of-several-decalcifying-agents-alone-and-in-combination-with-sodium-hypochlorite-on-the-chemical-composition-of-dentine
#19
T Tartari, L Bachmann, R F Zancan, R R Vivan, M A H Duarte, C M Bramante
AIM: To investigate the effects of several decalcifying agents alone and in combination with sodium hypochlorite (NaOCl) on the organic and inorganic components of dentine using Attenuated Total Reflectance in Fourier Transform Infrared Spectroscopy (ATR-FTIR). METHODOLOGY: Dentine slices from bovine teeth were submitted to (n=5): 0.9% saline, 9% and 18% etidronic acid (HEDP), 5% and 10% tetrasodium EDTA (EDTANa4 ), 17% trisodium EDTA (EDTAHNa3 ), and 0.5% and 2...
March 17, 2017: International Endodontic Journal
https://www.readbyqxmd.com/read/28286488/evaluation-of-mother-child-agreement-and-factorial-structures-of-the-scared-questionnaire-in-an-italian-clinical-sample
#20
Simona Scaini, Anna Ogliari, Ludovica De Carolis, Laura Bellodi, Clelia Di Serio, Chiara Brombin
Background: A great part of the literature has confirmed the importance of both child and parents reports as source of factual information, especially for childhood emotional syndromes. In our study we aimed at: (i) calculating mother-child agreement and (ii) evaluating factorial structure of the Screen for Child Anxiety Related Emotional Disorders (SCARED) questionnaire in an Italian clinical sample. The novelty of this contribution is two-fold: first, from a clinical point of view, we investigated the parent-child agreement level and examined separately the factorial structures of both parent and child versions of the SCARED for the first time in an Italian clinical sample...
2017: Frontiers in Psychology
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