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61 results for “ISOL method”
Dataset of BattLeDIM: Battle of the Leakage Detection and Isolation Methods
<p>Drinking Water Distribution Networks (DWDN) are susceptible to infrastructure failures, which may lead to water losses. Typically, these water losses are due to background leakages and pipe bursts which may occur anywhere within the distribution network. Background leakages are normally difficult to detect due to their small size, whereas pipe bursts are easier to locate as they are of larger size and may appear on the surface. The early detection and localization of some leakage event is extremely important, as this would reduce the time required for accommodating the event and therefore reducing the risk of further infrastructure degradation, contamination events and consumer complaints.</p> <p>In previous years, a number of methodologies have been proposed to detect and isolate the location of leakage events using various types of sensor measurements. These methods were commonly evaluated on private commercial datasets, and as a result, it is not possible to objectively compare these methods in their ability to detect and isolate leaks. In the past year, a leakage detection dataset has been proposed, LeakDB, based on benchmark networks and created using the WNTR tool, using pressure-driven demands and realistic leakage modelling. Inspired by the “BATtle of the Attack Detection ALgorithms” (BATADAL), which focused on the detection of cyber-physical attacks, our team decided to organize a similar “battle” focusing on leakage events.</p> <p>The Battle of the Leakage Detection and Isolation Methods (BattLeDIM), aims at objectively comparing the performance of methods for the detection and localization of leakage events, relying on SCADA measurements of flow and pressure sensors installed within water distribution networks. Participants may use different types of tools and methods, including (but not limited to) engineering judgement, machine learning, statistical methods, signal processing, and model-based fault diagnosis approaches.</p>
Data from: Sorting states of environmental DNA: Effects of isolation method and water matrix on recovery of membrane-bound, dissolved, and adsorbed states of eDNA
<p>Environmental DNA (eDNA) once shed can exist in numerous states with varying behaviors including degradation rates and transport potential. In this study we consider three states of eDNA: 1) a membrane-bound state referring to DNA enveloped in a cellular or organellar membrane, 2) a dissolved state defined as the extracellular DNA molecule in the environment without any interaction with other particles, and 3) an adsorbed state defined as extracellular DNA adsorbed to a particle surface in the environment. Capturing, isolating, and analyzing a target state of eDNA provides utility for better interpretation of eDNA degradation rates and transport potential. While methods for separating different states of DNA have been developed, they remain poorly evaluated due to the lack of state-controlled experimentation. We evaluated the methods for separating states of eDNA from a single sample by spiking DNA from three different species to represent the three states of eDNA as state-specific controls. We used chicken DNA to represent the dissolved state, cultured mouse cells for the membrane-bound state, and salmon DNA adsorbed to clay particles as the adsorbed state. We performed the separation in three water matrices, two environmental and one synthetic, spiked with the three eDNA states. The membrane-bound state was the only state that was isolated with minimal contamination from non-target states. The membrane-bound state also had the highest recovery (54.11 ± 19.24 %), followed by the adsorbed state (5.08 ± 2.28 %), and the dissolved state had the lowest total recovery (2.21 ± 2.36 %). This study highlights the potential to sort the states of eDNA from a single sample and independently analyze them for more informed biodiversity assessments. However, further method development is needed to improve recovery and reduce cross-contamination.</p>
Figure 2 in EVALUATION OF THE EFFECTIVENESS OF USING A UNIVERSAL METHOD FOR ISOLATING GENOMIC dsDNA BY SALTING OUT TECHNIQUE ACCORDING TO THE S.M. ALJANABI AND I. MARTINEZ PROTOCOL FOR YEAST SACCHAROMYCES CEREVISIAE
Figure 2. Quantification of extracted Saccharomyces cerevisiae DNA by UVVis Spectrophotometry (DNA samples: 1–15).
Figure 5. A phylogenetic tree was generated using the neighbor-joining method which shows the genetic relationship between C. sphaerospermum 2 in Morphological and molecular identification of Cladosporium sphaerospermum isolates collected from tomato plant residues
Figure 5. A phylogenetic tree was generated using the neighbor-joining method which shows the genetic relationship between C. sphaerospermum 2 (as indicated in red circle) and the other C. sphaerospermum isolates deposited in GenBank (NCBI)
Рис. 1. ФиΛогенетические Αеревья хантавируса AMRV и его прироΑного носитеΛя восточноазиатской мыши Apodemus peninsulae Thomas, 1906. А. ФиΛогенетическое Αерево восточноазиатской мыши Apodemus peninsulae, построенное метоΑом «максимаΛьного правΑопоΑобия» (ML) и поΛученное на основе анаΛиза участка гена цитохрома b мтΔНК (744 п.н.). В узΛах ветвΛения указаны бутстреп-поΑΑержки, рассчитанные ΑΛя 1000 повторов. Цветными Λиниями обозначены фиΛогенетические Λинии: Αве Китайские (зеΛеный), Корейская «Korea» (синий), Амурская «Amur» (красный). ПоΛужирным шрифтом выΑеΛены собственные образцы. Названия образцов из GenBank/NCBI быΛи сокращены; B. ФиΛогенетическое Αерево из работы Α. Н. Яшиной с ΑопоΛнениями, построенное метоΑом «бΛижайшего сосеΑа» (NJ) на основе посΛеΑоватеΛьностей фрагмента М-сегмента (2737–2980 н.п.) генома хантавирусов. В узΛах ветвΛения указаны бутстреппоΑΑержки, рассчитанные ΑΛя 1000 повторов. Жирным выΑеΛены иссΛеΑованные РНК изоΛяты (Яшина 2012; Яшина и Αр. 2019) Fig. 1. Phylogenetic trees of AMRV and its natural reservoir host — the Korean field mouse Apodemus peninsulae Thomas, 1906. A. Phylogenetic tree of the Korean field mouse Apodemus peninsulae constructed by the "maximum likelihood" method (ML). The data are obtained from the analysis of the cytochrome b mtDNA gene fragments (744 bp). Bootstrap supports calculated for 1,000 repeats are indicated in the branching nodes. Colored lines indicate phylogenetic lines: two Chinese (green), Korea (blue), and Amur (red). Own samples are highlighted in bold. The names of the samples from GenBank/NCBI have been shortened; B. Phylogenetic tree from L. N. Yashina's work with additions constructed by the neighbour joining method (NJ). It is based on the sequences of an M-segment fragment (2737–2980 bp) of the hantavirus genome. Bootstrap supports calculated for 1,000 repeats are indicated in the branching nodes. The researched RNA isolates are highlighted in bold (Yashina 2012; Yashina et al. 2019) in Variability of the gene cyt b in the Korean field mouse Apodemus peninsulae Thomas, 1906 - a reservoir host of AMRV in the Khasansky District of Primorsky Krai
Рис. 1. ФиΛогенетические Αеревья хантавируса AMRV и его прироΑного носитеΛя восточноазиатской мыши Apodemus peninsulae Thomas, 1906. А. ФиΛогенетическое Αерево восточноазиатской мыши Apodemus peninsulae, построенное метоΑом «максимаΛьного правΑопоΑобия» (ML) и поΛученное на основе анаΛиза участка гена цитохрома b мтΔНК (744 п.н.). В узΛах ветвΛения указаны бутстреп-поΑΑержки, рассчитанные ΑΛя 1000 повторов. Цветными Λиниями обозначены фиΛогенетические Λинии: Αве Китайские (зеΛеный), Корейская «Korea» (синий), Амурская «Amur» (красный). ПоΛужирным шрифтом выΑеΛены собственные образцы. Названия образцов из GenBank/NCBI быΛи сокращены; B. ФиΛогенетическое Αерево из работы Α. Н. Яшиной с ΑопоΛнениями, построенное метоΑом «бΛижайшего сосеΑа» (NJ) на основе посΛеΑоватеΛьностей фрагмента М-сегмента (2737–2980 н.п.) генома хантавирусов. В узΛах ветвΛения указаны бутстреппоΑΑержки, рассчитанные ΑΛя 1000 повторов. Жирным выΑеΛены иссΛеΑованные РНК изоΛяты (Яшина 2012; Яшина и Αр. 2019) Fig. 1. Phylogenetic trees of AMRV and its natural reservoir host — the Korean field mouse Apodemus peninsulae Thomas, 1906. A. Phylogenetic tree of the Korean field mouse Apodemus peninsulae constructed by the "maximum likelihood" method (ML). The data are obtained from the analysis of the cytochrome b mtDNA gene fragments (744 bp). Bootstrap supports calculated for 1,000 repeats are indicated in the branching nodes. Colored lines indicate phylogenetic lines: two Chinese (green), Korea (blue), and Amur (red). Own samples are highlighted in bold. The names of the samples from GenBank/NCBI have been shortened; B. Phylogenetic tree from L. N. Yashina's work with additions constructed by the neighbour joining method (NJ). It is based on the sequences of an M-segment fragment (2737–2980 bp) of the hantavirus genome. Bootstrap supports calculated for 1,000 repeats are indicated in the branching nodes. The researched RNA isolates are highlighted in bold (Yashina 2012; Yashina et al. 2019)
FIGURE 4 in Methods for isolation and quantification of microfossil fish teeth and elasmobranch dermal denticles (ichthyoliths) from marine sediments
FIGURE 4. Examples of select taxonomically identifiable fossil ichthyoliths and modern counterparts. All modern ichthyoliths were isolated from specimens in the Scripps Marine Vertebrate Collection. The fossil Myctophidae and Triakidae specimens are from ODP Site 1262, and are 62 million years old. The Scaridae modern teeth are from Smithsonian National Museum of Natural History's Fish Collection and subfossil teeth are from coral reef sediment cores taken off of the coast of Bocas del Toro, Panama, and are approximately 1200 years old.
FIGURE 3. Paleocene-aged ichthyoliths from ODP Site 1262, stained with Alizarin Red S in Methods for isolation and quantification of microfossil fish teeth and elasmobranch dermal denticles (ichthyoliths) from marine sediments
FIGURE 3. Paleocene-aged ichthyoliths from ODP Site 1262, stained with Alizarin Red S. The scale bar is 500 μm, with teeth>106 μm in the upper row and teeth <106 μm in the lower. Note that in the coloring effect is present in all teeth, however, the degree of staining varies.
FIGURE 2. A flowchart showing the steps for sediment processing for efficient and effective ichthyolith isolation from a in Methods for isolation and quantification of microfossil fish teeth and elasmobranch dermal denticles (ichthyoliths) from marine sediments
FIGURE 2. A flowchart showing the steps for sediment processing for efficient and effective ichthyolith isolation from a variety of sediment types. Sediment types are in boxes, while processing steps are shown in ovals.
FIGURE 1 in Methods for isolation and quantification of microfossil fish teeth and elasmobranch dermal denticles (ichthyoliths) from marine sediments
FIGURE 1. An assortment of large (>106 μm fraction) denticles (elasmobranch scales; left) and fish teeth (right) from DSDP Site 596, a red clay core in the South Pacific. These ichthyoliths are approximately 52 million years old. Image was taken on the Hull Lab Imaging System, Yale University. Scale bar is 500 μm.
Data from: Sorting states of environmental DNA: Effects of isolation method and water matrix on recovery of membrane-bound, dissolved, and adsorbed states of eDNA
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Supporting Data for "A partial coupling method to isolate the roles of ocean and atmosphere in coupled climate simulations"
<p>Supporting data for "A partial coupling method to isolate the roles of the atmosphere and ocean in coupled climate simulations", submitted to Journal of Advances in modelling Earth system</p> <p>Monthly averaged variables for the 100 and 150 year fully coupled (b.e11.B1850C5CN.f09_g16.abrupt4xCO2.full.POP.100101_110012.nc) and partially coupled (b.e11.B1850C5CN.f09_g16.abrupt4xCO2.partial.POP.100101_115012.nc) abrupt CO2 quadrupling simulations and 40 yr ocean-driven partially coupled simulation (b.e11.B1850C5CN.f09_g16.prescribed.partial.POP.100101_115012.nc)</p> <p>Control simulation data is available on the NCAR HPSS /CCSM/csm/b.e11.B1850C5CN.f09_g16.005</p>
Assessment of four in vitro phenotypic biofilm detection methods in relation to antimicrobial resistance in aerobic clinical bacterial isolates
<p><strong>Introduction</strong>: The lack of standardized methods for detecting biofilms continues to pose a challenge to microbiological diagnostics since biofilm-mediated infections induce persistent and recurrent infections in humans that often defy treatment with common antibiotics. This study aimed to evaluate diagnostic parameters of four in vitro phenotypic biofilm detection assays in relation to antimicrobial resistance in aerobic clinical bacterial isolates.</p> <p><strong>Methods</strong>: In this cross-sectional study, bacterial strains from clinical samples were isolated and identified following the standard microbiological guidelines. The antibiotic resistance profile was assessed through the Kirby-Bauer disc diffusion method. Biofilm formation was detected by gold standard tissue culture plate method (TCPM), tube method (TM), Congo red agar (CRA), and modified Congo red agar (MCRA). Statistical analyses were performed using SPSS version 17.0, with a significant association considered at p<0.05.</p> <p><strong>Result</strong>: Among the total isolates (n=226), TCPM detected 140 (61.95%) biofilm producers, with CoNS (9/9) (p<0.001) as the predominant biofilm former. When compared to TCPM, TM (n=119) (p<0.001) showed 90.8% sensitivity and 70.1% specificity, CRA (n=88) (p=0.123) showed 68.2% sensitivity and 42% specificity, and MCRA (n=86) (p=0.442) showed 65.1% sensitivity and 40% specificity. Juxtaposed to CRA, colonies formed on MCRA developed more intense black pigmentation from 24 to 96 hours. There were 77 multi-drug-resistant (MDR)-biofilm formers and 39 extensively drug-resistant (XDR)-biofilm formers, with 100% resistance to ampicillin and ceftazidime, respectively.</p> <p><strong>Conclusion</strong>: It is suggested that TM be used for biofilm detection. Unlike MCRA, black pigmentation in colonies formed on CRA declined with time. MDR- and XDR-biofilm formers were frequent among the clinical isolates.</p>
Cervical Restorations Placed Under Two Isolation Methods
ClinicalTrials.gov study NCT01506830. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Isolation Training Activity Given to Caregivers With Different Methods
ClinicalTrials.gov study NCT06638164. IPD Sharing: NO. Countries: 1. Publications: 3.
Data from: Regional heritability mapping method helps explain missing heritability of blood lipid traits in isolated populations
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Assessment of four in vitro phenotypic biofilm detection methods in relation to antimicrobial resistance in aerobic clinical bacterial isolates
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Data from: Enhanced computational methods for quantifying the effect of geographic and environmental isolation on genetic differentiation
1. In a recent paper, Bradburd et al. (Evolution, 67, 2013, 3258) proposed a model to quantify the relative effect of geographic and environmental distance on genetic differentiation. Here, we enhance this method in several ways. 2. We modify the covariance model so as to fit better with mainstream geostatistical models and avoid mathematically ill-behaved covariance functions. We extend the model – initially implemented only for co-dominant bi-allelic markers such as single nucleotide polymorphisms – to encompass highly polymorphic markers such as microsatellites. We implement and test a model selection procedure that allows users to assess which model (e.g. with or without an environment effect) is most suited. We code all our MCMC algorithms in a mix of compiled languages which allows us to decrease computing time by at least one order of magnitude. We propose an approximate inference and model selection method allowing us to deal with genomic data sets (several hundred thousands loci). 3. We also illustrate the potential of the method by re-analysing three data sets, namely harbour porpoises in Europe, coyotes in California and herrings in the Baltic Sea. 4. The computer program developed here is freely available as an r package called sunder. It takes as input georeferenced allele counts at the individual or population level for co-dominant markers. Program homepage: http://www2.imm.dtu.dk/~gigu/Sunder/.
Figure 4 in EVALUATION OF THE EFFECTIVENESS OF USING A UNIVERSAL METHOD FOR ISOLATING GENOMIC dsDNA BY SALTING OUT TECHNIQUE ACCORDING TO THE S.M. ALJANABI AND I. MARTINEZ PROTOCOL FOR YEAST SACCHAROMYCES CEREVISIAE
Figure 4. Visualisation of isolated yeast DNA (Saccharomyces cerevisiae) using the S.M. Aljanabi and I. Martinez universal protocol in 1.8% Agarose gel by horizontal electrophoresis. DNA size marker/Ladder: Gene Ruler 100bp. Plus DNA Ladder (Thermo Scientific).
Dental Isolation Methods in Pediatric Patients
ClinicalTrials.gov study NCT04430387. IPD Sharing: NO. Countries: 0. Publications: 1.
Community Intervention to Reduce Social Isolation in Elderly People: a Mixed Methods Multi-approach Evaluation
ClinicalTrials.gov study NCT03142048. IPD Sharing: NO. Countries: 0. Publications: 2.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.