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3,576 results for “strain”
Measurement of Social Strain in People with Dementia: A Pre-liminary Study of the Reliability and Validity of the Negative Relationship Quality Questionnaire in Indonesia
<p>People<strong> </strong>with dementia (PWD) may exhibit symptoms that negatively affect their relationships with their families or friends which could cause social strain. The Negative Relationship Quality (NRQ) questionnaire can be used to measure social strain in PWD. There has never been an Indonesian adaptation of the NRQ. This preliminary study aimed to measure the validity and reliability of the NRQ among PWD in Indonesia (NRQ-INA). This study used a cross-sectional design. Forward–backward translation methods were conducted first. Pearson’s correlation and factor analysis were employed for the validity test. Cronbach’s alpha and test–retest were used to determine reliability. The NRQ-INA has four parallel items related to social strain that are divided into three subscales and asked to spouse/partner, family members, and friends, leading to a total of 12 questions. The results of validity testing from 60 respondents showed that all items in the NRQ-INA were strongly valid with correlation coefficients (<em>r</em>) of >0.8 (<em>p</em><0.01). Factor analysis showed a convergence with the variance explained of more than 50% for all items in each subscale, which also indicated that NRQ-INA had acceptable construct validity to measure social strain. Cronbach’s alpha values (α) were 0.926, 0.942, and 0.938 for the subscales of spouse, friends, and family members, respectively. The correlations of test–retest reliability for all items were >0.7 (<em>p</em><0.01), demonstrating a reliable NRQ-INA measurement. In conclusion, NRQ-INA had a good validity and reliability to measure social strain in PWD. Further study of the concurrent validity among PWD is still needed.</p>
Proteomic characterization of Toxoplasma gondii ME49 derived strains resistant to the artemisinin derivatives artemiside and artemisone
<p>Full datasets of proteomes of artemisone (GC003) and artemiside (GC008) resistant T. gondii Me49 strains.</p> <p>Paper submitted to International Journal of Parasitology-Drugs and Drug Resistance</p> <p>Differential proteomic analysis of the artemisone (GC003<sup>R</sup>) and artemiside (GC008<sup>R</sup>) resistant strains versus their corresponding <em>T. gondii</em> ME49 wildtype yielded 3977 unique peptides matching to 733 <em>T. gondii</em> proteins. The complete dataset is available as supplemental Table S1. A more detailed analysis revealed that 215 proteins were significantly downregulated in GC003R and 8 proteins in GC008R as compared to their wildtype ME49. Two proteins were downregulated in both strains. No proteins were upregulated in the resistant strains as compared to their corresponding wildtype. The complete list of the differentials is given as supplemental Table S2. </p>
IG receptor germline set for species: Mouse set_name: IGKJ (all strains)
<p>Germline Reference set published on the Open Germline Receptor Database (OGRDB)</p>
IG receptor germline set for species: Mouse set_name: IGLJ (all strains)
<p>Germline Reference set published on the Open Germline Receptor Database (OGRDB)</p>
Summary of sequence variations in strains of Sars-CoV-2
<p>This entry collects JSON files specifying sequence variations of different strains (aka variants) of SARS-CoV-2 based on data retrieved from <a href="https://outbreak.info/">outbreak.info</a> and/or <a href="https://covariants.org/variants/">covariants.org</a>. These JSON files are formatted to match the <a href="https://docs.google.com/document/d/1wFJjdyl1OASnsBNkUzUx4ME8YhVybhIWCTr3Z1fBEWQ/pub">Feature API</a> of <a href="http://aquaria.ws/covid">aquaria.ws</a>. File names match the <a href="https://www.who.int/en/activities/tracking-SARS-CoV-2-variants/">linage names</a> of VOCs and VOIs. In the case of <em>omicron</em> we have added a version (omicron_charge) that highlights charge changing residues in magenta, as well as an extra file (omicron_BA2) for the <a href="https://cov-lineages.org/lineage.html?lineage=BA.2">BA.2</a>/21K sister clade and a file (omicron_BA1_BA2_diff) highlighting the differences between the lineages (coloring variations in only BA.1 red, only BA.2 blue, in both magenta). <a href="https://zenodo.org/record/5792281/files/CovidVariants.pdf">CovidVariants.pdf</a> lists SARS-CoV-2 proteins together with links that show how to map variations onto the structures.</p>
RNA-seq of green hydra strains' ( Hydra viridissima) response to the removal or exchange of symbionts
<p>The symbiotic hydra <em>Hydra </em><em>viridissima</em> has a stable symbiotic relationship with the green alga <em>Chlorella</em>. This hydra appears to cospeciate with the symbiotic alga, and some strains are known to have strain-specific host/symbiont combinations. To investigate the mechanism of the specificity between host and symbiont, we explored the effect of the removal or exchange of symbionts in two distantly related <em>H. viridissima</em> strains (K10 and M9). In this study, we compared the gene expression of symbiont-removed, symbiont-exchanged hosts for each strain. The data include the raw read fastaq, assembled sequences, and read counts of RNA-seq. We also attached the results of differential gene expression analyses for all combinations of the hosts. </p>
Learning the Stress-Strain Fields in Digital Composites using Fourier Neural Operator
<p>This is the dataset for the research paper "<a href="https://arxiv.org/abs/2207.03239 ">Learning the Stress-Strain Fields in Digital Composites using Fourier Neural Operator</a>"</p>
Borrelia burgdorferi strain and host sex influence pathogen prevalence and abundance in the tissues of a laboratory rodent host
<p class="MsoNormal">Experimental infections with different pathogen strains give insight into pathogen life history traits. The purpose of our study was to compare variation in tissue infection prevalence and spirochete abundance among strains of <em>B. burgdorferi</em> in a rodent host (<em>Mus musculus</em>, C3H/HeJ). Male and female mice were experimentally infected via tick bite with one of 12 strains. Ear tissue biopsies were taken at days 29, 59, and 89 post-infection (PI), and 7 tissues were collected at necropsy. The presence and abundance of spirochetes in the mouse tissues were measured by qPCR. To determine the frequencies of our strains in nature, their MLSTs were matched to published datasets.</p> <p class="MsoNormal">For the infected mice, 56.6% of the tissues were infected with <em>B. burgdorferi</em>. The mean spirochete load in the mouse necropsy tissues varied 4.8-fold between the strains with the lowest and highest values. The mean spirochete load in the ear tissue biopsies decreased rapidly over time for some strains. <span>The percentage of infected tissues in male mice (65.4%) was significantly higher compared to female mice (50.5%). The </span>mean spirochete load in the 7 tissues <span>was 1.5x higher in male mice compared to female mice; this male bias was 15.3x higher in the ventral skin. </span>Across the 11 strains, the mean spirochete loads in the infected mouse tissues were positively correlated with the strain-specific frequencies in their tick vector populations. Our study suggests that laboratory-based estimates of pathogen abundance in host tissues can predict the strain composition of this important tick-borne pathogen in nature.</p>
Strainy: phasing and assembly of strain haplotypes from long-read metagenome sequencing - Real and mock datasets
<p>This repository contains the reads, assemblies, and references required to replicate the <strong>real and mock</strong> results presented in the paper: https://doi.org/10.1101/2023.01.31.526521</p>
Strainy: phasing and assembly of strain haplotypes from long-read metagenome sequencing - Simulated datasets
<p>This repository contains the reads, assemblies, and references required to replicate the <strong>simulated</strong> results presented in the paper: https://doi.org/10.1101/2023.01.31.526521</p>
Analysis Data, "Strain dynamics of contaminating bacteria modulate the yield of ethanol biorefineries"
<p>This package contains datasets in `Rdata` format underlying analyses presented in the study "Strain dynamics of contaminating bacteria modulate the yield of ethanol biorefineries", first available as a preprint on February 08, 2021:</p> <p><a href="https://www.biorxiv.org/content/10.1101/2021.02.07.430133v1.article-info">https://www.biorxiv.org/content/10.1101/2021.02.07.430133v1.article-info</a></p>
Testing a new optical strain gage for full-field strain measurement: Raw images
<pre>This dataset contains images obtained during two different tests performed to assess the response of a new optical strain gage developped for full-field strain measurement.</pre> <pre><strong>File contents:<br></strong> - SMA: Folder containing images obtained with a SMA specimen<br> - SMA_Paint_Ref: contains 100 images in the reference state. These were taken with the optimal parameters for the painted and engraved half (lower half in the images).<br> - SMA_Paint_Def: contains 100 images in the deformed state. <br> - SMA_Gage_Ref: contains 100 images in the reference state. These were taken with the optimal parameters for the gage (upper half in the images).<br> - SMA_Gage_Def: contains 100 images in the deformed state. <br> - Wood: Folder containing images obtained with a wood specimen<br> - Wood_Paint_Ref: contains 100 images in the reference state.<br> - Wood_Paint_Def: contains 100 images in the deformed state. <br> - Wood_Gage_Ref: contains 100 images in the reference state.<br> - Wood_Gage_Def: contains 100 images in the deformed state. <br><br>These images can be processed with the Python code available in the OpenLSA library: https://gitlab.ip.uca.fr/expmech/openlsa .</pre> <p>An example is provided in this library.</p>
Intact protein barcoding enables one-shot identification of CRISPRi strains and their metabolic state
<p>Raw data of "Intact protein barcoding enables one-shot identification of CRISPRi strains and their metabolic state". Agilent .d files were converted to mzml files with MSconvert. The control strain is labelled H2, the CRISPRi strains are indicated by target gene names. The numbers indicate replicate 1,2 and 3.</p> <p> </p>
Genomic DNA of clinical M. abscessus strains
<p><strong>Introduction.</strong> <em>Mycobacterium abscessus</em> (Mab) is a pathogenic bacterium that can cause severe lung infections, particularly in individuals with cystic fibrosis. Mab colonies can exhibit either a smooth (S) or rough (R) morphotype, influenced by the presence or absence of glycopeptidolipids (GPL) on their surface, respectively. Despite the clinical significance of these morphotypes, the relationship between GPL levels, morphotype, and the pathogenesis of Mab infections remains poorly understood.</p> <p><strong>Gap Statement.</strong> The mechanisms and implications of GPL production and morphotypes in clinical Mab infections are unclear. There is a gap in understanding their correlation with infectivity and pathogenicity, particularly in patients with underlying lung disease.</p> <p><strong>Aim.</strong> This study aimed to investigate the correlation between Mab morphology, GPL, and infectivity by analysing strains from cystic fibrosis patients' sputum samples.</p> <p><strong>Methodology.</strong> Mab was isolated from patient sputum samples and categorised by morphotype, GPL profile, and replication rate in macrophages. A high-content <em>ex vivo</em> infection model using THP-1 cells assessed the infectivity of both clinical and laboratory strains.</p> <p><strong>Results.</strong> Our findings revealed that around 50% of isolates displayed mixed morphologies. GPL analysis confirmed a consistent relationship between GPL content and morphotype was only found only in smooth isolates. Across morphotype groups, no differences were observed <em>in vitro</em>, yet clinical R strains were observed to replicate at higher levels in the THP-1 infection model. Moreover, the proportion of infected macrophages was notably higher among clinical R strains compared to their S counterparts at 72 hours post-infection. Clinical variants also infected THP-1 cells at significantly higher rates compared to laboratory strains, highlighting the limited translatability of lab strain infection data to clinical contexts.</p> <p><strong>Conclusion.</strong> Our study confirmed the general correlation between morphotype and GPL levels in smooth strains yet unveiled more variability within morphotype groups than previously recognised, particularly during intracellular infection. As the rough morphotype is of highest clinical concern, these findings contribute to the expanding knowledge base surrounding Mab infections, offering insights that can steer diagnostic methodologies, and treatment approaches.</p>
Complete Data Set, Raman spectra for strains A/Nebraska/14/2019 and A/Hawaii/47/2014 collected at 785 nm and 532 nm
<p>This data contains Raman spectra for two different strains of Influenza A; A/Nebraska/14/2019 which is an H1N1 subtype and A/Hawaii/47/2014 which is an H3N2 subtype. There contains data for 10 separate growth cultures (i.e. 10 files) for each subtype, collected at two different wavelengths; 785 nm and 532 nm. This makes a total of 40 files. Each file has 400 spectra collected. All spectra were collected at 100x with a 5 second accumulation time. </p>
Infection of mice by the enteroaggregative E. coli strain 042 and two mutant derivatives overexpressing virulence factors: impact on disease markers, gut microbiota and concentration of SCFAs in feces
<p>This dataset contains raw sequencing data from the microbiota analysis conducted in the enteroaggregative E. coli strain 042 study. The data includes FASTQ files generated from Illumina sequencing, along with metadata describing the sample collection and processing methods.</p>
Figure 3 in Decolorization of the benzidine-based azo dye Congo red by the new strain Shewanella xiamenensis G5-03
Figure 3. Effect of agitated and static incubation on CR decolorization by S. xiamenensis G5-03.
Figure 2 in Decolorization of the benzidine-based azo dye Congo red by the new strain Shewanella xiamenensis G5-03
Figure 2. Effect of pH (A) and temperature (B) on the CR decolorization by S. xiamenensis G5-03.
Fig. 3 in Evaluation of field dispersal and survival capacity of the genetic sexing strain Tapachula-7 of Anastrepha ludens (Diptera: Tephritidae)
Fig. 3. Survival of SMR and Tap-7 strains of Anastrepha ludens afer aerial release.
Carthusian Strain of Pura Raza Español horse
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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)
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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.