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800 results for “mixtures”
STGMVA: clustering, imputation, and integration for spatial resolved transcriptomics using spatiotemporal gaussian mixture variational autoencoder
<p> In this study, we present STGMVA, a comprehensive analysis toolkit employs a spatiotemporal gaussian mixture variational autoencoder to tackle these tasks effectively. STGMVA consists of two stages: pretraining the gene expression and spatial location using a gaussian mixture model, and learning the embedding vectors through a variational graph autoencoder. Results demonstrate STGMVA surpasses state-of-the-art approaches on various spatial transcriptomics datasets, exhibiting superior performance across different scales and resolutions. Notably, STGMVA achieves the highest clustering accuracy in human brain, mouse hippocampus, and mouse olfactory bulb tissues. Furthermore, STGMVA enhances and denoises gene expression patterns for gene imputation task. Additionally, STGMVA has the capability to correct batch effects and achieve joint analysis when integrating multiple tissue slices.</p>
Experimental Results for "A Unified Perspective on Natural Gradient Variational Inference with Gaussian Mixture Models"
<p>This package contains the raw data / logs (fetched from WandB) for the experiments of the following publication:</p> <p>O. Arenz, P. Dahlinger, Z. Ye, M. Volpp, and G. Neumann. A unified perspective on natural gradient variational inference with gaussian mixture models. Transactions on Machine Learning Research, 2023. URL: <a href="https://openreview.net/forum?id=tLBjsX4tjs">https://openreview.net/forum?id=tLBjsX4tjs</a>.</p> <p> </p>
Data Files for "Low-Temperature Specific Heat Capacity of Water--Ammonia Mixtures Down to the Eutectic"
<p>The zip file contains all data files and plots used and created in the publication:<br> Low-Temperature Specific Heat Capacity of Water--Ammonia Mixtures Down to the Eutectic</p>
Analysis of Effective Stiffness and Anisotropy of AC 16 Asphalt Mixture within NCN project Weave-UNISONO 2021, project No 2021/03/Y/ST8/00079
<p><strong>Summary</strong>:</p> <p>The internal structure of the AC 16 (asphalt concrete mixture) was divided into the mortar phase and the mineral aggregate phase. Static creep tests using the Bending Beam Rheometer were conducted for the mortar phase to fit the rheological model. The aggregate arrangement and orientation were analysed using ImageJ software for the mineral phase. The Finite Element Method (FEM using ABACUS software) meshes were prepared based on images with an assumption of plane strain in 2D formulation. Using the FEM model, the tension/compression tests using selected characteristic directions were conducted, and the effective constrained stiffness moduli were estimated.</p> <p><strong>The dataset includes:</strong></p> <ul> <li>TIFF input and output image of AC16 lateral surface, txt output results file <ul> <li>xz_AC_16 lateral surface_areas colour.tiff</li> <li>xz_AC_16 lateral surface.tiff</li> <li>xz_AC_16 lateral surface ImageJ - results.txt</li> </ul> </li> <li>grey TIFF image for plot profile <ul> <li>grey image for plot profile.tif</li> </ul> </li> <li>BBR test results, CSV raw data <ul> <li>sample 1 mortar.csv</li> <li>sample 2 mortar.csv</li> </ul> </li> <li>Input images: scan in xy plane and scan in xz plane <ul> <li>xy_AC_16 mel-dol.tif</li> <li>xy_AC_16.tif</li> <li>xy_AC_16 ImageJ - results.txt</li> <li>xz_AC_16 mel_dol.tif</li> <li>xz_AC_16.tif</li> <li>xz_AC_16 ImageJ - results.txt</li> </ul> </li> <li>Abaqus Input Files – horizontal and vertical tension <ul> <li>xy_AC_16_horizontal_tension.txt</li> <li>xy_AC_16_vertical_tension.txt</li> <li>xz_yz_AC_16_horizontal_tension.txt</li> <li>xz_yz_AC_16_vertical_tension.txt</li> </ul> </li> </ul>
All-atom MD simulations of POPC/SSM/CHOL mixture
<p>All-atom MD simulation of lipid bilayer in water, with composition POPC/SSM/CHOL, at 321.15 K, NPT conditions.</p> <p>Force field: CHARMM36. Water model: TIP3P. Number of molecules: 100 POPC + 100 SSM + 100 CHOL + 9000 SOL + 18 Na+ + 18 Cl-.</p> <p>SSM is (d18:1/18:0) sphingomyelin.</p> <p>Duration of the simulation: 300 ns.</p>
Data for: Optimizing a metabarcoding marker portfolio for species detection from complex mixtures of globally diverse fishes
<p>DNA metabarcoding is used to enumerate and identify taxa in both environmental samples and tissue mixtures, but the effectiveness of particular markers depends on their sensitivity to the taxa involved. Using multiple primer sets that amplify different genes can mitigate biases in amplification efficiency, sequence resolution, and reference data availability, but few empirical studies have evaluated markers for complementary performance. Here, we assess the individual and joint performance of 22 markers for detecting species in a DNA pool of 98 species of marine and freshwater bony fishes from geographically and phylogenetically diverse origins. We find that a portfolio of four markers targeting 12S, 16S, and two regions of COI identifies 100% of reference taxa to family and nearly 60% to species. We then use these four markers to evaluate metabarcoding of heterogeneous tissue mixtures, using experimental fishmeal to test: 1) the tissue input threshold to ensure detection; 2) how read depth scales with tissue abundance; and 3) the effect of non-target material in the mixture on recovery of target taxa. We consistently detect taxa that make up >1% of fishmeal mixtures and can detect taxa at the lowest input level of 0.01%, but rare taxa (<1%) were detected inconsistently across markers and replicates. Read counts showed only a weak correlation with tissue input, suggesting they are not a reliable quantitative proxy for relative abundance. Despite the limitations arising from primer specificity and reference data availability, our results demonstrate that a modest portfolio of markers can perform well in detecting and identifying aquatic species in complex mixtures despite heterogeneity in tissue representation, phylogenetic affinities, and from a broad geographic range.</p>
"I was the class teacher at that time. It was a class trip, usually organized near the end of the schoolterm in summer. The pupils went there by bike to have a barbecue at the sandy banks of the river Rhine near Dusseldorf. The landscape around is mostly dominated by agriculture and glasshouse cultures. You find a mixture of former villages nowadays completely suburbanized. The population finds jobs in the nearby urban centers like Dusseldorf, Neuss and other big cities. The reason why Irecorded the scene is simply because Iam interested in collecting sounds in general by doing recordings in different surroundings like nature, cities and everything between. My memories about the event are that it was a relaxing and funny atmosphere, which is not always the case while teaching in a classroom" [Reinhard/reinsamba]15 in Collecting Sounds. Online Sharing of Field Recordings as Cultural Practice
"I was the class teacher at that time. It was a class trip, usually organized near the end of the schoolterm in summer. The pupils went there by bike to have a barbecue at the sandy banks of the river Rhine near Dusseldorf. The landscape around is mostly dominated by agriculture and glasshouse cultures. You find a mixture of former villages nowadays completely suburbanized. The population finds jobs in the nearby urban centers like Dusseldorf, Neuss and other big cities. The reason why Irecorded the scene is simply because Iam interested in collecting sounds in general by doing recordings in different surroundings like nature, cities and everything between. My memories about the event are that it was a relaxing and funny atmosphere, which is not always the case while teaching in a classroom" [Reinhard/reinsamba]15
0.25% Bupivacaine Versus a Mixture of 0.25% Bupivacaine and 1.3 % Liposomal Bupivacaine in Patients Undergoing Tka
ClinicalTrials.gov study NCT03303794. IPD Sharing: NO. Countries: 1. Publications: 36.
Variations in tree growth provide limited evidence of species mixture effects in Interior West U.S.A. mixed-conifer forests
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Performance of akaike information criterion and bayesian information criterion in selecting partition models and mixture models
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Evidence of absence regression: a binomial N-mixture model for estimating fatalities at wind power facilities
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Roadside turfgrass seed mixtures: models and figures
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Species mixture effects and climate influence growth, recruitment and mortality in Interior West U.S.A. Populus tremuloides - conifer communities
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Conflict over the eukaryote root resides in strong outliers, mosaics and missing data sensitivity of site-specific (CAT) mixture models
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Predicted room temperature electrical conductivity of molecular mixtures
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Data from: Identifying seed families with high mixture performance in a subtropical forest biodiversity experiment
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Trait functional diversity explains mixture effects on litter decomposition at the arid end of a climate gradient
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Monitoring animal populations with cameras using open, multistate, N-mixture models
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Data for: Optimizing a metabarcoding marker portfolio for species detection from complex mixtures of globally diverse fishes
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Estimating spawning Green Sturgeon (Acipenser medirostris Ayres, 1854) abundance using side scan sonar and N-mixture models
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ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.