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1,930 results for “Matrix”
Matrix N, TEs vs promoters, 100kb-wide windows, hg19
<p>Regulatory susceptibility matrix N, with rows as hg19 protein coding genes and columns as TE subfamilies. A TE is counted if it is found within 100kb of a gene promoter, strictly out of any promoter and any exon belonging to that gene.</p>
Social evolution of shared biofilm matrix components
<p>Biofilm formation is an important and ubiquitous mode of growth among bacteria. Central to the evolutionary advantage of biofilm formation is cell-cell and cell-surface adhesion achieved by a variety of factors, some of which are diffusible compounds that may operate as classical public goods – factors that are costly to produce but may benefit other cells. An outstanding question is how diffusible matrix production, in general, can be stable over evolutionary timescales. In this work, using Vibrio cholerae as a model, we show that shared diffusible biofilm matrix proteins are indeed susceptible to cheater exploitation, and that the evolutionary stability of producing these matrix components fundamentally depends on biofilm spatial structure, intrinsic sharing mechanisms of these components, and flow conditions in the environment. We further show that exploitation of diffusible adhesion proteins is localized within a well-defined spatial range around cell clusters that produce them. Based on this exploitation range and the spatial distribution of cell clusters, we construct a model of costly diffusible matrix production and relate these length scales to the relatedness coefficient in social evolution theory. Our results show that production of diffusible biofilm matrix components is evolutionarily stable under conditions consistent with natural biofilm habitats and host environments. We expect the mechanisms revealed in this study to be relevant to other secreted factors that operate as cooperative public goods in bacterial communities, and the concept of exploitation range and the associated analysis tools to be generally applicable.</p>
Distance matrix for UNITE sequences
<p>Flattened and compressed version of 2 pairwise distance matrices corresponding to <a href="https://doi.org/10.15156/BIO/1264708">this</a> UNITE release.</p> <p>Can be imported in a pipeline for building an overarching fungal phylogeny for UNITE (<a href="https://github.com/luukromeijn/MDDB-phylogeny">Github source code</a>). </p> <p>Importing might take up to an hour, but this is still much quicker than the 36-hours pairwise distance calculation. </p> <p>The 6-mer Google distance is way more accurate than the w-metric, so we highly recommend using the 6-mer Google distance.</p> <p>More documentation can be found <a href="https://github.com/luukromeijn/MDDB-phylogeny#readme">here</a>.</p>
Measurement Matrix and Path Examples for Adaptive Sparse Sampling for Quasiparticle Interference Imaging
<p>precalculated measurement paths used with adaptive sparse sampling for quasiparticle interference imaging. </p>
Matrix of genus occurrences for the GFRI and closeness index analysis of Bartolini-Lucenti et al.
<p>Matrix of genus occurrences for the GFRI and closeness index analysis of Bartolini-Lucenti et al. "The Montopoli site, a reference Local Fauna in the Pliocene and Pleistocene European Large Mammals Biochronology, first discovered by Giovanni Capellini (1833-1922)"published on the Bollettino della Società Paleontologica Italiana</p>
Data matrix for ALTERNATIVE project deliverable D3.1
<p>The evaluation of epidemiological evidence was carried out in project ALTERNATIVE by a systematic review of the literature. The project defined the literature search strategy and build a data matrix from the collected evidence. The matrix consists of all the variables collected from each selected evidence and is presented in separate tables. This file presents the original data matrix.</p>
Data matrix for ALTERNATIVE project deliverable D3.2
<p>The toxicological data matrix provides a framework for the derived results of the targeted literature study that was carried out in project ALTERNATIVE. Included are 3 tables. Table 1 (1<sup>st</sup> sheet) provides an overview of the included toxicants, as well as physicochemical properties and the total number of results for every toxicant. In table 2 (2<sup>nd</sup> sheet), a list of all potency estimates can be found (318 in total). Table 3 (3<sup>rd</sup> tab) provides the summarized main findings of included cardiotoxicity studies.</p>
A semi-analytical solution for heat transport in rock with parallel fractures and a heat source in both fracture and matrix
<p>In this study, we propose a two-dimensional semi-analytical solution framework based on a Green’s function approach for a flexible heat source definition, including the heat source dimensions, energy delivery strength and duration, and the presence of a heat source in the matrix and/or fracture. The solution fully accounts for heat conduction, advection, dispersion, and transient heat exchange between the fracture fluid and rock matrix in a system of parallel fractures. </p> <p>The dataset is for the figures 2-9 in the journal paper. </p> <p>The computation code is available to generate the temperature in rock matrix or fracture using Matlab. </p>
Dataset: Enhancing Spin Coherence in Optically Addressable Molecular Qubits through Host-Matrix Control
<p>Dataset: Enhancing Spin Coherence in Optically Addressable Molecular Qubits through Host-Matrix Control</p>
An in vivo stable isotope labeling method to investigate individual matrix protein synthesis, ribosomal biogenesis, and chondrocyte proliferation in murine articular cartilage
<p>These experiments have used a stable-isotope method using <em>in vivo</em> deuterium oxide labeling and mass spectrometry to measure protein concentration, protein half-life, cell proliferation, and ribosomal biogenesis in a single sample of murine articular cartilage. We hypothesized that a 60-day labeling period would capture age-related declines in cartilage matrix protein content, protein synthesis rates, and chondrocyte proliferation. Knee cartilage was isolated from 25- and 90-week-old female C57BL/6J mice treated with deuterium oxide for 15, 30, 45 and 60 days. We measured protein abundance and half-lives using high resolution accurate mass spectrometry (HRAM) and d2ome data processing software. </p>
WMID-66F85D - Reused and cancelled seal matrix
An incomplete cancelled reused seal Matrix of Medieval dating (AD 1200 to AD 1400). The seal matrix is of the flat pointed oval type. It has been cancelled by folding in half, with the reverse side inwards. Both faces have been engraved with a device. The front is probably the original seal matrix design. The central design is hard to make out, possibly a standing figure. The inscription starts with a cross. It reads SIG[ ]XA[ ]S C[[ ]SERI [ ]. The reverse is a smaller design, and later in date than the original face. That has a central double armed cross as the central design. The inscription starts +SIGA [ ]OS[ ]T. Source: Objaverse 1.0 / Sketchfab
Seal Matrix
Material: Bronze. Accession no: MG 048. Current Location: [The Hunt Museum,](https://www.huntmuseum.com/) [Limerick](https://www.geonames.org/7778675/limerick-city.html). A pointed oval [seal](http://vocab.getty.edu/page/aat/300028877) matrix with an [inscription](http://vocab.getty.edu/page/aat/300028702) around the edge. There is a central figure with hands clasped together and standing on a platform over another figure. [More](https://www.huntmuseum.com/explore/item/1fe36815-77c2-3c92-91b0-1a0aab89bade/?s%3Dseal+matrix&pos=1). Source: Objaverse 1.0 / Sketchfab
Matrimid-JUC-62 and Matrimid-PCN-250 mixed matrix membranes displaying light-responsive gas separation and beneficial ageing characteristics for CO2/N2 separation
<p>FTIR, TGA, XRD and gas permeation results for our study of Matrimid-JUC-62 and Matrimid-PCN-250 mixed matrix membranes, including light-responsive properties.</p> <p>Published in: Prasetya, N., Teck, A.A., Ladewig, B.P., <em>Matrimid-JUC-62 and Matrimid-PCN-250 mixed matrix membranes displaying light-responsive gas separation and beneficial ageing characteristics for CO<sub>2</sub>/N<sub>2</sub> separation</em>, (2018) <strong>Scientific Reports</strong>, 8 (1), 2944. </p> <p>doi:<a href="http://dx.doi.org/10.1038/s41598-018-21263-7">10.1038/s41598-018-21263-7</a></p>
Data matrix for phylogeography of Euphorbia jolkinii
<p>In this study, we conducted phylogenomic analyses on the plastome and genome-wide nuclearSNP of <em>Euphorbia jolkinii</em> and its relative. We archived the data matrix for the analyses.</p>
Data matrix for phylogeography of sea hibiscus (Hibiscus tiliaceus) group
<p><span>Long-distance dispersal (LDD) of seeds plays an important role in the plant migration to a new habitat and maintaining gene flow among populations. Pantropical plants with sea-drifted seeds have achieved their global distribution by LDD. However, the spatiotemporal processes to achieve the wide distribution and the role of LDD in it have not yet been investigated.</span></p> <p><span> In this study, we conducted phylogenomic analyses on the plastome, genome-wide nuclear SNP, and low-copy gene data of <em>Hibiscus tiliaceus</em> and its relatives. We conducted shotgun sequencing for extracting plasome sequence and MIG-seq for a genome-wide SNPs genotyping.</span></p> <p><span>The dated phylogeny showed that global expansion started approximately four million years ago (MYA), and species diversification occurred 1 MYA. Plastome phylogeny suggested the non-monophyly of the haplotypes in the two widely distributed coastal species, <em>H. tiliaceus </em>and <em>H. pernambucensis</em>. In contrast, genome-wide nuclear SNP phylogenies clearly illustrated genetic segregation among species and/or geographical regions. Ancestral polymorphisms in chloroplast genomes shared among distinct species have remained below the range of rapid expansion and speciation of marginal populations. This study demonstrated that the LDD of sea-drifted seeds contributed to the rapid expansion and pantropical distribution of sea hibiscus, and adaptation to local environment or isolation by regional effect after LDD promoted speciation, suppressing gene flow.</span></p>
Full Implication Matrix (IM)
<p>This file contains a full Implication Matrix (IM) created during K. J. Kupilas PhD research "Digital Maturity - Applicability to Research and Development function of international organisations". The original data from the expert interviews were inserted into the LadderUX tool (https://ladderux.org/) and extracted into the Excel file.</p>
Effect of long-term physical disability and aging on extracellular matrix biogenesis in human skeletal muscle
<p>Supplemental Table for a study <strong>Effect of long-term physical disability and aging on extracellular matrix biogenesis in human skeletal muscle</strong></p>
Data from: CoZr nanocomposites in a ceramic-metal AlOx(OH)y/Al matrix with different Co/Zr ratio and its potential for syngas processing
<p>Data from article in Dalton Transaction</p>
Matrix stiffness influences response to chemo and targeted therapy in brain metastatic breast cancer cells
Open the record for dataset details and reuse information.
Evolutionary and ecological processes determining properties of the $\bm G$-matrix
<p>The $\bm G$-matrix is the matrix of additive genetic variances and covariances for a vector of phenotypes. Here we apply the classical theory for the balance between selection drift and mutations to find the contributions to $\bm G$ from each locus. The fitness is approximated by a linear function of phenotypes. Fluctuations in the environment generate variation in the coefficients of the fitness function. We show that the $\bm G$-matrix can be decomposed into 4 additive components generated by selection, drift, mutations and environmental fluctuations. Selection is on average counteracted by the other three processes included in Fisher's concept of the deterioration of the environment, in accordance with Frank's approximate conservation law proposing that the response to selection at stasis on average is canceled by effects of drift and mutations. The theory illustrates that Fisher's fundamental theorem cannot be used to accumulate selection through time to describe adaption unless the other effects are corrected for. Another implication of the analyses is that the factor loadings to the eigenvector of the $\bm G$-matrix with the least eigenvalue are likely to indicate which characters contributing the most to the fitness function. This is information notoriously difficult to obtain in natural populations. </p>
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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.