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7,228 results for “Modules”
QIBC code: "NEAT1 Modulates the TIRR/53BP1 Complex to Maintain Genome Integrity"
Open the record for dataset details and reuse information.
Bow shock ripples and their modulation of whistler wave packets: MMS observations
<p>Dataset for the paper "Bow shock ripples and their modulation of whistler wave packets: MMS observations".</p> <p>The data are for the Figures 1 and 2 in the manuscript.</p> <p>These files can be processed by Matlab with the help of the IRFU-matlab package, which is available at https://github.com/irfu/irfu-matlab.</p> <p> </p>
Transcriptome profiling associated with CARD11 overexpres-sion in Colorectal Cancer implicates a potential role for Tumour Immune Microenvironment and Cancer pathways modulation via NF-κB
<p>Images for CARD11 study in IJMS</p>
Dissected Antiporter Modules Establish Minimal Proton-Conduction Elements in the Respiratory Complex I
<ul> <li>Snapshots from MD simulations (see SI table 4 for reference)</li> </ul>
A Sequential Binding Mechanism for 5' Splice Site Recognition and Modulation for the Human U1 snRNP
<p>Splice site recognition is essential for defining the transcriptome. Drugs like risdiplam and branaplam change how human U1 snRNP recognizes particular 5' splice sites (5'SS) and promote U1 snRNP binding and splicing at these locations. Despite the therapeutic potential of 5'SS modulators, the complexity of their interactions and snRNP substrates have precluded defining a mechanism for 5'SS modulation. We have determined a sequential binding mechanism for modulation of -1A bulged 5'SS by branaplam using a combination of ensemble kinetic measurements and colocalization single molecule spectroscopy (CoSMoS). Our mechanism establishes that U1-C protein binds reversibly to U1 snRNP, and branaplam binds to the U1 snRNP/U1-C complex only after it has engaged with a -1A bulged 5'SS. Obligate orders of binding and unbinding explain how reversible branaplam interactions cause formation of long-lived U1 snRNP/5'SS complexes. Branaplam targets a ribonucleoprotein, not only an RNA duplex, and its action depends on fundamental properties of 5'SS recognition.</p>
Stability of incommensurately modulated Ni50Mn27Ga22Fe1 10M martensite under uniaxial tensile stress
<p>EBSD map plus Difraction data for tension</p>
Design of Small Molecular Modulators with Novel Scaffold Targeting the Newly Revealed Hotspot Pockets on the PD1/PDL1 Binding Surface
<p><span>The input and output files from Glide docking, as well as the structure and parameter files from Amber.</span></p>
Data for: Vertical and diel niches modulate thermal selection by rainforest frogs (Klinges et al. 2024, Proc B)
<p>paper published in <em>Proceedings of the Royal Society B</em></p> <p>DOI: <span>10.1098/rspb.20</span><span>24</span><span>.</span><span>1497</span></p>
On the Piezomagnetism of Magnetoactive Elastomeric Cylinders in Uniform Magnetic Fields: Height Modulation in the Vicinity of an Operating Point by Time-Harmonic Fields
<p>This is the data set for all the figures in the paper with the title: "On the Piezomagnetism of Magnetoactive Elastomeric Cylinders in Uniform Magnetic Fields: Height Modulation in the Vicinity of an Operating Point by Time-Harmonic Fields" published in the Polymers journal (<a title="doi" href="https://doi.org/10.3390/polym16192706">doi:10.3390/polym16192706</a>).</p>
Whole genome RNA-sequencing reveals modulation of genes related to brain disorders by Withania somnifera in human neuroblastoma SK-N-SH cells
<p>Table S1: Human reference genome based differential gene expression; Figure S1: Reactome Pathway (50 μg/mL_3h vs C_3h); Figure S2: Reactome Pathway (50 μg/mL_9h vs C_9h); Figure S3: Reactome pathway (100 μg/mL_3h vs C_3h); Figure S4: GO Dose comparison; Reactome pathway (100 μg/mL_3h vs 50 μg/mL_3h); Figure S5: GO Dose comparison; Reactome pathway (100 μg/mL_9h vs 50 μg/mL_9h); Figure S6: GO Time comparison; Reactome pathway (50 μg/mL_9h vs 50 μg/mL_3h); Figure S7: GO Time comparison; Reactome pathway (100 μg/mL_9h vs 100 μg/mL_3h); Table S2: Disease ontology analysis of 100 μg/mL_3h vs 50 μg/mL_3h WS-treated SK-N-SH cells; Table S3: Disease ontology analysis of 100 μg/mL_9h vs 50 μg/mL_9h WS-treated SK-N-SH cells; Table S4: Disease ontology analysis of 100 μg/mL_9h vs 100 μg/mL_3h WS-treated SK-N-SH cells.</p>
SQL database with detailed characteristic measurement results of photovoltaic modules that were subjected to accelerated aging sequences
<p>All measurement results are organized in an optimized database, which forms the information base for setting up models for climate sensitive ageing and degradation processes/mechanisms. The database is structured around the modules (module = device under test), see general scheme given in <a href="https://doi.org/10.1002/pip.3090">https://doi.org/10.1002/pip.3090</a>. Modules are logically connected via their specific ageing module groups with strictly associated ageing actions and instances. As stated above, a set of three identical modules is stored together in each specific ageing action (= accelerated ageing test as described in detail in Table <a title="Link to table" href="https://onlinelibrary.wiley.com/doi/10.1002/pip.3090#pip3090-tbl-0001">1</a> of <a href="https://doi.org/10.1002/pip.3090">https://doi.org/10.1002/pip.3090</a>) in order to increase the statistical reliability. Those triples are logically grouped in the database with the corresponding acquired measurement results being canonicalized and stored in the database as well. For future applications (modelling), all measurement information is kept as complete as possible; aggregation is avoided.</p> <a href="https://onlinelibrary.wiley.com/cms/asset/d5235350-b448-4094-b022-3b572d4c9317/pip3090-fig-0001-m.jpg" target="_blank" rel="noopener"></a>
scRNA-seq dataset from "Glucose deprivation and identification of TXNIP as an immunometabolic modulator of T cell activation in cancer"
<p>Gene expression profiling analysis of single cell RNA-seq data from MLR, anti-CD3/anti-CD28 treated and paired untreated CD4+ T cells samples under high glucose (11 mM) and low glucose (1 mM) conditions.</p> <p>For each sample, cells suspensions in culture medium were recovered, washed once with 0.04% BSA in 1X PBS and processed through 10x Cell Multiplexing Oligo Labeling protocol (10x Genomics, USA) according to the manufacturer’s instructions. ~1,600 cells/µl pooled cell suspensions were prepared with equal number of cells per sample: one for MLR samples, one for non-stimulated T cells samples, and one for anti-CD3/anti-CD28-stimulated T cells samples. Libraries were prepared using the 10x Chromium Single-Cell 3’ v3.1 protocol with Feature Barcode (10x Genomics, USA), according to the manufacturer’s instructions. Sequencing was performed on a NovaSeq 6000 sequencer (Illumina, USA).</p> <p>Cell Ranger (v6.0.1, 10x Genomics Inc) was applied for demultiplexing, reads mapping against the GRCh38 human reference genome, and UMI counting. Seurat package (v4.4.0) was used to generate Seurat objects. Only genes detected in at least 3 cells were kept. Cells with fewer than 200 genes detected or >15% mitochondrial UMI counts were filtered out. Samples were merged in a unique Seurat object then count data normalization and scaling was performed using Seurat with default parameters. The 2000 most highly variable genes were used for Principal Component Analysis (PCA). Harmony (v0.1.1) was applied for batch effect correction then Uniform Manifold Approximation and Projection (UMAP) and clustering using the Louvain algorithm were performed on the harmony reduction. Non-T or -MoDC clusters were removed for further analysis.</p>
West Pacific Subtropical High modulates regional hydroclimate changes on multiple timescales in central China
<p>This is the file about the Holocene speleothem stable carbon isotope and trace element records from Jiuxian cave, central China. </p>
Contributions of Tropical Cyclones and Internal Tides to Deep Near-Inertial Kinetic Energy Under Eddy Modulation
<p>This dataset contains the velocity data observed by the mooring at 130°E, 15°N. It is supplementary of the paper "<em><strong>Contributions of Tropical Cyclones and Internal Tides to Deep Near-Inertial Kinetic Energy Under Eddy Modulation</strong></em>" submitted to the <em>Geophysical Research Letters</em>. If you need any more information or want to utilize the data for research purpose, please contact the author first (Dr. Zhixiang Zhang; E-mail: zzx@qdio.ac.cn).</p>
Cross-tissue human fibroblast atlas reveals myofibroblast subtypes with distinct roles in immune modulation
<p>Fibroblast single-cell processed expression data and annotations used in the study "Cross-tissue human fibroblast atlas reveals myofibroblast subtypes with distinct roles in immune modulation"</p>
Data and Code for "Updraft Width Modulates Ambient Atmospheric Controls on Convective Cloud Depth" by Varble et al. (2024)
<p>The zip file contains additional data and revised code used in the following paper: Varble, A. C., Feng, Z., Marquis, J. N., Zhang, Z., Geiss, A., Hardin, J. C., & Jo, E. (2024), Updraft Width Modulates Ambient Atmospheric Controls on Deep Convection Depth. Under review in J. Geophys. Res. Atmos.</p> <p>Datasets used in analyses that are derived from observations and model output can be found in the data folder. Python code and notebooks used to derive these datasets and to make all plots in the paper are in the code folder. The cell tracking was performed using PyFLEXTRKR software available here: https://github.com/FlexTRKR/PyFLEXTRKR.</p> <p>Parallax corrected GOES-16 satellite retrievals used in the study are downloadable at doi.org/10.5439/2008448. Taranis C-band radar retrievals are a very large dataset and in the process of being uploaded to the DOE ARM data archive. Interpolated sonde data is downloadable at doi.org/10.5439/1095316. Raw WRF model output is a very large dataset and currently stored at NERSC. To access raw model output or Taranis radar retrievals (before being available via ARM), please contact Adam Varble (adam.varble@pnnl.gov).</p> <p>If you have any further questions, please contact Adam Varble at adam.varble@pnnl.gov.</p>
Plant community composition and traits modulate the impacts of drought intensity on soil microbial community composition and function
<p>Terrestrial ecosystems are increasingly threatened by extreme drought events. Soil microbial communities are central to terrestrial ecosystem function via their role in regulating biogeochemical cycling. Consequently, the impact of increasingly intense drought events on soil microbial communities will have knock-on effects for how ecosystems cope with climate change. In an outdoor grassland mesocosm experiment, we determined how increasing drought intensity affects bacterial and fungal community composition, and functioning, during and after drought. We also tested whether plant community resource acquisition strategy (fast- versus slow-strategy plant communities), plant community composition, and plant functional traits mediate soil microbial responses to increasing drought intensity. We found that increasing drought intensity markedly shifted bacterial and fungal community composition, and these effects persisted until the end of the experiment (two months after re-wetting). Bacterial and fungal communities that experienced severe droughts did not return to baseline composition, while those that experienced a mild drought did. Microbial community functioning (potential extracellular enzyme activity) was reduced at peak drought and shortly after re-wetting. While drought intensity effects on bacterial or fungal communities were insensitive to plant community resource acquisition strategy, functional group abundance (aboveground biomass of grass or forb plant species) composition (grass:forb ratio) and leaf traits (leaf dry matter content and leaf nitrogen concentration) explained significant variation in bacterial and fungal community composition during and after drought. Notably, plant community leaf dry matter content and soil nitrogen were the key factors mediating the effect of increasing drought intensity on microbial indicator taxa (ASVs). We conclude that increasing drought intensity affects grassland soil microbial communities during and after drought, and this impact is influenced by plant community composition and functional traits.</p>
Data from: Food availability modulates differences in parental effort between dispersing and philopatric birds
Dispersal entails costs and might have to be traded off against other life-history traits. Dispersing and philopatric individuals may thus exhibit alternative life-history strategies. Importantly, these differences could also partly be modulated by environmental variation. Our previous results in a patchy population of a small passerine, the collared flycatcher, suggest that, as breeding density, a proxy of habitat quality, decreases, dispersing individuals invest less in reproduction but maintain a stable oxidative balance, whereas philopatric individuals maintain a high reproductive investment at the expense of increased oxidative stress. In this study, we aimed at experimentally testing whether these observed differences between dispersing and philopatric individuals across a habitat quality gradient were due to food availability, a major component of habitat quality in this system. We provided additional food for the parents to use during the nestling rearing period and we measured subsequent parental reproductive effort (through provisioning rate, adult body mass, and plasmatic markers of oxidative balance) and reproductive output. Density-dependent differences between dispersing and philopatric parents in body mass and fledging success were observed in control nests but not in supplemented nests. However, density-dependent differences in oxidative state were not altered by the supplementation. Altogether, our results support our hypothesis that food availability is responsible for some of the density-dependent differences observed in our population between dispersing and philopatric individuals but other mechanisms are also at play. Our study further emphasizes the need to account for environmental variation when studying the association between dispersal and other traits.
Data from: Multi-parametric study of behavioural modulation in demersal decapods at the VENUS cabled observatory in Saanich Inlet, British Columbia, Canada
Understanding biological rhythms in benthic ecosystems and their modulation by habitat cycles has important implications for resource and ecosystem management. The recent development of permanent, multi-sensor seafloor observatories in deep-water environments provides opportunities for the in situ investigation of the behaviour of benthic organisms in relation to habitat variability. This paper describes a multi-disciplinary investigation at the VENUS observatory platform in Saanich Inlet, an intermittently anoxic fjord (Vancouver Island, Canada). A remotely operated digital camera (103 m depth) was used to document changes in the abundance of shrimp (Spirontocaris spp.) and the squat lobster (Munida quadrispina), as well as bacterial mat coverage (Beggiatoa spp.). These data were used as proxies of diel rhythms related to day–night and internal tidal cycles. Seafloor photos were acquired hourly during consecutive days, before, during and after oxygen intrusion events in the fall of 2009. In order to relate biological fluctuations to habitat cycles, bottom water pressure, temperature, dissolved oxygen, and nitrate data were also acquired from the observatory database. Periodogram analysis showed a weak internal-tide-associated rhythmicity for Spirontocaris spp. that was absent in M. quadrispina and in bacterial mat coverage. Waveform analysis confirmed the absence of any day–night fluctuation in all tested species. However, a rapid intrusion of oxygenated water at the study site influenced visual counts of species, possibly blurring detectable activity rhythms. Temperature and nitrate fluctuations were more accentuated during spring tides but cross-correlation analysis indicated an absence of species responses to these habitat variables. Results are discussed within the context of the complex oceanographic dynamics of Saanich Inlet and with respect to understanding the ecological consequences of expanding hypoxia in the global ocean.
Data from: Individual quality and age but not environmental or social conditions modulate costs of reproduction in a capital breeder
Costs associated with reproduction are widely known to play a role in the evolution of reproductive tactics with consequences to population and eco-evolutionary dynamics. Evaluating these costs as they pertain to species in the wild remains an important goal of evolutionary ecology. Individual heterogeneity, including differences in individual quality (i.e., among-individual differences in traits associated with survival and reproduction) or state, and variation in environmental and social conditions can modulate the costs of reproduction; however, few studies have considered effects of these factors simultaneously. Taking advantage of a detailed, long-term dataset for a population of feral horses (Sable Island, Nova-Scotia, Canada), we address the question of how intrinsic (quality, age), environmental (winter severity, location), and social conditions (group size, composition, sex ratio, density) influence the costs of reproduction on subsequent reproduction. Individual quality was measured using a multivariate analysis on a combination of four static and dynamic traits expected to depict heterogeneity in individual performance. Female quality and age interacted with reproductive status of the previous year to determine current reproductive effort, while no effect of social or environmental covariates was found. High quality females showed higher probabilities of giving birth and weaning their foal regardless of their reproductive status the previous year, while those of lower quality showed lower probabilities of producing foals in successive years. Middle-aged (prime) females had the highest probability of giving birth when they had not reproduced the year before but no such relationship with age was found among females that had reproduced the previous year, indicating that prime-aged females bear higher costs of reproduction. We show that individual quality and age were key factors modulating the costs of reproduction in a capital breeder but that environmental or social conditions were not, highlighting the importance of considering multiple factors when studying costs of reproduction.
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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.