Find research datasets worth reusing

opencc-by-4.0May 2022View details →

Salt-inducible kinase 3 protects tumor cells from cytotoxic T-cell attack by promoting TNF-induced NF-κB activation

WHAT IS ALREADY KNOWN ON THIS TOPIC <ul> <li> Tumor-intrinsic resistance to T cell (TC)-released cytokines, such as tumor necrosis factor (TNF)-α, has recently emerged as a major mechanism of tumor immune evasion. Yet, a deeper characterization of the genes that are responsible for this effect is needed. </li> </ul> WHAT THIS STUDY ADDS <ul> <li> Salt-inducible kinase 3 (SIK3) is a novel regulator of tumor-intrinsic resistance to cytotoxic TC attack. </li> <li> SIK3 confers tumor cell protection from TC-released TNF by sustaining the expression of pro-survival and anti-apoptotic genes under the control of nuclear factor kappa B (NF-κB). </li> <li> A TNF/SIK3/NF-κB-mediated gene signature correlated with significantly reduced patient survival in pancreatic cancer. </li> </ul> HOW THIS STUDY MIGHT AFFECT RESEARCH, PRACTICE AND/OR POLICY <ul> <li> Pharmacological inhibition of SIK3 might be an effective strategy to sensitize cancer cells to TC-based immunotherapies by rewiring tumor cell responses to TC-secreted TNF. </li> </ul>

opencc-by-4.0Feb 2023View details →

The explosive activity of the 2021 Tajogaite eruption (La Palma, Canary Islands, Spain)

The dataset includes the results of the image analyses of the high-speed videos of the 2021 Tajogaite eruption of Cumbre Vieja volcano, La Palma, Canary Islands, Spain. The results of the Optical Flow analyses include 123 files, one for each video, with the name indicating the date and time (UTC) of the video in the DDMMYYYY_HHMM format and the frame interval at which the analysis was performed. These data are grafically presented in the Supporting_Atlas file that accompanies the manuscript by the same title as the dataset and in part in Figure 6. The files named 'all_info' and 'all_info_types' collect all the metadata of the videos and, the latter one, also the division in the different activities we identified, plus the results of the pulse freqency and average maximum velocity analyses that appear in Figure 7 of the manuscirpt. The results of the grain size distribution, size and rise velocity of the pyroclasts, and mean rise speed and mass flux are reported for 12 selected videos with the the same name format and the suffix '_sizevel'. These data appear in Figure 8 of the manuscript.

opencc-by-4.0Feb 2023View details →

Fish eDNA detections in ports mirror fishing fleet activities and highlight the spread of non-indigenous species in the Mediterranean Sea. Environmental DNA Metabarcoding DATASET

Environmental DNA metabarcoding data set.  Environmental samples were collected in 2018 (one sample replicate of 2L surface water) and 2019 (four replicates of 1 L surface water) from several Mediterranean ports and data were generated using 12S rRNA and mitochondrial COI. For each sampling campaign (2018 and 2019) and marker two sheets are presented (with the same numeration): the first one represents all the ASV/MOTUs after the bioinformatics pipelines; the second one shows the curated assignment. The last two sheets are the OTU tables (presence-absence).

Compatibility of powdered sulphur and natural enemies for the control of Drosophila suzukii (Diptera: Drosophilidae): effects on Anthocoris nemoralis (Hemiptera: Anthocoridae) and Trichopria drosophilae (Hymenoptera: Diapriidae) activity

Data set form the research "Compatibility of powdered sulphur and natural enemies for the control of Drosophila suzukii (Diptera: Drosophilidae): effects on Anthocoris nemoralis (Hemiptera: Anthocoridae) and Trichopria drosophilae (Hymenoptera: Diapriidae) activity".

Sea-level fall driving enhanced hydrothermal and tectonic activities: evidence from a sediment core near the tectonic-controlled Tianxiu vent field, Carlsberg Ridge

The dataset file is Table S1 and Table S2 in the supporting information of the article entitled "Sea-level fall driving enhanced hydrothermal and tectonic activities: evidence from a sediment core near the tectonic-controlled Tianxiu vent field, Carlsberg Ridge".

opencc-by-nc-nd-4.0Dec 2022View details →

Combined Effects of Concentration, pH, and Polycrystalline Copper Surface on Electrocatalytic Nitrate-to-Ammonia Activity and Selectivity

Datasets for figures included in the results and discussion section in our recently accepted publication at ACS Catalysis: 10.1021/acscatal.2c05136 <ul> <li>Figure 3: Cyclic voltammograms for 0.1 M, 0.5 M and 1 M NaNO3 for (a) pH 8, (b) pH 10, and (c) pH 14 using a Cu disk electrode (Figure 1) with a scan rate of 20 mV s-1 and stir rate of 900 rpm. Average current density for the last and steady cycle is shown as a bold line with the shaded regions representing the standard deviation over at least 3 trials computed at every potential. Arrows indicate the direction of the sweep. Data in Figure 3(a) and 3(b) for pH 8 and pH 10 is a selected subset of more experimental trials. Figure S2 shows the same results with potential versus the normal hydrogen electrode (V vs NHE) to illustrate pH-dependent shift in the range of the working electrode potentials. Blanks (predicted H2 evolution) have not been subtracted from the CV data for NaNO3.</li> <li> Figure 4: Cyclic voltammograms for pH and 1 M NaNO3 and 1 M NaNO2 concentrations for a Cu disk electrode obtained with a scan rate of 20 mV s-1 and a stir rate of 900 rpm at: (a) pH 8, (b) pH 10, and (c) pH 14. The blanks associated with each trial condition are shown as dotted lines and the onset potential of the blank, i.e., hydrogen evolution reaction, is indicated by the vertical dashed line. Average current density for the last and steady cycle is shown as a bold line, with the shaded regions representing the standard deviation over all trials calculated at each potential. Blanks (predicted H2 evolution) have not been subtracted from the CV data for NaNO3 and NaNO2. </li> <li> Figure 5: Cyclic voltammograms for 0.5 M NaNO3 for a Cu disk electrode with a scan rate of 20 mV s-1 and a stir rate of 900 rpm at (a) pH 8, (b) pH 10 and (c) pH 14. For (a) and (c), two different clusters of measured datasets are observed and average current density values over multiple trials (at least 2) are shown in bold and the shaded regions represent the standard deviation. For (b), data from all trials are shown. Blanks (predicted H2 evolution) have not been subtracted from the shown data. </li> <li> Figure 6: Chronoamperometry studies for pH 8, 10, and 14 for NaNO3 concentrations of (a) 0.1 M and (b) 1 M. Average current density for all trials is shown in the bold line, with the shaded regions representing the standard deviation of 3 experimental trials. Experiments were completed with planar Cu electrodes with geometric areas in Table S3, where the working electrode was subject to the voltages in Table 1, and with a stir rate of 900 rpm. Blanks without NaNO3 have been subtracted from currents obtained with NaNO3 electrolytes at all concentrations and pH to discount H2 evolution currents at cathodic potentials. </li> <li> Figure 7: (a) Average and standard deviations in Faradaic efficiency to NH3 (green) and NO2- (purple) at pH 8, 10, and 14 for 0.1 M and 1 M NaNO3. (b) Average and standard deviations in measured NO3- consumption (blue) and estimated NO3- consumption (teal); (c) trial-to-trial breakdown of Faradaic efficiency to NO2-, NH3, predicted H2, and unaccounted products. All data for this figure are from experiments completed with planar Cu electrodes with geometric areas in Table S1, where the working electrode was subject to the voltages in Table 1, and with a stir rate of 900 rpm. Average values in 7(a) and 7(b) are obtained by averaging over all trials in Figure 6, and error bars account for both random (trial-to-trial) and systematic errors (Table 2); 7(c) does not show uncertainties in the Faradaic efficiency to NO2- and NH3. Instead, the red box indicates the portion of the unaccounted products that lies outside of the systematic error coming from the NH3 and NO2- measurements. </li> <li> Figure 8: Energy intensity for ammonia recovery,  (MJ kgN-1), and rate of ammonia production,  (gN m-2 day-1), as a function of pH 8, 10, and 14 for 0.1 M and 1 M NaNO3. Energy intensity values estimated for the standard biological nitrification-denitrification approach (green star), and for the Sharon-Anammox process (yellow star) are included for comparison. All data for this figure are from experiments completed with planar Cu electrodes (Figure 1). Average values for energy intensity and rate of ammonia production are obtained by averaging over all trials in Figure 6, and error bars account for both random (trial-to-trial) and systematic errors (Table 2). </li> <li> Figure 9: Correlation, using trial-by-trial experimental data, between the average of initial and final values of the charge-transfer resistance, , and the charge passed for NO3- reduction to NO2- and NH3, , for 0.1 M and 1 M NaNO3 at pH 8, 10, and 14. Best-fit charge-transfer resistance values are obtained from electrochemical impedance spectroscopy data measured with planar Cu electrodes at a potential of -0.1 V. Lower  leads to higher charge passed to NO3- reduction products, as shown by the fit line. Systematic errors in the determination of  (Table 2) are not explicitly shown in this dataset. </li> <li> Figure 10: Correlations using trial-by-trial experimental data between the net charge passed and the average of the initial and final effective double-layer capacitance, . (a, b) show the total charge, , and (c, d) only consider NO2- and NH3, . The  is split by concentration, with (a, c) showing 0.1 M and (b,d) showing 1 M NaNO3 for pH 8, 10, and 14. Trendlines in the data (dotted and dashed) are included at every pH. Best-fit double-layer capacitance values are calculated from electrochemical impedance spectroscopy data obtained with planar Cu electrodes at a potential of -0.1 V. The error bars for  include the contributions from systematic error (Table 2). </li> </ul>

Data for: Ongoing and visually evoked activity in the zebrafish optic tectum and adjacent brain structures

The ongoing activity of neuronal populations represents an internal brain state that influences how sensory information is processed to control behaviour. Conversely, external sensory inputs perturb network dynamics, resulting in lasting effects that persist beyond the duration of the stimulus. However, the relationship between these dynamics and circuit architecture and their impact on sensory processing, cognition and behaviour are poorly understood. By combining cellular-resolution calcium imaging with mechanistic network modelling, we aimed to infer the spatial and temporal network interactions in the zebrafish optic tectum that shape its ongoing activity and state-dependent responses to visual input. We showed that a simple recurrent network architecture, wherein tectal dynamics are dominated by fast, short range, excitation countered by long-lasting, activity-dependent suppression, was sufficient to explain multiple facets of population activity including intermittent bursting, trial-to-trial sensory response variability and spatially-selective response adaptation. Moreover, these dynamics also predicted behavioural trends such as selective habituation of visually evoked prey-catching responses. Overall, we demonstrate that a mechanistic circuit model, built upon a uniform recurrent connectivity motif, can estimate the incidental state of a dynamic neural network and account for experience-dependent effects on sensory encoding and visually guided behaviour.

Brief Communication: Monitoring active layer dynamic using a lightweight nimble Ground-Penetrating Radar system. A laboratory analog test case

GPR dataset from Leger et al., 2023 (https://tc.copernicus.org/preprints/tc-2022-214/)

Data for: Low protease activity in B cell follicles promotes retention of intact antigens after immunization

The structural integrity of vaccine antigens is critical to the generation of protective antibody responses, but the impact of protease activity on vaccination in vivo is poorly understood. We characterized protease activity in lymph nodes and found that antigens were rapidly degraded in the subcapsular sinus, paracortex, and interfollicular regions, whereas low protease activity and antigen degradation rates were detected in the vicinity of follicular dendritic cells (FDCs). Correlated with these findings, immunization regimens designed to target antigen to FDCs led to germinal centers dominantly targeting intact antigen, whereas traditional immunizations led to much weaker responses that equally targeted the intact immunogen and antigen breakdown products. Thus, spatially compartmentalized antigen proteolysis affects humoral immunity and can be exploited.

Data for: Inflammation differentially controls transport of depolarizing Nav versus hyperpolarizing Kv channels to drive rat nociceptor activity

Inflammation causes pain by shifting the balance of ionic currents in nociceptors towards depolarization, leading to hyperexcitability. The ensemble of ion channels within the plasma membrane is regulated by processes including biogenesis, transport, and degradation. Thus, alterations in ion channel trafficking may influence excitability. Sodium channel NaV1.7 and potassium channel KV7.2 promote and oppose excitability in nociceptors, respectively. We used live-cell imaging to investigate mechanisms by which inflammatory mediators modulate the abundance of these channels at axonal surfaces through transcription, vesicular loading, axonal transport, exocytosis, and endocytosis. Inflammatory mediators induced a NaV1.7-dependent increase in activity in distal axons. Further, inflammation increased the abundance of NaV1.7, but not of KV7.2, at axonal surfaces by selectively increasing channel loading into anterograde transport vesicles and insertion at the membrane, without affecting retrograde transport. These results uncover a cell-biological mechanism for inflammatory pain and suggest NaV1.7 trafficking as a potential therapeutic target.

Dataset for manuscript "Asymmetric ring-fault activity and alternating radial and circumferential eruptions at Wolf volcano, Galápagos Islands"

The datasets are the processed interferograms presented in our manuscript, which is under review at Geophysical Research Letter (one of the journals of the American Geophysical Union, AGU).

Supplementary data for: Pevonedistat, a Nedd8-activating enzyme inhibitor, in combination with ibrutinib in patients

In a clinical trial to evaluate a NEDD8-activating enzyme inhibitor in treating a mantle cell lymphoma patient, peripheral blood mononuclear cells (PBMCs) were collected from the patient at baseline and after 3 and 24 hours after drug infusion. Then, single-cell RNA-seq was conducted on the collected PBMCs. The pre-processed data was saved as a Seurat object.

Anti-cytokine storm activity of fraxin and quercetin, alone and in combination, and their possible molecular mechanisms via TLR4 and PPARγ signaling pathways in LPS-induced RAW 264.7 cell line article data

Anti-cytokine storm activity of fraxin and quercetin, alone and in combination, and their possible molecular mechanisms via TLR4 and PPARγ signaling pathways in LPS-induced RAW 264.7 cell line article data

MUSES Fraction of Absorbed Photosynthetically Active Radiation (FAPAR) Monthly Global 0.05º Geographic Grid Since 1981

The MUltiscale Satellite remotE Sensing (MUSES) product suite includes products with different spatial and temporal resolutions for parameters such as Normalized Difference Vegetation Index (NDVI), Near-Infrared Reflectance of Vegetation (NIRv), Leaf Area Index (LAI), Fraction of Absorbed Photosynthetically Active Radiation (FAPAR), Fractional Vegetation Coverage (FVC), Gross Primary Production (GPP), Net Primary Production (NPP). For more information about the MUSES products, please refer to this website (<a href="https://muses.bnu.edu.cn/">https://muses.bnu.edu.cn/</a>). This dataset is the MUSES global FAPAR product at 0.05º spatial resolution and monthly temporal resolution. The MUSES FAPAR product is provided on Geographic grid and spans from 1981 to 2019 (continuously updated). It was generated from the MUSES LAI product at 0.05º resolution and other ancillary information using the complement to unity of the transmittance of PAR through the entire canopy (Xiao et al., 2015). The MUSES FAPAR values are the instantaneous values at 10:30 am local time, close approximation of daily average PAPAR values, and they are physically consistent with the corresponding MUSES LAI values. The MUSES FAPAR product is spatially complete and temporally continuous. Dataset Characteristics: <ul> <li>Spatial Coverage: 180º W – 180º E, 90º S – 90º N;</li> <li>Temporal Coverage: 1981 – 2019;</li> <li>Spatial Resolution: 0.05º (approximately 5 km);</li> <li>Temporal Resolution: 1 month;</li> <li>Projection: Geographic;</li> <li>Data Format: HDF;</li> <li>Scale: 0.004;</li> <li>Valid Range: 0 – 250.</li> </ul> Citation (Please cite this paper whenever these data are used): <ol> <li>Xiao Zhiqiang, et al., Estimating the fraction of absorbed photosynthetically active radiation from the MODIS databased GLASS leaf area index product. Remote Sensing of Environment, 171,105-117, 2015.</li> <li>Xiao Zhiqiang, et al., Evaluation of Three Long Time Series for Global Fraction of Absorbed Photosynthetically Active Radiation (FAPAR) Products. IEEE Transactions on Geoscience and Remote Sensing, 56, 5509-5524, 2018.</li> <li>Zheng Y., Xiao Z., Li J., Yang H., Song J., Evaluation of Global Fraction of Absorbed Photosynthetically Active Radiation (FAPAR) Products at 500 m Spatial Resolution. Remote Sensing, 14, 3304, 2022.</li> </ol> If you have any questions, please contact Prof. Zhiqiang Xiao (zhqxiao@bnu.edu.cn).

Activity measures for African Pygmy mice in response to dim and bright light

Rodents are integral components of ecosystems as they provide several important ecosystem services. Despite their importance as prey, pollinators and seed distributors, African rodents are largely understudied. The effect of anthropogenic changes such as artificial light at night extend past urban areas to peri-urban and rural habitats and can have profound effects on entire ecosystems. We investigated the effect of dim light at night (dLAN) on the locomotor activity rhythms of the African pygmy mouse (Mus minutoides). Pygmy mice showed a dramatic, intensity dependent reduction in their locomotor activity when subjected to dLAN, which was accompanied by a delay in the activity onset. We also considered masking responses with a dark pulse during the day and a light pulse at night. All animals became inactive in response to a light pulse during the night, whereas approximately half of the animals showed activity during a dark pulse in the day. Our results suggest that the African pygmy mouse is highly sensitive to light and that their activity is strongly masked by light. In their natural environment, vegetation could shield pygmy mice against high light levels, however other anthropogenic disturbances can affect the behaviour of these animals and could affect their survival.

opencc-by-4.0Sep 2022View details →

Cable bacteria activity and impacts in Fe and Mn depleted carbonate sediments

raw data for paper "Cable bacteria activity and impacts in Fe and Mn depleted carbonate sediments"

Machine activity detection evaluation dataset.

Dataset for the evaluation of the one-shot time series machine state detector.

opencc-by-4.0Apr 2023View details →

MUSES Fraction of Absorbed Photosynthetically Active Radiation (FAPAR) 8-Day Global 500m SIN Grid in 2015

The MUltiscale Satellite remotE Sensing (MUSES) product suite includes products with different spatial and temporal resolutions for parameters such as Normalized Difference Vegetation Index (NDVI), Near-Infrared Reflectance of Vegetation (NIRv), Leaf Area Index (LAI), Fraction of Absorbed Photosynthetically Active Radiation (FAPAR), Fractional Vegetation Coverage (FVC), Gross Primary Production (GPP), Net Primary Production (NPP). For more information about the MUSES products, please refer to this website (<a href="https://muses.bnu.edu.cn/">https://muses.bnu.edu.cn/</a>). This dataset is the MUSES global FAPAR product at 500m spatial resolution and 8-day temporal resolution. The MUSES FAPAR product is provided on a Sinusoidal grid and spans from 2000 to 2019 (continuously updated). It was generated from the MUSES LAI product at 500m resolution and other ancillary information using the complement to unity of the transmittance of PAR through the entire canopy (Xiao et al., 2015). The MUSES FAPAR values are the instantaneous values at 10:30 am local time, close approximation of daily average PAPAR values, and they are physically consistent with the corresponding MUSES LAI values. The MUSES FAPAR product is spatially complete and temporally continuous. This dataset is the MUSES FAPAR product in 2015. Please <a href="https://zenodo.org/record/7803901#.ZC5xT3ZBypo">click here</a> to download the MUSES FAPAR product in 2014, and <a href="https://zenodo.org/record/7798475#.ZC0gR3tBw2x">click here</a> to download the MUSES FAPAR product in 2016. Dataset Characteristics: <ul> <li>Spatial Coverage: Global</li> <li>Temporal Coverage: 2015</li> <li>Spatial Resolution: 500m</li> <li>Temporal Resolution: 8 days</li> <li>Projection: Sinusoidal</li> <li>Data Format: HDF</li> <li>Scale: 0.004</li> <li>Valid Range: 0 – 250</li> </ul> Citation (Please cite this paper whenever these data are used): <ol> <li>Xiao Zhiqiang, et al., Estimating the fraction of absorbed photosynthetically active radiation from the MODIS databased GLASS leaf area index product. Remote Sensing of Environment, 171,105-117, 2015.</li> <li>Xiao Zhiqiang, et al., Evaluation of Three Long Time Series for Global Fraction of Absorbed Photosynthetically Active Radiation (FAPAR) Products. IEEE Transactions on Geoscience and Remote Sensing, 56, 5509-5524, 2018.</li> <li>Zheng Y., Xiao Z., Li J., Yang H., Song J., Evaluation of Global Fraction of Absorbed Photosynthetically Active Radiation (FAPAR) Products at 500 m Spatial Resolution. Remote Sensing, 14, 3304, 2022.</li> </ol> If you have any questions, please contact Prof. Zhiqiang Xiao (zhqxiao@bnu.edu.cn).

opencc-by-4.0Apr 2023View details →

Orthogonal light-activated DNA for patterned biocomputing within synthetic cells (Source Data)

Source data for the published version of "Orthogonal light-activated DNA for patterned biocomputing within synthetic cells": Preprint (https://chemrxiv.org/engage/chemrxiv/article-details/63b55bb6ff4651ef52429534)

Climate data, burned areas and active fires predited in Guinea-Savannah and Forest-savannah mosaic zones in Ghana

Climate data, burned areas and active fires predited in Guinea-Savannah zone and Forest-savannah mosaic zone in Ghana