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1,773 results for “Supplementary data,”
Paving the Way: Analysing Energy Transition Pathways and Green Hydrogen Exports in Developing Countries – The Case of Algeria. Supplementary Data
<p>Supplementary material for peer review</p><ul><li>Model Input</li><li>Model Results (LEAP/NEMO)</li></ul>
Supplementary data on masking effect on excess mortality in Europe
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Supplementary data for "Validation of a quantitative PCR assay for detection of sugar kelp (Saccharina latissima) in coastal marine sediments"
<p>Raw data for a paper in preparation: "Validation of a quantitative PCR assay for detection of sugar kelp (Saccharina latissima) in coastal marine sediments".</p><p>Contains:</p><ol><li>Spreadsheet of curated raw data used to calculated <i>S. latissima</i> COI gene copy number per gram of dry sediment for a biomass spiking experiment to determine how gene copy number correlates with known amounts of added kelp biomass.</li><li>Spreadsheet of curated raw data from a field study looking at <i>S. latissima</i> gene copy numbers in field samples from the Damariscotta River estuary in Maine, from three sites, one under a small kelp farm, one under a site with a single kelp line, and another in a control site with no known influence of kelp farming activity.</li></ol>
Supplementary material 4 from: Vanegas-Ríos JA, Serra Alanís WS, Azpelicueta MM, Litz T, Malabarba LR (2024) Population variation of Diapoma pampeana (Characiformes, Characidae, Stevardiinae) from an isolated coastal drainage in Uruguay, with new records: comparing morphological and molecular data. Zoosystematics and Evolution 100(1): 69-85. https://doi.org/10.3897/zse.100.112778
Cluster analysis (Ward's method) of size-corrected morphometric data of analyzed specimens of Diapoma pampeana
Supplementary Figure 6 stimulus induced brain activity data
<p>This data set shows brain activity in response to an airpuff stimulus applied to the right whiskers. A 2 s, 3 Hz airpuff stimulus is applied to the right whiskers 20 times. This data was collected using a CMOS camera that costs approximately $750. Wide field images of the mouse brain at four different wavelengths are provided as .tif files. Processed data are included in a .h5 file that contains relative changes in neuronal calcium activity, extracellular acetylcholine, oxyhemoglobin, and deoxyhemoglobin. A trigger file recorded by the data acquisition system shows the timing of measurements and stimuli. This data was used to produce the stimulus response parts of supplementary figure 6 in the following article.</p> <p>Doran, P., Fomin-Thunemann, N., Tang, R., Zimmerman, B., Kilic, K., Kura, S., Fisher, H., Chabbot, G., Herbert, J., Jiang, J., Sakadzic, S., Boas, D., Devor, A., Chen, I., & Thunemann, M. (2023). Widefield in vivo imaging system with two fluorescence and two reflectance channels, a single sCMOS detector, and shielded illumination. bioRxiv. <a href="https://doi.org/https:/doi.org/10.1101/2023.11.07.566086do">https://doi.org/https://doi.org/10.1101/2023.11.07.566086do</a></p>
Supplementary Figure 6 spontaneous brain activity data
<p>This data set contains a single ten-minute run of spontaneous brain activity. This data was collected using a CMOS camera that costs approximately $750. Wide field images of the mouse brain at four different wavelengths are provided as .tif files. Processed data are included in a .h5 file that contains relative changes in neuronal calcium activity, extracellular acetylcholine, oxyhemoglobin, and deoxyhemoglobin. A video of the mouse face and a recording from an accelerometer placed under the mouse are also included. A trigger file recorded by the data acquisition system shows the timing of measurements. This data was used to produce the spontaneous activity part of supplementary figure 6 in the following article.</p> <p>Doran, P., Fomin-Thunemann, N., Tang, R., Zimmerman, B., Kilic, K., Kura, S., Fisher, H., Chabbot, G., Herbert, J., Jiang, J., Sakadzic, S., Boas, D., Devor, A., Chen, I., & Thunemann, M. (2023). Widefield in vivo imaging system with two fluorescence and two reflectance channels, a single sCMOS detector, and shielded illumination. bioRxiv. <a href="https://doi.org/https:/doi.org/10.1101/2023.11.07.566086do">https://doi.org/https://doi.org/10.1101/2023.11.07.566086do</a></p>
Supplementary data: Predicting grid frequency short-term dynamics with Gaussian processes and sequence modeling
<p>This repository contains data and result files for the paper "Predicting grid frequency short-term dynamics with Gaussian processes and sequence modelling". The code to generate the models and reproduce the results of the comparative study in the above paper is available on this <a href="https://github.com/bolin-liu/sequence-model-and-gaussian-process-for-frequency-prediction">github repository</a></p> <p><strong>Supplementary data</strong>:</p> <p>- The <strong>trained_models</strong> folder contains the results of the trained models.</p> <p>- The folder <strong>data</strong> contains data needed for for the comparative study for the year 2019 in the paper above. This data set (except knn_point_predictions.npy) is generated with the code in this <a href="https://github.com/johkruse/PIML-for-grid-frequency-modelling">github repository</a>. knn_point_predictions.npy is generated with the code in this <a href="https://github.com/bolin-liu/sequence-model-and-gaussian-process-for-frequency-prediction">github repository </a>.</p>
Supplementary material 1 from: Heller K-G, Hemp C (2024) Egg shape and size in Phaneropterinae and other Tettigonioidea (Orthoptera, Ensifera): A global review with new data. Journal of Orthoptera Research 33(1): 103-112. https://doi.org/10.3897/jor.33.116173
Supplementary material 1 from: Heller K-G, Hemp C (2024) Egg shape and size in Phaneropterinae and other Tettigonioidea (Orthoptera, Ensifera): A global review with new data. Journal of Orthoptera Research 33(1): 103-112. https://doi.org/10.3897/jor.33.116173
Supplementary material 2 from: Heller K-G, Hemp C (2024) Egg shape and size in Phaneropterinae and other Tettigonioidea (Orthoptera, Ensifera): A global review with new data. Journal of Orthoptera Research 33(1): 103-112. https://doi.org/10.3897/jor.33.116173
Supplementary material 2 from: Heller K-G, Hemp C (2024) Egg shape and size in Phaneropterinae and other Tettigonioidea (Orthoptera, Ensifera): A global review with new data. Journal of Orthoptera Research 33(1): 103-112. https://doi.org/10.3897/jor.33.116173
Supplementary Data for Manuscript 'Observing impacts on luminescence depth profile evolutions from surface altered quartzite using OSL laser scanning and controlled light exposed rock sampling techniques'
<p>This file contains the supplementary data for the manuscript 'Observing impacts on luminescence depth profile evolutions from surface altered quartzite using OSL laser scanning and controlled light exposed rock sampling techniques'</p>
Supplementary Data, Figures and Code - Europium in plagioclase-hosted melt inclusions reveals mantle melting modulates oxygen fugacity
<p>Electronic supplementary data, figures and code to the article Europium in plagioclase reveals mantle melting modulates oxygen fugacity. Data tables include major and trace element analyses, replicate analyses of secondary standards, which establish trace element data quality, a summary of new plagioclase-melt major and trace element data and data compiled from the literature, and recovered temperatures and oxygen fugacities, and spatial variations of plagioclase compositions around melt inclusions in phenocrysts extracted from sample D23-2 from the Juan de Fuca ridge, which were thermally homogenized over different periods of time (30 minutes, four hours, one day, and four days). The compressed archive contains Matlab scripts which may be used to recover temperatures from trivalent REE distributions in coexisting plagioclase crystals and melt inclusions or glasses.</p>
Supplementary Data for Doctoral Thesis
<p>This repository contains the Supplementary Data for the doctoral thesis chapters 2, 3, 4 and 7.</p> <p>Chapter 2 - Supplementary Tables S1 - S4</p> <p>Wolfram-Schauerte M*, Pozhydaieva N*, Viering M, Glatter T, Höfer K. Integrated Omics Reveal Time-Resolved Insights into T4 Phage Infection of E. coli on Proteome and Transcriptome Levels. Viruses. 2022 Nov 12;14(11):2502. doi: 10.3390/v14112502. PMID: 36423111. </p> <p>Chapter 3 - Supplementary Tables S6 - S10</p> <p>Wolfram-Schauerte M, Moskalchuk A, Pozhydaieva N, Ramírez Rojas AA, Schindler D, Kaiser S, Paczia N, Höfer K. T4 phage RNA is NAD-capped and alters the NAD-cap epitranscriptome of Escherichia coli during infection through a phage-encoded decapping enzyme. bioRxiv. 2024. doi: 10.1101/2024.04.04.588121.</p> <p>Chapter 4 - Supplementary Figure 1 and Supplementary Tables 1 - 6</p> <p>Wolfram-Schauerte M*, Pozhydaieva N, Grawenhoff J, Welp LM, Silbern I, Wulf A, Billau FA, Glatter T, Urlaub H, Jäschke A, Höfer K*. A viral ADP-ribosyltransferase attaches RNA chains to host proteins. Nature. 2023 Aug;620(7976):1054-1062. doi: 10.1038/s41586-023-06429-2. Epub 2023 Aug 16. PMID: 37587340.</p> <p>Chapter 7 - Supplementary Table 1</p> <p>Pozhydaieva N*, Wolfram-Schauerte M*, Keuthen H, Höfer K. The enigmatic epitranscriptome of bacteriophages: putative RNA modifications in viral infections. Curr Opin Microbiol. 2024 Feb;77:102417. doi: 10.1016/j.mib.2023.102417. Epub 2024 Jan 13. PMID: 38217927.</p>
METER paper supplementary data
Open the record for dataset details and reuse information.
Supplementary data and codes for ammonoids morphological complexity and evolutionary rates
<p>The "code" folder contains the code for calculating evolutionary rates and analysing the data, and the input and output data. We used the Bayesian framework implemented within the program PyRate, the per capita boundary-crosser rate, per-taxon rate, and Van Valen metric to calculate extinction and origination rates for early Pliensbachian species and Cretaceous genera datasets. The Pyrate method is implemented in python, all other methods use R code.</p> <p>The "obj" folder includes 292 three-dimensional models of 146 specimens.</p> <p>The "Expanded Data" file containing supplementary tables, original data, processed data and specimen tables.</p>
supplementary_data_plants_2024
<p>Figure S1: Predicted structure of TaPLD9. The structure was predicted by Alphafold [36] and represented by the PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC. Green, PX domain; brown, PH domain; orange, first HKD domain; yellow, second HKD domain; red, PIP2 binding region 1 (PBR1, [47]) domain. <br>Figure S2. Differences in the C2 domain of α-type C2-PLDs versus non-α-type C2-PLDs. (A) Motif consensus of the C2 domains. Sequences of the C2 domains sequence were retrieved and multiple sequence alignment was performed using the Clustal Omega webserver [45]. The consensus logo motif was drawn by WebLogo [53] with the Clustal Omega Colorcode for the residues. The * indicates residues shown the predicted models. (B) Structure of the loop to coordinate calcium in TaPLD8, a non-α-type C2-PLD. (C) Structure of the pocket considered to coordinate calcium in TaPLD1, an α-type C2-PLD. The structures were modelled by Alphafold [36] and represented by the PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC. <br>Figure S3. Structural features of the putative calcium binding site in the catalytic site of PLDs. (A) Alignment of the putative calcium binding residues in different plant PLDs. For PX-PH PLDs, the Asp (D) aligned with those in C2-PLDs in the primary sequences are not the ones that are aligned in the 3D structures; the Asp (D) aligned in the 3D structures are the Asp (D) 9 residues more C-terminal. The numbers refer to that in AtPLDα1. (B). Active site of TaPLD1(α-C2-PLD). Colors of the lateral chains: HKD (green) / Putative Ca2+ binding residues (magenta). The diC8-PA (cyan) was positioned by the structural alignment of TaPLD1 with PLDα1 the crystallized with diC8-PA. (C) Active site of TaPLD9 (PX-PH-PLD). Colours of the lateral chains: HKD (purple) / Putative Ca2+ binding residues (magenta). The diC8-PA (cyan) was positioned by the structural alignment of TaPLD9 with PLDα1 the crystallized with diC8-PA. <br>Figure S4. Structural features of the C2 domain of crop PI-PLCs. (A) Motif conservation of the catalytic residues. PI-PLC sequences of table S3 were aligned using the Clustal Omega webserver [45]. The consensus logo motif of the C2 domain was drawn by WebLogo [53] with the Clustal Omega Colorcode for the residues. The * indicate the residues displayed in B. (B) Structure of the C2 domain of TaPI-PLC2_1A. C. Close-up of the loop coordinating calcium. The structures were predicted by Alphafold [36] and represented by the PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC. Table S1: PLD proteins in a selection of model and crop plants; Table S2: DGK proteins in a selection of model and crop plants ; Table S3: PI-LPC proteins in a selection of model and crop plants Table S4: RESPIRATORY BURST OXIDASE HOMOLOGUEs (RBOHs) proteins in a selection of model and crop plants. <br>Table S1. PLD proteins in a selection of model and crop plants. Protein sequences were retrieved from UniProtKB (The Uniprot Consortium, 2023). We selected only sequences that were associated with a gene or locus. Protein names are based on the name given in UniProtKB (Arabidopsis thaliana) or names given in [37-40] for Zea mays, Oryza sativa, for Brassica napus and Glycine max PLDs. For Zea mays, Triticum aestivum, Sorghum bicolor and Solanum tuberosum protein names were given by us. Sequences considered as Obsolete in UniProtKB were not considered. This leads to less sequences than considered in other publications (for instance 18 PLDs for Brassica napus versus 32 in [39]. This is a table. Tables should be placed in the main text near to the first time they are cited.<br>Table S2. DGK proteins in a selection of model and crop plants. Protein sequences were retrieved from UniProtKB (The Uniprot Consortium, 2023). We selected only sequences that were associated with an ORF or a locus. Protein names are based on the name given in UniProtKB (Arabidopsis thaliana), or names given in [64,65] for Brassica napus. and Glycine max. For Oryza sativa, Zea mays, Triticum aestivum, Sorghum bicolor and Solanum tuberosum protein names were given by us. Sequences considered as Obsolete in UniProtKB were not considered. This leads to less sequences than considered in other publications (for instance 15 DGKs for Brassica napus versus 32 in [64]).<br>Table S3. PI-LPC proteins in a selection of model and crop plants. Protein sequences were retrieved from UniProtKB (The Uniprot Consortium, 2023). We selected only sequences that were associated with an ORF or a locus. Protein names are based on the name given in UniProtKB (Arabidopsis thaliana), or names given in [75] for Brassica napus. For Glycine max, Oryza sativa, Zea mays, Triticum aestivum, Sorghum bicolor and Solanum tuberosum protein names were given by us. Sequences considered as Obsolete in UniProtKB were not considered. This leads to less sequences than considered in other publications. * indicates that in the alignment of PLC-X and PLC-Y regions some gaps are present that does not allow to verify the conservation of catalytic residues for these sequences.<br>Table S4. RESPIRATORY BURST OXIDASE HOMOLOGUEs (RBOHs) proteins in a selection of model and crop plants. Protein sequences were retrieved from UniProtKB (The Uniprot Consortium, 2023). We selected only sequences that were associated with an ORF or a locus. Protein names are based on the name given in UniProtKB. Sequences considered as Obsolete in UniProtKB were not considered. This leads to less sequences than considered in other publications.</p> <p> </p> <p> </p>
Supplementary Material - A Comparison of Clustering Approaches for Metaheuristic Behaviour Data
<p>This repo contains all results data as images and tables that was gathered and used for evaluating the experiments in the paper "A Comparison of Clustering Approaches for Metaheuristic Behaviour Data". The folder structure is representative of the respective dataset used to generate the results.</p>
Supplementary Data for the paper "Late Cretaceous uplift of Grand Canyon: evidence from fluid inclusions"
<p><span><span>This file contains supplemary information for the paper "Late Cretacous uplift of Grand Canyon: evidence from fluid inclusions" published in the American Journal of Science. </span></span></p> <p><span>Item S1</span><span>: Distance between compared samples and additional information about thermal histories chosen for comparison. </span></p> <p><span>Item S2</span><span>: Petrography of fluid inclusions </span></p> <p><span><span>Table S1. Sample minerology, texture, and field description</span></span></p> <p> </p> <p> </p>
FuncProtDecode - supplementary data files
<p>This upload corresponds to large supplementary data files. The code that generated the data is at https://github.com/CBBIO/func-lm/</p> <p>Contact icases@gmail.com for code issues.</p>
Supplementary data for: Identification of genes, cell types, and phenotypes under selective pressure across primate evolution
Open the record for dataset details and reuse information.
Supplementary Data Sets for Machine Learning Tracks the Role of Slab-Derived Fluids in Large Igneous Province/CUGBZL
<p>Supplementary Dataset S1: All data collcted from both the GEOROC database and recent literature published in Chinese and English journals and books.<span></span></p> <p>Supplementary Dataset S2: Data after cleaning.</p> <p>Supplementary Dataset S3: Prediction results.</p>
ScienceDex guides
Understand access before you commit
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.