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Stable isotopes and radiocarbon dating results on Late Pleistocene red deer and horse from the Serinyà caves (Girona, Catalonia, Spain)
<p>Table 1: Minimum (Min), maximum (Max), mean and standard-deviations (SD) of <em>δ</em><sup>13</sup>C<sub>carb</sub> and <em>δ</em><sup>18</sup>O<sub>carb</sub> values per horse and red deer tooth. Numbers in bold indicate isotopic values corresponding to peaks (summer) or troughs (winter) detected from clear sinusoidal patterns in <em>δ</em><sup>18</sup>O<sub>carb</sub> values. Numbers in bold correspond to minimum and maximum values in teeth revealing a sinusoidal pattern. LM3 and UM3 stand for lower third molar and upper third molar, respectively. LM2 stands for lower second molar. R is for the right side, L is for the left side. N: number of analyses.</p> <p>Table 2: Minimum, maximum, mean and standard-deviations of <em>δ</em><sup>13</sup>C<sub>coll</sub>, <em>δ</em><sup>15</sup>N<sub>coll</sub> for horse and red deer per technocomplex phases. na stands for not applicable. N: number of samples.</p> <p>Table A.1: Detailed isotopic results (<em>δ</em><sup>13</sup>C<sub>carb</sub> and <em>δ</em><sup>18</sup>O<sub>carb</sub>) for horse teeth with incremental sampling. Underlined numbers correspond to outlier data. Brackets are added around isotopic values that are not considered for further interpretation. R stands for the right side, L is for the left side.</p> <p>Table A.2: Detailed isotopic results (<em>δ</em><sup>13</sup>C<sub>carb</sub> and <em>δ</em><sup>18</sup>O<sub>carb</sub>) for red deer teeth with incremental sampling. Underlined numbers correspond to outlier data. Brackets are added around isotopic values that are not considered reliable for further interpretation. R is for the right side, L is for the left side.</p> <p>Table A.3: Results of elemental analysis on bone or dentine (N<sub>bone or dentine</sub>) and collagen (C<sub>coll</sub>, N<sub>coll</sub>, C:N<sub>coll</sub>) and of isotopic analysis on collagen (<em>δ</em><sup>13</sup>C<sub>coll</sub>, <em>δ</em><sup>15</sup>N<sub>coll</sub>) from horse (<em>Equus ferus</em>), red deer (<em>Cervus elaphus</em>) at the Serinyà caves. Underlined numbers correspond to outlier data. Brackets are added around isotopic values that are not considered reliable for further interpretation. R is for the right side, L is for the left side. * species determination confirmed by ZooMS analysis. Tüb. stands for Tübingen and NU for National University.</p> <p>Table A.4: Results of elemental analysis on bone or dentine (N<sub>bone or dentine</sub>) and collagen (C<sub>coll</sub>, N<sub>coll</sub>, C:N<sub>coll</sub>) and of isotopic analysis on collagen (<em>δ</em><sup>13</sup>C<sub>coll</sub>, <em>δ</em><sup>15</sup>N<sub>coll</sub>) from large bovids (<em>Bos/Bison</em>) and muskox (<em>Ovibos moschatus</em>) at the Serinyà caves. Underlined numbers correspond to outlier data. Brackets are added around isotopic values that are not considered reliable for further interpretation. R is for the right side, L is for the left side. * species determination confirmed by ZooMS analysis. Tüb. stands for Tübingen.</p> <p>Table A.5: Results of elemental analysis on collagen (C<sub>coll</sub>, N<sub>coll</sub>, C:N<sub>coll</sub>) and of isotopic analysis on collagen (<em>δ</em><sup>13</sup>C<sub>coll</sub>,<em>δ</em><sup>15</sup>N<sub>coll</sub>) and radiocarbon dates (<sup>14</sup>C) from horse (<em>Equus ferus</em>), red deer (<em>Cervus elaphus</em>), reindeer (<em>Rangifer tarandus</em>), muskox (<em>Ovibos moschatus</em>), rabbit (<em>Oryctolagus cuniculus</em>) and human (<em>Homo sapiens</em>) at the Serinyà caves. R is for the right side, L is for the left side. * species determination confirmed by ZooMS analysis. na stands for not applicable, nd for not determined and ind for indetermined.</p>
STATA code to reproduce results in the manuscript "Low birth weight risk during COVID-19: Evidence from a nationwide study in India"
<p>This STATA code will reproduce results in the manuscript "Low birth weight risk during COVID-19: Evidence from a nationwide study in India" The users will have to register and access the data from www.dhsprogram.com to run the analysis code. </p>
Bolivia_Moment_Tensor_Figure_Results
<p>This is the supplementary data for the research "<span><span><strong>New contributions to <span><span>enhance the knowledge of </span></span>stresses in the Central Andes, through moment tensor inversion for shallow seismic earthquakes in Bolivia.</strong></span></span>"</p> <p> </p>
segmentation results and ground truth for ComSeg benchmark
<p>This folder displays segmentation results and ground truth cell masks used in the benchmark of the paper: A point cloud segmentation framework for image-based spatial transcriptomics, Defard et al. </p> <p><br>The mouse iluem dataset raw images can be downloaded from the study : Petukhov, V., Xu, R.J., Soldatov, R.A. et al. Cell segmentation in imaging-based spatial transcriptomics. Nat Biotechnol 40, 345–354 (2022). https://doi.org/10.1038/s41587-021-01044-w</p> <p> </p> <p>the Vizgen MERFISH breast cancer dataset was sampled from MERSCOPE FFPE Human Immuno-oncology, https://vizgen.com/data-release-program/ : Breast cancer</p> <p> </p> <p> </p>
PSCP Data and Results for PIPPack
<p>Evaluation datasets and results for the protein side chain packing (PSCP) task from PIPPack: <a href="https://www.biorxiv.org/content/10.1101/2023.08.03.551328v2">https://www.biorxiv.org/content/10.1101/2023.08.03.551328v2</a>.</p> <p>This repository contains the CASP13, CASP14, CASP15, CASP15+context, and Top2018 test sets created as described in the PIPPack paper. The native, ground-truth structures are found in the "native" subdirectory; other subdirectories contain predictions made by PSCP methods. Subdirectories also contain some statistics and results in the form of .txt files. </p> <p>The CASP15+context results make use of an additional Python script (PIPPack/data/extract_targets_from_full_targets.py) found in the PIPPack GitHub repository (<a href="https://github.com/Kuhlman-Lab/PIPPack">https://github.com/Kuhlman-Lab/PIPPack</a>).</p> <p>Citing this work: If you choose to use any of these datasets or results for your own research, please cite this repository and the PIPPack paper: <a href="https://www.biorxiv.org/content/10.1101/2023.08.03.551328v2">https://www.biorxiv.org/content/10.1101/2023.08.03.551328v2</a>.</p>
Adaptive Behavior of Farmers Under Consecutive Droughts Results In More Vulnerable Farmers: A Large-Scale Agent-Based Modeling Analysis in the Bhima Basin, India
Open the record for dataset details and reuse information.
The shielding properties of textile FSS - simulations and results
<p>The data collection includes data from measurements and simulations of the S21 parameter, which determines the shielding properties of textile and foil based Frequency Selective Surface - FSS. The results of the work related to the attached data were published in Rac-Rumijowska, O., Pokryszka, P., Rybicki, T., Suchorska-Woźniak, P., Woźniak, M., Kaczkowska, K., & Karbownik, I. (2024). Influence of Flexible and Textile Substrates on Frequency-Selective Surfaces (FSS). Sensors, 24(5), 1704.</p>
Results of elemental analyses of brain and liver human tissue samples performed by inductively coupled plasma mass spectrometry
<p>Human tissue samples of brain and liver were obtained after min. 24 h postmortem from the Department of Forensic Medicine, University of Lublin. Tissue samples were collected from typical anatomical locations intended for histopathological examination: A—polus frontalis (frontal pole), B—gyrus precentralis (precentral gyrus), C—gyrus postcentralis (postcentral gyrus), D—cortex cingularis (gyrus cinguli cingulate gyrus), E—hippocampus (hippocampus), F—caput nuclei caudati (head of caudate nucleus), G—fasciculus longitudinalis superior cerebri (superior longitudinal fasciculus of brain, SLF), H—fasciculus longitudinalis inferior cerebri (inferior longitudinal fasciculus of brain, ILF), I—thalamus dorsalis (dorsal thalamus), J—nucleus accumbens septi (nucleus accumbens septi, NAc), K—insula (insula), L—hepar (liver). Samples were taken with the consent of the prosecutor and the Local Bioethics Committee (Medical University of Lublin, Poland, KE-0254/152/2021, approval date 24 June 2021). The study was conducted in accordance with the World Medical Association Code of Ethics, Declaration of Helsinki, for experiments involving human subjects. The samples were mineralized to remove the organic matrix using microwave minerali-zation with nitric acid (69% suprapur HNO3, Baker, Radnor, PA, USA) in the microwave mineralization system Multiwave 5000 (Anton Paar, Graz, Austria). After mineralization step, HCl (Merck, Darmstadt, Germany) was added and diluted by ultrapure water. The elemental analysis was performed using the inductively coupled plasma mass spectrometer Agilent 8900 ICP-MS Triple Quad (Agilent, Santa Clara, CA, USA). </p>
Рис. 1. Αиния маршрута; цифры — места, гΑе быΛи отмечены особи бурого меΑвеΑя во время учетов с вертоΛета 22.05.2018. РезуΛьтаты учетов бурого меΑвеΑя на о. ЗавьяΛова с вертоΛета «Еврокоптер 120». 11:55 выΛет с нефтепирса г. МагаΑана, 12:14 поΑΛет к острову, 12:20 (1) отмечен первый моΛоΑой меΑвеΑь на террасе, 12:52 (2) отмечен оΑин взросΛый меΑвеΑь, 13:06 (3, 4) отмечены Αва взросΛых меΑвеΑя, 13:08 (5, 6, 7) отмечены три взросΛых меΑвеΑя, 13:18 (8) отмечен оΑин взросΛый меΑвеΑь. 13:56 переΛет в гороΑ МагаΑан Fig. 1. Route line; the figures indicate areas where brown bears were seen during the helicopter surveys on 22 May 2018. The results of the brown bear surveys on Zavyalov island from the Eurocopter 120 helicopter. 11:55 departure from the oil pier of Magadan, 12:14 hovering near the island, 12:20 (1) the first young bear identified on the terrace, 12:52 (2) one adult bear identified, 13:06 (3, 4) two adult bears identified, 13:08 (5, 6, 7) three adult bears identified, 13:18 (8) one adult bear identified, 13:56 Flight to Magadan in Brown bear (Ursus arctos) of Zavyalov Island (Sea of Okhotsk): Abundance and possible migration routes
Рис. 1. Αиния маршрута; цифры — места, гΑе быΛи отмечены особи бурого меΑвеΑя во время учетов с вертоΛета 22.05.2018. РезуΛьтаты учетов бурого меΑвеΑя на о. ЗавьяΛова с вертоΛета «Еврокоптер 120». 11:55 выΛет с нефтепирса г. МагаΑана, 12:14 поΑΛет к острову, 12:20 (1) отмечен первый моΛоΑой меΑвеΑь на террасе, 12:52 (2) отмечен оΑин взросΛый меΑвеΑь, 13:06 (3, 4) отмечены Αва взросΛых меΑвеΑя, 13:08 (5, 6, 7) отмечены три взросΛых меΑвеΑя, 13:18 (8) отмечен оΑин взросΛый меΑвеΑь. 13:56 переΛет в гороΑ МагаΑан Fig. 1. Route line; the figures indicate areas where brown bears were seen during the helicopter surveys on 22 May 2018. The results of the brown bear surveys on Zavyalov island from the Eurocopter 120 helicopter. 11:55 departure from the oil pier of Magadan, 12:14 hovering near the island, 12:20 (1) the first young bear identified on the terrace, 12:52 (2) one adult bear identified, 13:06 (3, 4) two adult bears identified, 13:08 (5, 6, 7) three adult bears identified, 13:18 (8) one adult bear identified, 13:56 Flight to Magadan
Рис. 1. Птицы, погибшие от стоΛкновений с оконными стекΛами в г. Уссурийске осенью 2019 г. Фото Δ. А. БеΛяева Fig. 1. Birds that died as a result of window collisions in Ussuriysk in the autumn of 2019. Photo by D. A. Belyaev in Deaths Resulting From Bird Window Collisions In Ussuriysk (Primorsky Krai)
Рис. 1. Птицы, погибшие от стоΛкновений с оконными стекΛами в г. Уссурийске осенью 2019 г. Фото Δ. А. БеΛяева Fig. 1. Birds that died as a result of window collisions in Ussuriysk in the autumn of 2019. Photo by D. A. Belyaev
Intermediate results for: Use the 4S (Signal-Safe Speckle Subtraction): Explainable Machine Learning reveals the Giant Exoplanet AF Lep b in High-Contrast Imaging Data from 2011
<p>This collection contains all intermediate results needed to reproduce the results in the paper:</p> <p>Use the 4S (Signal-Safe Speckle Subtraction): Explainable Machine Learning reveals the Giant Exoplanet AF Lep b in High-Contrast Imaging Data from 2011</p> <p>You can use these intermediate results to create all plots in our paper without the need to run all experiments on a large cluster.</p> <p>More details can be found in the online documentation of our python package:<br><a href="https://fours.readthedocs.io/en/latest/">https://fours.readthedocs.io/en/latest/</a></p>
FIG. 6 in Concentration data of (+)-usnic acid enantiomer from some European and African samples of Flavoparmelia caperata (L.) Hale (Parmeliaceae, lichenised Ascomycota) - results of a preliminary study
FIG. 6. — Usnic acid concentrations (mg g–1 dry weight) in the lichen Flavoparmelia caperata (L.) Hale measured in Europe and Africa by HPLC-PDA. The lines represent the minimum and maximum values, the box represents the 25 and 75% of the data, the thick line represents the median. Continents are not significantly different at 95% confidence.
FIG. 4 in Concentration data of (+)-usnic acid enantiomer from some European and African samples of Flavoparmelia caperata (L.) Hale (Parmeliaceae, lichenised Ascomycota) - results of a preliminary study
FIG. 4. — UPLC-PDA-MS analysis of acetone extract of Flavoparmelia caperata (L.) Hale: A, chromatogram showing peaks detected at 280 nm, where (+)-usnic acid eluting at 7.59 minutes; B, extraction ion chromatogram of the ion at m/z 343.10 detection in negative ion mode, corresponding to deprotonated usnic acid molecular ion; C, total ion chromatogram; D, UV spectrum of usnic acid; E, mass spectrum of usnic acid.
FIG. 3 in Concentration data of (+)-usnic acid enantiomer from some European and African samples of Flavoparmelia caperata (L.) Hale (Parmeliaceae, lichenised Ascomycota) - results of a preliminary study
FIG. 3. — Usnic acid, protocetraric acid (p) and caperatic acid (c) sampled from specimens of Flavoparmelia caperata (L.) Hale collected in Europe (HU, Hungary; SRB, Serbia) and Africa (Afr) are presented on developed HPTLC plates (in solvent system C according to Arup et al. 1993) with control: A, under UV 254 nm; B, sprayed with water; C, in daylight after spraying with 10% sulphuric acid and charring.
FIG. 2 in Concentration data of (+)-usnic acid enantiomer from some European and African samples of Flavoparmelia caperata (L.) Hale (Parmeliaceae, lichenised Ascomycota) - results of a preliminary study
FIG. 2. — Collecting sites of the investigated samples of Flavoparmelia caperata (L.) Hale (Table 1): A, in Hungary and Serbia; B, in Kenya and Tanzania.
FIG. 5 in Concentration data of (+)-usnic acid enantiomer from some European and African samples of Flavoparmelia caperata (L.) Hale (Parmeliaceae, lichenised Ascomycota) - results of a preliminary study
FIG. 5. — Usnic acid enantiomers in the lichen Flavoparmelia caperata (L.) Hale: A, the chiral HPLC chromatogram showing separation of usnic acid enantiomer standards: (+)-usnic acid eluting at 8.44 min and (-)-usnic acid eluting at 9.59 min; B, the chromatogram showing only (+)-usnic acid present in F. caperata.
FIG. 1 in Concentration data of (+)-usnic acid enantiomer from some European and African samples of Flavoparmelia caperata (L.) Hale (Parmeliaceae, lichenised Ascomycota) - results of a preliminary study
FIG. 1. — Thalli of Flavoparmelia caperata (L.) Hale, in their habitats in Hungary: A, on bark of Quercus sp. (sample 4); B, on andesite rock (near sample 11). Herbarium specimens: C, from Kenya (VBI 6044, sample 19); D, E, from Tanzania (VBI 6169, sample 20; VBI 6251, sample 23). Photographs taken by E. Farkas. Scale bars: 1 cm.
INSPIRED: Inelastic Neutron Scattering Prediction for Instantaneous Results and Experimental Design
<p>INSPIRED is a graphic user interface (GUI) that performs rapid prediction and calculation of phonons and inelastic neutron scattering (INS) spectra. It consists of three modules. The "Predictor" module uses a symmetry-aware neural network (coupled with an autoencoder) [1-3] to perform direct prediction of total/partial phonon density of states and powder 1D/2D INS spectra from a given structure. The "DFT database" module uses pre-calculated force constants from density functional theory (DFT) [4] to perform INS simulations for single crystals and powders (for the crystals available in the database). The "MLFF" module uses pre-trained universal force fields [8-12] to perform structural optimization, phonon calculation, and INS simulations for single crystals and powders for any given crystal. The predicted/calculated results are saved in CSV files and can be visualized with the GUI. INSPIRED is developed to be a convenient tool for INS experimental planning, steering, and quick data analysis.</p> <p>This repository contains two files as an update to the previous version:</p> <p>1. A tarball file (dftdb.tar.gz) containing the DFT database (currently with 12734 crystals)</p> <p>2. A VirtualBox appliance file (inspired_vm.ova) to run INSPIRED as a virtual machine.</p> <p>The ML model file (model.tar.gz) remains the same and can be obtained from the previous version.</p> <p>Instructions on how to use these files, as well as the rest part of the software, can be found on the <a href="https://github.com/cyqjh/inspired">GitHub page</a>. </p>
Рис. 2. ЗΑание ТЦ «Москва», гΑе быΛо найΑено наибоΛьшее чисΛо погибших от стоΛкновения птиц. Фото Δ. А. БеΛяева Fig. 2. The building of the "Moskva" shopping center, where the highest number of bird window collision deaths was registered. Photo by D. A. Belyaev in Deaths Resulting From Bird Window Collisions In Ussuriysk (Primorsky Krai)
Рис. 2. ЗΑание ТЦ «Москва», гΑе быΛо найΑено наибоΛьшее чисΛо погибших от стоΛкновения птиц. Фото Δ. А. БеΛяева Fig. 2. The building of the "Moskva" shopping center, where the highest number of bird window collision deaths was registered. Photo by D. A. Belyaev
Source Code and Simulation Results: Chiral and directional optical emission from a dipole source coupled to a helical plasmonic antenna
<h3>Summary</h3> <p>This publication supplements the article "Chiral and directional optical emission from a dipole source coupled to a helical plasmonic antenna" with tabulated data and Matlab code that allows the reproduction of the results. Within the article, the chiral behavior of single and double plasmonic nano antennas made from silver is numerically investigated with a focus on the coupling of a linear polarized dipole as an excitation source to the helix.</p> <h3>Simulation Setup - FEM Simulations</h3> <p>The script "run_wavlengthscan.m" allows to reproduce all simulations of the article. It can be chosen between the single and double helices, by specifying the keys parameter "keys.doppelhelix" where 0 gives a single and 1 a double helix. The number of turns can be specified by choosing "keys.case". The dipol is located within a 20nm thick hBN substrate layer, on glass (BK7). Results of the Purcell enhancement can be plotted using the scripts "display_results_single_helix.m" and "display_results_doublehelix.m" in the folder "results". The far-field plots can be reproduced using the scripts "display_farfiel_polarization_single_helix.m" and "display_farfiel_polarization_double_helix.m" of the folder "FunctionsAndScripts".</p> <p>The template for the mesh is contained in the folder "generate_grid_file", where the parameters of the helix (for example: radius, tube radius, and pitch height) can be modified.</p> <p>Within the folder "project3D" all required .jcm files are stored. Copy the "grid.jcm" file with the geometry of interest to this folder to perform simulations.</p> <p>All required keys parameters for the JCM template files (.jcmt, jcmpt) are set within the functions "set_numerical_parameter.m" and "set_physical_parameters.m", contained in the folder "FunctionsAndScripts". Therein, the function "set_sources.m" specifies the parameters for the dipole excitation, such as the position, and the strength (equivalent to the polarization).</p> <h3>Semi-Analytical Model</h3> <p>The Jupyter notebook "Semi_Analytical_Plasmonic_Helix.ipynb" contains the commented Python script for the semi-analytical design tool used to obtain far-field radiation patterns of the single helix. This semi-analytical design tool is based on an analytical model developed in [4]. The script can be divided into three parts. First, the single helix is defined, and a linear wavelength scaling law [5] is used to determine the illuminating wavelengths at which Fabry-Pérot resonances occur. Second, the overlap integral between the mode current on the helix and the incident electric field is evaluated for a given direction of incident light. Thirdly, the direction of incidence is varied to obtain the far-field radiation patterns. The script allows for the radiation patterns to be exported as a .csv file. Alternatively, the radiation patterns can be plotted directly using the provided single_plot functions.</p> <h3>Material</h3> <p>The material data has been taken from the <a href="https://refractiveindex.info/" target="_blank" rel="noopener">refractiveindex.info</a> database. For silver the data is taken from tabulated data from Johnson and Christy [1] . The dispersion relation for hBN comes from [2] and tabulated data for glass (BK7) from [3]. The MATLAB script "material_properties_plot.m" plots the material fits above the wavelengths of interest. The required tabulated data is given in the folder "material_data".</p> <p>With 'material_properties_plot.m' the fits to the material data can be reproduced and plotted.</p> <h3>Usage</h3> <p>The .zip folder Helix_FEM contains all data and scripts to reproduce the plots from the 3D FEM simulations.</p> <p>The Jupyter Notebook Semi_Analytical_Plasmonic_Helix reprouces the results from the semi-analytical model.</p> <h3>Requirements</h3> <ul> <li>JCMsuite (at least 5.4.0)</li> <li>MATLAB (tested with version R2023b)</li> <li>Python (tested with Version 3.10.9)</li> <li>Jupyter Notebook (tested with 6.5.2) </li> </ul> <p>To run the simulations with JCMsuite you must replace corresponding placeholders with a path to your installation of JCMsuite. Free trial licenses are available, please refer to the homepage of <a href="https://jcmwave.com/">JCMwave</a>.</p> <h3>References</h3> <p>[1] P. B. Johnson and R.-W. Christy, “Optical constants of the noble metals,” Phys. Rev. B 6, 4370 (1972).</p> <p>[2] S.-Y. Lee, T.-Y. Jeong, S. Jung, and K.-J. Yee, “Refractive index dispersion of hexagonal boron nitride in the visible and near-infrared,” Phys. Status Solidi B 256, 1800417 (2019).</p> <p>[3] “SCHOTT Zemax catalogue 2017-01-20b,” (2017).</p> <div>[4] K. Höflich et al., "Resonant behavior of a single plasmonic helix." Optica 6, 1098(2019).</div> <div> </div> <div>[5]L. Novotny, "Effective wavelength scaling for optical antennas", Phys. Rev. Lett. 98,266802 (2007).</div>
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.