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Dataset results
134 results for “SIM”
Dataset of the publication: Tunable SIM properties in a family of 3D anilato-based Lanthanide-MOFs
<p>Dataset of the publication: Tunable SIM properties in a family of 3D anilato-based Lanthanide-MOFs</p> <p>DOI: 10.1039/d4qi01549e</p> <p>N. Monni, S. Dey, V. García-López, M. Oggianu, J. J. Baldoví, M. L. Mercuri, M. Clemente-León, E. Coronado</p> <p>Inorg. Chem. Front., 11, 5913-5923 (2024)</p>
DeepBacs – E. coli SIM prediction dataset and CARE model
<p>Training and test images of live, membrane-labeled <em>E. coli </em>cells for prediction of SIM super-resolution images from widefield images, as well as a trained CARE model.</p> <p>Additional information can be found on this <a href="https://github.com/HenriquesLab/DeepBacs/wiki">github wiki</a>.</p> <p>The example image shows a widefield fluorescence image and SIM reconstruction of FM5-95 labelled, live <em>E. coli </em>cells.</p> <p> </p> <p><strong>Training and test dataset</strong></p> <p><strong>Data type</strong>: Paired microscopy images (fluorescence) of low (widefield) and high resolution (SIM)</p> <p><strong>Microscopy data type</strong>: Fluorescence microscopy (FM5-95)</p> <p><strong>Microscope</strong>: GE HealthCare Deltavision OMX system (with temperature and humidity control, 37°C) equipped with an Olympus 60x 1.42NA Oil immersion objective and 2 PCO Edge 5.5 sCMOS cameras (one for DIC, one for fluorescence)</p> <p><strong>Cell type</strong>: <em>E. coli </em>DH5α grown under agarose pads</p> <p><strong>File format</strong>: .tif (16-bit for widefield images and 32-bit for SIM reconstructions)</p> <p><strong>Image size</strong>: 1024 x 1024 px² (40 nm/px)<br> <strong>Image preprocessing</strong>: <em>E. coli</em> widefield images were scaled with a factor of 2 to match the SIM reconstruction pixel size. </p> <p> </p> <p><strong>CARE model</strong></p> <p>The CARE 2D model was generated using the ZeroCostDL4Mic platform (Chamier et al., 2021). It was trained from scratch for 300 epochs on 5500 paired image patches (image dimensions: (1024 x 1024 px²), patch size: (80 x 80 px²), 100 patches/image) with a batch size of 8 and a laplace loss function, using the CARE 2D ZeroCostDL4Mic notebook (v 1.12). Key python packages used include tensorflow (v 0.1.12), Keras (v2.3.1), csbdeep (v 0.6.1), numpy (v1.19.5), cuda (v 10.1.243). The training was accelerated using a Tesla P100GPU and data was augmented by a factor of 4 using rotation and flipping.</p> <p>Model weights can be used with the ZeroCostDL4Mic CARE 2D notebook or the CSBDeep Fiji plugin.</p> <p> </p> <p><strong>Author(s)</strong>: Pedro Matos Pereira<sup>1,2</sup>, Mariana Pinho<sup>1,3</sup></p> <p><strong>Contact email</strong>: <a href="mailto:pmatos@itqb.unl.pt">pmatos@itqb.unl.pt</a> and <a href="mailto:mgpinho@itqb.unl.pt">mgpinho@itqb.unl.pt</a></p> <p> </p> <p><strong>Affiliation</strong>: </p> <p>1) Bacterial Cell Biology, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Oeiras, Portugal</p> <p>2) ORCID: https://orcid.org/0000-0002-1426-9540</p> <p>3) ORCID: https://orcid.org/0000-0002-7132-8842</p>
Dependence of MeV TOF SIMS secondary molecular ion yield from phthalocyanine blue on primary ion stopping power
<p>Time-of-flight Secondary Ion Mass Spectrometry (TOF SIMS) is a well-established mass spectrometry technique used for the chemical analysis of both organic and inorganic materials. In the last ten years, many advances have been made to improve the yield of secondary molecular ions, especially those desorbed from the surfaces of organic samples. For that, cluster ion beams with keV energies for the excitation were mostly used. Alternatively, single-ion beams with MeV energies can be applied, as done in the present work. It is well known that secondary molecular/ion yield depends strongly on the primary ion stopping power, but the nature of this dependence is not completely clear. Therefore, in the present work secondary ion yield from the phthalocyanine blue (C<sub>32</sub>H<sub>16</sub>CuN<sub>8</sub>, organic pigment) was measured for the various combinations of ion masses, energies and charge states. Measured values were compared with the existing models for ion sputtering. An increase of the secondary yield with the primary ion energy, electronic stopping, velocity and charge state was found for different types of primary ions. Although this general behavior is valid for all primary ions, there is no single parameter that can describe the measured results for all primary ions at once. </p> <p>- measured (calibrated) spectra are uploaded </p> <p> </p> <p> </p>
Lindera aggregata (Sims) Kosterm. (BR0000009237674)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Wisteria sinensis (Sims) Sweet (BR0000012456055)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Wisteria sinensis (Sims) Sweet (BR0000012524556)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
2nd cycle evaluation experiment ULM sim AutoMate
<p>This experiment has been conducted at the driving simulator to test the first enabler integrated version of the simulator 1 demonstrator. The data of 26 participants was collected where each participant drove through both, the baseline and the TeamMate condition in the Peter scenario. There was a special focus of the gaze behavior, therefore the included dataset involves the gaze behavior as well as the subjective rating. The description of the experiment and the results can be found in the Deliverable D6.2 “Results of Evaluation in the 2nd cycle”.</p>
3rd cycle evaluation experiment ULM sim AutoMate
<p>This experiment has been conducted at driving simulator 1 to test the final integrated version of the simulator demonstrator in the Peter scenario with all integrated and updated enablers in their final state. 18 users participated in the final experiment. The dataset consists of two files, one the zip file of the simulator logs (see Table 3) and the other file is the subjective rating of both systems. The description of the experiment and the results can be found in the Deliverable D6.3 “Results of Comparative Evaluation after 3rd cycle”.</p>
Dataset for Benchmarking the Sim-to-Real Gap in Cloth Manipulation
<p>This dataset is supplemental to the paper "Benchmarking the Sim-to-Real Gap in Cloth Manipulation".</p> <p>D. Blanco-Mulero, O. Barbany, G. Alcan, A. Colomé, C. Torras and V. Kyrki, "Benchmarking the Sim-to-Real Gap in Cloth Manipulation," in IEEE Robotics and Automation Letters, vol. 9, no. 3, pp. 2981-2988, March 2024, doi: 10.1109/LRA.2024.3360814</p>
Linked collectors and determiners for: SIM-Fungal occurrences compiled by the Iberian Mycological Society.
Natural history specimen data linked to collectors and determiners held within, "SIM-Fungal occurrences compiled by the Iberian Mycological Society". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/058a6684-fbe4-416b-b247-accee284027d">https://bionomia.net/dataset/058a6684-fbe4-416b-b247-accee284027d</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/058a6684-fbe4-416b-b247-accee284027d">https://gbif.org/dataset/058a6684-fbe4-416b-b247-accee284027d</a>. Formatted as a Frictionless Data package.
Sparse-SIM datasets
<p>This repository holds all the provided example data, and it is a part of publication: "<strong>Sparse deconvolution improves the resolution of live-cell super-resolution fluorescence microscopy, Nature Biotechnology, 40, 606–617 (2022)</strong>" DOI: <a href="https://doi.org/10.1038/s41587-021-01092-2">https://doi.org/10.1038/s41587-021-01092-2</a>.</p>
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011656654)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011656227)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011656050)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011656661)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011655725)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011655893)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011656913)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011656883)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
Anaphalis triplinervis (Sims) C.B.Clarke (BR0000011656586)
Belgium Herbarium image of <a href="https://www.plantentuinmeise.be">Meise Botanic Garden</a>.
ScienceDex guides
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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.