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339 results for “In vitro models”
Raman spectra from "Discrimination of immune cell activation using Raman micro-spectroscopy in an in-vitro & ex-vivo model"
<p>The uploaded files are data from Chaudhary et al, 2021 (Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy, Discrimination of immune cell activation using Raman micro-spectroscopy in an in-vitro & ex-vivo model, https://doi.org/10.1016/j.saa.2020.119118).</p> <p>There are two files in .mat format. In one (Preprocessed.mat) the data has been completely pre-processed according to the methods described in the paper.</p> <p>In the second (Unpreprocessed.mat) the data has been calibrated using the methods described in the paper, but has not received further pre-processing.</p> <p>Within both files there are datasets for the spectral measurement from each cell (‘spectra’), together with the treatment which was applied to each sample (‘treatment’) and the wavenumber at which the spectral measurements were made (‘wavenumber’).</p>
In-vitro Major Arterial Cardiovascular Simulator: Benchmark Data Set for in-silico Model Validation
<p><strong>Background</strong><br> <br> The data described here supplements the paper "In-vitro Major Arterial Cardiovascular Simulator to generate Benchmark Data Sets for in-silico Model Validation" (to be submitted). It was created at Technische Hochschule Mittelhessen (THM) in Germany and uploaded to Zenodo. Please cite the paper M. Wisotzki, A. Mair, P. Schlett, B. Lindner, M. Oberhardt, S. Bernhard, In Vitro Major Arterial Cardiovascular Simulator to Generate Benchmark Data Sets for In Silico Model Validation (2022), Data 7(11), DOI: 10.3390/data7110145 and the Zenodo doi when using this dataset.</p> <p><strong>General description / Dataset Structure</strong></p> <p>Each mat-File describes a different stenosis degree at the popliteal artery of the in-vitro simulator MACSim (details can be found in the paper). There are 17 pressure signals for different positions, one flow sensor close to the stenosis location and one monitor signal of the proportional valve use to control the input curve. Total duration of each signal is 60s with a sampling rate of 1000 Hz. Each mat-file contains a header structure with metadata and struct array for signals of each sensor. Signals in each mat-File are aligned with respect to a common time axis, but this is not guaranteed between different measurements/files. The file format can either be loaded directly in Matlab or in Python with scipy's loadmat function.</p> <p>The different stenosis degrees for each degree are:<br> ScenarioI: 100 % Area fraction (no stenosis)<br> ScenarioII: 37,5 % Area fraction<br> ScenarioIII: 23,4 % Area fraction<br> ScenarioIV: 6,56 % Area fraction</p> <p><strong>Data fields for each file</strong></p> <table> <caption>headerStruct</caption> <thead> <tr> <th scope="col">field</th> <th scope="col">description</th> </tr> </thead> <tbody> <tr> <td>rate</td> <td>sampling rate in Hz</td> </tr> <tr> <td>description</td> <td>name of the scenario according to the paper, corresponds to filename</td> </tr> <tr> <td>configuration</td> <td>parameters of the trapezoidal input curve (offset and amplitude in mmHg, ascend times and descend times and smoothing window in a fraction the time period (1.2s))</td> </tr> </tbody> </table> <p> </p> <table> <caption>signalStruct</caption> <thead> <tr> <th scope="col">field</th> <th scope="col">description</th> </tr> </thead> <tbody> <tr> <td>nodeId</td> <td>corresponds to numbered nodes at which the sensor is placed, the corresponding location can be found in the paper (node numbering, not sensor numbers) or in the software SISCA (https://gitlab.com/agbernhard.lse.thm/sisca) in the example database.</td> </tr> <tr> <td>type</td> <td>'p' ... pressure or 'q' ... flow</td> </tr> <tr> <td>data</td> <td>double array, time series of each sensor, unit mmHg for type 'p' and ml/s for type 'q' </td> </tr> <tr> <td>anatomicalPosition</td> <td> <p>name of the corresponding anatomical position</p> </td> </tr> </tbody> </table>
Circle of Willis Model and Time Resolved Flows/Pressures of In Vitro Setup
<p>Circle of Willis.stl: An STL file of the Circle of Willis model used in the publication by Luisi et al. 2022</p> <p>Physiological Flow_Scenario A.mat: Time-resolved flows and pressures at all vessel inlets and outlets from the in vitro setup in the physiological scenario.</p>
Reduction of chickens use to perform in vitro pre-screening of novel anticoccidials by miniaturisation and increased throughput of the current Eimeria tenella compound-screening model
<p>In vitro models have supported important advances in biomedical sciences and have significantly contributed to reduce the use of experimental animals in different disciplines. We have developed an in vitro model for the evaluation of potential anticoccidial properties of novel compounds aimed to control chicken coccidiosis, a costly disease for the poultry industry. This disease is caused by protozoan parasites of the genus <em>Eimeria</em> (Apicomplexa), and it is mainly controlled by chemoprophylaxis with ionophors and chemical anticoccidials; however, there is an overall agreement about the limitation of these classical drugs and the need to improve current methods of control. Anticoccidial activities of novel compounds is currently evaluated by expensive experiments that involve large numbers of chickens. The use of our in vitro model for the pre-screening of essential oils led to a reduction of 67% of the chickens used in the vivo trials for validation. In this study, we describe how further optimisation of this in vitro model by miniaturisation can have an additional impact on the number of chickens used for the generation of parasite stocks for provision of the in vitro model (which cannot be done in vitro). We have estimated that the use of one chicken could support the evaluation of ten compounds with a 96-well plate format vs. only two with a 24-well plate format, which means an 80% of chicken use reduction. In this study, we have proved that the miniaturisation into a 96-well plate format has perfectly mimicked the invasion and replication observed before in the 24-well plate format. In addition, this format has allowed the simultaneous pre-screening of higher numbers of anticoccidial drugs at different concentrations following streamlined protocols in a more cost-effective way, factors that are beneficial for a wider uptake of the model by other researchers investigating anticoccidial compounds. </p>
Transcriptomic characterization of 2D and 3D human induced pluripotent stem cell-based in vitro models as New Approach Methodologies for developmental neurotoxicity testing
<p><strong>Abstract:</strong> The safety and developmental neurotoxicity (DNT) potential of chemicals remain critically understudied due to limitations of current in vivo testing guidelines, which are low throughput, resource-intensive, and hindered by species differences that limit their relevance to human health. To address these issues, robust new approach methodologies (NAMs) using deeply characterized cell models are essential. This study presents the comprehensive transcriptomic characterization of two advanced human-induced pluripotent stem cell (hiPSC)-derived models: a 2D adherent and a 3D neurosphere model of human neural progenitor cells (hiNPCs) differentiated up to 21 days. Using high-throughput RNA sequencing, we compared gene expression profiles of 2D and 3D models at three developmental stages (3, 14, and 21 days of differentiation). Both models exhibit maturation towards post-mitotic neurons, with the 3D model maturing faster and showing a higher prevalence of GABAergic neurons, while the 2D model is enriched with glutamatergic neurons. Both models demonstrate broad applicability domains, including excitatory and inhibitory neurons, astrocytes, and key endocrine and especially the understudied cholinergic receptors. Comparison with human fetal brain samples confirms their physiological relevance. This study provides novel in-depth applicability insights into the temporal and dimensional aspects of hiPSC-derived neural models for DNT testing. The complementary use of these two models is highlighted: the 2D model excels in synaptogenesis assessment, while the 3D model is particularly suited for neural network formation as observed as well in previous functional studies with these models. This research marks a significant advancement in developing human-relevant, high-throughput DNT assays for regulatory purposes.</p> <p><strong>This data sets contains:</strong></p> <p><strong>Tab. S1</strong> - Significant genes results</p> <p><strong>Tab. S2</strong> - Enriched pathways_GO_Biological Processes</p> <p><strong>Tab. S3</strong> - Enriched pathways_GO_Cellular Components</p> <p><strong>Tab. S4</strong> - Enriched pathways_GO_Molecular Function</p> <p><strong>Tab. S5</strong> - Enriched pathways_KEGG</p> <p><strong>Tab. S6</strong> - EnrichEnriched pathways_Panther</p> <p><strong>Tab. S7</strong> - Enriched pathways_Reactome</p> <p><strong>Tab. S8</strong> - Gene counts</p> <p><strong>Tab. S9</strong> - Gene selection for targeted analysis</p>
DAPI images, molecules and segmentation boundaries for: A Spatiotemporal Atlas of Mouse Gastrulation and Early Organogenesis to Explore Axial Patterning and Project In Vitro Models onto In Vivo Space
<div> </div> <p><strong>Data Description</strong></p> <ol> <li><strong>Stitched & rotated DAPI images</strong> - tiff file format filename indicates sample and optical z-slice position, i.e. embryo3_z5.tif is the DAPI image for embryo 3 in optical z-slice 5. Also provided in PNG format.</li> <li><strong>Detected molecules and cell segmentation in MoleculeExperiment objects</strong> - RDS files to read data using the MoleculeExperiment format in R/Bioconductor. Filename embryo3_z5.Rds indicates MoleculeExperiment RDS file for embryo 3 in optical z-slice 5. Coordinates are provided in microns. Note that z-slices 2 and 5 are only provided for embryos 1,2,3 as they were originally provided in Lohoff et al, Nature Biotechnology, 2023.</li> <li><strong>Pixels-to-microns conversion</strong> - pixelSize.R Simple R script/text to indicate the size of each pixel in the DAPI images, this is to align the coordinate systems between the DAPI images and molecules.<br><br> <div> <h4>Project Abstract</h4> </div> <p>At the onset of murine gastrulation, pluripotent epiblast cells migrate through the primitive streak, generating mesodermal and endodermal precursors, while the ectoderm arises from the remaining epiblast. Together, these germ layers establish the body plan, defining major body axes and initiating organogenesis. Although comprehensive single cell transcriptional atlases of dissociated mouse embryos across embryonic stages have provided valuable insights during gastrulation, the spatial context for cell differentiation and tissue patterning remain underexplored. In this study, we employed spatial transcriptomics to measure gene expression in mouse embryos at E6.5 and E7.5 and integrated these datasets with previously published E8.5 spatial transcriptomics and a scRNA-seq atlas spanning E6.5 to E9.5. This approach resulted in a comprehensive spatiotemporal atlas, comprising over 150,000 cells with 88 refined cell type annotations as well as genome-wide transcriptional imputation during mouse gastrulation and early organogenesis. The atlas facilitates exploration of gene expression dynamics along anterior-posterior and dorsal-ventral axes at cell type, tissue, and organismal scales, revealing insights into mesodermal fate decisions within the primitive streak. Moreover, we developed a bioinformatics pipeline to project additional scRNA-seq datasets into a spatiotemporal framework and demonstrate its utility by analysing cardiovascular models of gastrulation3. To maximise impact, the atlas is publicly accessible via a user-friendly web portal empowering the wider developmental and stem cell biology communities to explore mechanisms of early mouse development in a spatiotemporal context.</p> </li> </ol>
Supplemental data for: Longitudinal, multi-platform metagenomics yields a high-quality genomic catalog and guides an in vitro model for cheese communities
<p><span>Microbiomes are intricately intertwined with human health, geochemical cycles, and food production. While many microbiomes of interest are highly complex and experimentally intractable, cheese rind microbiomes have proven powerful model systems for the study of microbial interactions. To provide a more comprehensive view of the genomic potential and temporal dynamics of cheese rind communities, we combine longitudinal, multi-platform metagenomics of three ripening washed-rind cheeses with whole genome sequencing of community isolates. Sequencing-based approaches revealed a highly reproducible microbial succession in each cheese, co-existence of closely related <em>Psychrobacter</em> species, and enabled the prediction of plasmid and phage diversity and their host associations. Combined with culture-based approaches, we established a genomic catalog and a paired 16-member in vitro washed rind cheese system. The combination of multi-platform metagenomic time-series data and an <em>in vitro</em> model provides a rich resource for further investigation of cheese rind microbiomes both computationally and experimentally. </span></p>
Dataset supporting the paper "Effect of prebiotic fermentation products from primary human gut microbiota on an in vitro intestinal model"
<p>Short chain fatty acids (SCFA) originate from the bacterial fermentation of dietary fibre in the gastrointestinal tract. They are hypothesised to play a key role in microbiota–gut–brain crosstalk and the effect of individual SCFAs or mixtures thereof has been broadly studied. However, studies using fermentation products to evaluate the effect of microbiota-targeted interventions, such as prebiotics, probiotics, or diet, are sparse, particularly in humans. In addition, the complexity of these physiological processes translates as a challenge for their simulation<em> in vitro</em>. In this work, fermentation products of prebiotic-enriched media by bacteria present in primary human faecal samples were tested using an epithelium model based on a Caco-2/HT29-MTX co-culture. The prebiotics raftilose and fructo-oligosaccharides (FOS) were tested and the experimental conditions (contact time and minimal dilution) optimised to avoid cytotoxicity. None of the conditions tested compromised the intestinal epithelium integrity as verified by the TEER and the expression of the tight junction-specific protein – occludin. In addition, none of the fermentation products caused an inflammatory response as determinedby the expression of inflammatory genes by qRT-PCR. The products of fermentation of media enriched with FOS showed a moderate protective effect against the formation of reactive oxygen species. This work provides an important basis for the development of <em>in vitro</em> models using a simple approach to evaluate host-gut microbiota interactions, using co-cultures of intestinal cell lines and products of <em>in vitro</em> fermentations by primary human gut microbiota. </p>
The Path from Nasal Tissue to Nasal Mucosa on Chip Part 2- Advanced Microfluidic Nasal In Vitro Model for Drug Absorption Testing
<p><strong>Abstract: </strong>The nasal mucosa, being accessible and highly vascularized, opens up new opportunities for the systemic administration of drugs. However, due to several protective functions like the mucociliary clearance, this physiological barrier is a difficult obstacle for drug candidates to overcome. For this reason, effective testing procedures are required in the preclinical phase of pharmaceutical development. Based on a recently reported immortalized porcine nasal epithelial cell line, we developed a test platform based on a tissue-compatible microfluidic chip. A biomimetic glass chip equipped with a controlled bidirectional airflow to induce a physiologically relevant wall shear stress on the epithelial cell layer was microfabricated. By developing a membrane transfer technique, the epithelial cell layer could be pre-cultivated in a static holder prior to cultivation in the microfluidic environment. The dynamic cultivation within the chip showed a homogenous distribution of the mucus film on top of the cell layer and a significant increase of cilia formation compared to static cultivation condition. In addition, the recording of the ciliary transport mechanism by micro particle image velocimetry was successful. Using FITC-dextran 4000 as an example, it was shown that this nasal mucosa on a chip is suitable for permeation studies. The obtained permeation coefficient was in the range of values determined by means of other established in vitro and in vivo models. The novel nasal mucosa on chip can in future be automated and used as a substitute for animal testing.</p>
Supplemental data for: Longitudinal, multi-platform metagenomics yields a high-quality genomic catalog and guides an in vitro model for cheese communities
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Induced pluripotent stem cell-derived cardiomyocyte in vitro models: tissue fabrication protocols, assessment methods, and quantitative maturation metrics for benchmarking progress
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Reduction of chickens use to perform in vitro pre-screening of novel anticoccidials by miniaturisation and increased throughput of the current Eimeria tenella compound-screening model
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Ions release from hydroxyapatite and substituted hydroxyapatites in different immersion liquids: In vitro experiments and theoretical modelling study
<p>The multi-substituted hydroxyapatites (ms-HAPs) are currently gaining more consideration due to their multifunctional properties and biomimetic structure, owning thus an enhanced biological potential in orthopedic and dental applications. In this study, nano hydroxyapatite (HAP) substituted with multiple cations (Sr2+, Mg2+ and Zn2+) for Ca2+ and anion (SiO44-) for PO43- and OH-, specifically HAPc-5%Sr and HAPc-10%Sr (where HAPc is HAP-1.5%Mg-0.2%Zn-0.2%Si), both lyophilized noncalcined and lyophilized calcined, were evaluated for their in vitro ions release. These nanomaterials were characterized by SEM, FE-SEM and EDX, as well as by AFM images and by surface-specific areas and porosity. Further, the release of cations and of phosphate anions were assessed from nano HAP and ms-HAPs, both in water and in simulated body fluid (SBF), in static and simulated dynamic conditions, using inductively coupled plasma optical emission spectrometry (ICP-OES). The release profiles were analyzed and the influence of experimental conditions was determined for each of the six nanomaterials and for various periods of time. The pH of the samples soaked in the immersion liquids was also measured. The ions release mechanism was theoretically investigated using the Korsmeyer-Peppas model. The results indicated a mechanism principally based on diffusion and dissolution, with possible contribution of ion exchange. The surface of ms-HAP nanoparticles is more susceptible to dissolution into immersion liquids due to the lattice strain provoked by simultaneous multi-substitution in HAP structure. According to the findings, it is rational to suggest that both materials HAPc-5%Sr and HAPc-10%Sr are bioactive and can be potential candidates in bone tissue regeneration.</p>
Modeling Glioma Oncostreams In Vitro: Spatiotemporal Dynamics of their Formation, Stability, and Disassembly
<p>Movie 1 of 16 is a supplementary material for the manuscript 'Modeling Glioma Oncostreams In Vitro: Spatiotemporal Dynamics of their Formation, Stability, and Disassembly.' It visually demonstrates the effect of various treatments on the formation and dynamics of oncostreams in high-grade glioma cells. The time-lapse videos provide insightful observations into how various pharmacological drugs influence the initial formation and structural dynamics of oncostreams."</p> <p>It aims to enhance the understanding of the foundational stages of oncostream formation in glioma cells and their response to various pharmacological treatments, supporting the findings discussed in the manuscript.</p> <p>Individual Movie Descriptions:</p> <p><strong>Movie 1: Low Density Oncostream Dynamics: </strong>Demonstrates the formation and dynamics of oncostreams in GFP+ NPA glioma cells at low seeding density (1 × 10^5 cells), over 24 hours using time-lapse confocal imaging.</p> <p><strong>Movie 2: High Density Oncostream Dynamics:</strong> Explores the effect of high cell seeding density (2 × 10^5 cells) on the formation and behavior of oncostreams in GFP+ NPA glioma cells, analyzed over 24 hours.</p> <p><strong>Movie 3: Spatiotemporal Progression of Oncostreams:</strong> Showcases the sequential self-formation and developmental stages of oncostreams over a 24-hour period.</p> <p><strong>Movie 4: Collagenase Impact on Oncostreams:</strong> Description: Illustrates the disassembly of aggressive and malignant oncostreams with 15 U/ml collagenase treatment over 15 hours.</p> <p><strong>Movie 5: TC-I-15 Inhibition of Oncostream Formation:</strong> Details the impact of TC-I-15, an integrin antagonist, on adhesion and oncostream formation in glioma cells, recorded over 20 hours.</p> <p><strong>Movie 6: Cytochalasin D Disruption of Oncostreams:</strong> Captures the effect of Cytochalasin D on oncostream formation by inhibiting actin polymerization, observed over a 1-hour period with rapid imaging intervals.</p> <p><strong>Movie 7: Myosin II Inhibition in Oncostreams with p-nitro Blebbistatin: </strong>Presents the influence of p-nitro Blebbistatin on oncostream formation by inhibiting myosin II, documented over 1 hour with dynamic cellular responses.</p> <p><strong>Movie 8: Control - Oncostream Formation without BAPTA-AM:</strong> Demonstrates oncostream formation and dynamics without BAPTA-AM treatment, monitored over 16 hours.</p> <p><strong>Movie 9: BAPTA-AM (Calcium Modulation) Impact on Oncostream Formation:</strong> Reveals the effects of BAPTA-AM treatment on oncostream dynamics, observed over a 16-hour period.</p> <p><strong>Movie 10: Glutamate Influence on Oncostreams:</strong> Shows the effects of glutamate treatment on oncostream formation and dynamics, monitored over 16 hours.</p> <p><strong>Movie 11: Histamine Impact on Oncostream Dynamics:</strong> Demonstrates the influence of histamine on the formation and behavior of oncostreams, captured over a 16-hour period.</p> <p><strong>Movie 12: Oncostream Formation on Non-Laminin Coated Surfaces:</strong> Illustrates the compromised organization of oncostreams on poly-D-lysine coated dishes without laminin, observed over 45 hours.</p> <p><strong>Movie 13: 4-HAP Treatment Effect on Oncostreams:</strong> Shows the impact of 4-HAP treatment on the structure of oncostreams, monitored over 20 hours.</p> <p><strong>Movie 14: Rho-Activator I Untreated Control:</strong> Presents the formation and dynamics of oncostreams without Rho-Activator I treatment, recorded over 16 hours.</p> <p><strong>Movie 15: Rho-Activator I Influence on Oncostreams Dynamics:</strong> Details the effects of Rho-Activator I on oncostream formation and dynamics, observed over a 16-hour period.</p> <p><strong>Movie 16: Rho-Inhibitor Effect on Oncostreams Dynamics:</strong> Demonstrates the impact of Rho-Inhibitor on the formation and behavior of oncostreams, monitored over 16 hours.</p>
Global Transcriptomic Analysis of Topical Sodium Alginate Protection Against Peptic Damage in An In Vitro Model of Treatment-Resistant Gastroesophageal Reflux Disease
<p>PA= pepsin + Acid; "Sham + PA" means "Pretreatment + Treatment"</p> <p><span>Breakthrough symptoms </span>are thought to occur in roughly half of <span>all </span>gastroesophageal reflux disease (GERD) patients despite maximal acid suppression (proton pump inhibitor, PPI) therapy. Topical alginates have recently been shown to enhance mucosal defense against acid-pepsin insult during GERD. We aimed to examine potential alginate protection of transcriptomic changes in a cell culture model of PPI recalcitrant GERD. Immortalized normal-derived human esophageal epithelial cells underwent pretreatment with commercial alginate-based anti-reflux medications (Gaviscon Advance or Gaviscon Double Action), a matched-viscosity placebo control, or pH 7.4 buffer (sham) alone for 1 minute, followed by exposure to pH 6.0+pepsin or buffer alone for 3 minutes. RNA sequencing was conducted, and Ingenuity Pathway Analysis was performed with a false discovery rate of ≤0.01, and absolute fold-change of ≥<span>1.3. Pepsin-acid exposure disrupted gene expressions associated with epithelial barrier function, chromatin structure</span>, carcinogenesis, and inflammation<span>. Alginate formulations demonstrated protection by mitigating these changes and promoting extracellular matrix repair, downregulating proto-oncogenes, and enhancing tumor suppressor expression. </span>These data suggest molecular mechanisms by which alginates provide topical protection against injury during weakly acidic reflux and support a potential role for alginates in prevention of GERD-related carcinogenesis.</p>
In Vitro Model for Simulating Drug Delivery during Balloon-Occluded Transarterial Chemoembolization - Supplementary Material
<p>Suplementary Material related with the under-review paper titled: In Vitro Model for Simulating Drug Delivery during Balloon-Occluded Transarterial Chemoembolization.</p>
Evaluation of in vitro rat and human airway epithelial models for acute inhalation toxicity testing
<p><em>In vivo</em> models (mostly rodents) are currently accepted by regulatory authorities for assessing acute inhalation toxicity. Considerable efforts have been made in recent years to evaluate in vitro human airway epithelial models (HAEM) as replacements for <em>in vivo</em> testing. In the current work, an organotypic <em>in vitro</em> rat airway epithelial model (RAEM), rat EpiAirway™, was developed and characterized to allow a direct comparison with the available HAEM, human EpiAirway™, in order to address potential interspecies variability in responses to harmful agents. The rat and human models were evaluated in two independent laboratories with 14 reference chemicals, selected to cover a broad range of chemical structures and reactive groups, as well as known acute animal and human toxicity responses, in three replicate rounds of experiments. Toxicity endpoints included changes in tissue viability (MTT assay), epithelial barrier integrity (TEER, transepithelial electrical resistance), and tissue morphology (histopathology). The newly developed rat EpiAirway™ model produced reproducible results across all replicate experiments in both testing laboratories. Furthermore, a high level of concordance was observed between the RAEM and HAEM toxicity responses (determined by IC<sub>25</sub>) in both laboratories, with R<sup>2</sup> = 0.78 and 0.88 when analyzed by TEER; and R<sup>2</sup> = 0.92 for both when analyzed by MTT. These results indicate that rat and human airway epithelial tissues respond similarly to acute exposures to chemicals. The new in vitro RAEM will help extrapolate to<em> in vivo</em> rat toxicity responses and support screening as part of a 3Rs program.</p>
Mechanisms of Inherited Retinal Dystrophies Using Whole Genome Sequencing and in Vitro and in Vivo Models
ClinicalTrials.gov study NCT05793515. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
Development of a Novel Human In Vitro Sarcoidosis Model
ClinicalTrials.gov study NCT01857401. IPD Sharing: Not stated. Countries: 1. Publications: 2.
16S rRNA data for an in vitro model of the human dental plaque bacterial community (3 hosts)
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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.