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1,819 results for “Experimental data”
Experimental Data for: Comparing Trace Visualizations for Program Comprehension through Controlled Experiments
<p>For efficient and effective program comprehension, it is essential to provide software engineers with appropriate visualizations of the program's execution traces. Empirical studies, such as controlled experiments, are required to assess the effectiveness and efficiency of proposed visualization techniques.</p> <p>We present controlled experiments to compare the trace visualization tools EXTRAVIS and ExplorViz in typical program comprehension tasks. We replicate the first controlled experiment with a second one targeting a differently sized software system. In addition to a thorough analysis of the strategies chosen by the participants, we report on common challenges comparing trace visualization techniques. Besides our own replication of the first experiment, we provide a package containing all our experimental data to facilitate the verifiability, reproducibility and further extensibility of our presented results.</p> <p>Although subjects spent similar time on program comprehension tasks with both tools for a small-sized system, analyzing a larger software system resulted in a significant efficiency advantage of 28 percent less time spent by using ExplorViz. Concerning the effectiveness (correct solutions for program comprehension tasks), we observed a significant improvement of correctness for both object system sizes of 39 and 61 percent with ExplorViz.</p> <p>This package contains the experimental data.</p>
Experimental Data for: Research Perspective on Supporting Software Engineering via Physical 3D Models
<p>Experimental data for the experiment presented in the technical report 1507: "Research Perspective on Supporting Software Engineering via Physical 3D Models"</p>
Experimental Data for: Hierarchical Software Landscape Visualization for System Comprehension: A Controlled Experiment
<p>In many enterprises the number of deployed applications is constantly increasing. Those applications - often several hundreds - form large software landscapes. The comprehension of such landscapes is frequently impeded due to, for instance, architectural erosion, personnel turnover, or changing requirements. Therefore, an efficient and effective way to comprehend such software landscapes is required. The current state of the art often visualizes software landscapes via flat graph-based representations of nodes, applications, and their communication.</p> <p>In our ExplorViz visualization, we introduce hierarchical abstractions aiming at solving typical system comprehension tasks fast and accurately for large software landscapes. To evaluate our hierarchical approach, we conduct a controlled experiment comparing our hierarchical landscape visualization to a flat, state-of-the-art visualization. In addition, we thoroughly analyze the strategies employed by the participants and provide a package containing all our experimental data to facilitate the verifiability, reproducibility, and further extensibility of our results.</p> <p>We observed a statistically significant increase of 14 % in task correctness of the hierarchical visualization group compared to the flat visualization group in our experiment. The time spent on the system comprehension tasks did not show any significant differences. The results backup our claim that our hierarchical concept enhances the current state of the art in landscape visualization.</p> <p>This package contains our experimental data.</p>
Experimental Data for: Exploring Software Cities through Virtual Reality
<p>Software visualizations, such as the software city metaphor, are usually displayed on 2D screens and controlled by means of a mouse and thus often do not take advantage of more natural interaction techniques. Virtual reality (VR) approaches aim to improve the user experience. Emerging new technologies, like the Oculus Rift, dramatically enhance the VR experience at an affordable price. Therefore, new technologies have the potential to provide even higher immersion - and thus benefits - than previous VR approaches.</p> <p>We present a VR approach to explore software visualizations following the software city metaphor by using a head-mounted display and gesture-based interaction. Furthermore, we detail our gesture design and how we implemented this approach into our web-based ExplorViz tool. As first evaluation, we conducted structured interviews where participants had to solve three program comprehension tasks and rate the usability of the used gestures and general VR experience for program comprehension.</p> <p>The participants of our interviews rated the developed gestures for translation, rotation, and selection as highly usable. However, our zooming gesture was less favored. In general, the subjects see potential for virtual reality in program comprehension.</p> <p>This package contains our experimental data.</p>
Experimental data for the publication: "Evaluating scintillator performance in time-resolved, hard X-ray studies at synchrotron light sources"
<p>In accordance with the expectations outlined in <em><strong>Clarifications of EPSRC expectations on research data management</strong></em> (09/10/14) this data has been made publicly available to complement the open access publication "Evaluating scintillator performance in time-resolved, hard X-ray studies at synchrotron light sources". </p> <p>There are six data sets, corresponding to the six experimental data sets presented in the article. In each data set, which may be identified by their file names and reference to the article, the 1st column is the RF trigger - to - ICCD exposure delay in [ns], and the second column in the intensity recorded on the ICCD in [counts]. This intensity accounts for any online and offline processing outlined in the article, such as on-CCD exposures, dark frame correction etc. </p>
Development of predictive models of the kinetics of a hydrogen abstraction reaction combining quantum-mechanical calculations and experimental data
<p>The files contain the electronic structure calculations for all the levels of theory tested in this work.</p>
Experimental results of "Managing variant calling datasets the big data way"
<p>Tomatula was demonstrated for retrieving the allele frequencies for a given region in the data from Aflitos et al (2014). We developed scripts to retrieve allele frequencies, either from the VCF file storage or Apache Parquet. We executed a series of experiments, querying for a region of 2000 bases in the file of chromosome 6, that corresponds to the approximate length of a gene. We compared both storage formats (VCF files and Parquet), two input sizes (104 and 1144 individuals), different cluster sizes varying between 2 and 150 executor nodes, and HDFS replication factor was set to 3, 5, 7, and 9, in order to examine four main factors that<br> can affect the performance of a Big Data cluster: (a) the storage format, (b) the size of the input files, (c) the number of computing nodes of the cluster, and (d) the replication factor of HDFS. The block size of the HDFS was kept at the default value of 128MB. All experiments were executed five times and the detailed results are provided here, along with a script that produces the corresponding figures.</p>
Experimental data for the paper "Scalable Fine-Grained Proofs for Formula Processing"
<p>We provide here the binary, options and experimental data for our CADE paper and the companion report.</p> <p><strong>Setup</strong></p> <p>The tarball containing the source code of veriT used in our experiments is available here. The command line parameters of veriT used in each of the configurations described in the paper are:</p> <ul> <li>Basic: "--old-processing --disable-sym --disable-simp --disable-unit-simp --disable-unit-subst-simp --disable-ackermann --disable-bclause"</li> <li>Extended: "--old-processing --disable-sym --disable-unit-simp --disable-unit-subst-simp --disable-ackermann --disable-bclause"</li> <li>Complete: "--old-processing"</li> <li>with proofs: "--proof=/dev/null --proof-with-sharing"</li> <li>with new code: remove parameter "--old-processing"</li> </ul> <p>The benchmarks are from the SMT-LIB categories QF_ALIA, QF_AUFLIA, QF_IDL, QF_LIA, QF_LRA, QF_RDL, QF_UF, QF_UFIDL, QF_UFLIA, QF_UFLRA, AUFLIA, AUFLIRA, UF, UFIDL, UFLIA, and UFLRA.</p> <p>Our experiments were conducted on servers equipped with two Intel Xeon E5-2630 v3 processors, with eight cores per processor, and 126 GB of memory. The time limit was set to 30 s.</p>
Experimental data for "Spot-On: robust model-based analysis of single-particle tracking experiments"
<p><strong>Overview of experimental spaSPT data</strong></p> <p>To comprehensively test Spot-On over many different conditions, we conducted 1064 spaSPT experiments. The raw data is freely available and the purpose of this ReadMe file is to describe the organization, acquisition parameters and format of the data. The data is for 4 different cell lines imaged over 15 different conditions yielding a total of 60 different conditions. The four cell lines were:</p> <ul> <li> <p>U2OS C32 Halo-CTCF</p> </li> <li> <p>U2OS H2B-Halo-SNAP</p> </li> <li> <p>U2OS Halo-3xNLS</p> </li> <li> <p>mESC (JM8.N4) C3 Halo-Sox2</p> </li> </ul> <p>The cell lines were constructed in different ways. U2OS C32 Halo-CTCF was made by homozygous endogenous N-terminal tagging of CTCF in human osteosarcoma U2OS cells using CRISPR/Cas9-mediated genome-editing as described (C32 refers to clone number 32)<sup>1</sup>. We note the CTCF is an essential gene and that N-terminal tagging did not appear to affect CTCF function or expression level according to a series of control experiments<sup>1</sup>. Moreover, C32 Halo-CTCF has been authenticated using Short Tandem Repeat (STR) profiling (performed by Dr. Alison N. Killilea at the UC Berkeley Cell Culture Facility) against the following loci: THO1, D5S818, D13S317, D7S820, D16S539, CSF1PO, AMEL, vWA and TPOX. The C32 Halo-CTCF cell line showed a 100% match with U2OS.</p> <p>U2OS H2B-Halo-SNAP was made through random integration of a H2B-HaloTag-SNAP-Tag transgene expressed using the EF1a promoter with an IRES-NeoR gene for drug selection. After transfection, cells were selected using G418 until a pure cell population was obtained. This cell line has also been described previously<sup>1</sup>. The wild-type U2OS cell line used to make this cell line was also authenticated using STR profiling against the same loci as C32 and also showed a 100% match with U2OS.</p> <p>U2OS Halo-3xNLS was made through random integration of a FLAG-Halo-3xNLS (3x SV40 NLS: PKKKRKV) transgene expressed using the EF1a promoter. NeoR for drug selection was separately expressed using an SV40 promoter. After transfection, cells were selected using G418 until a pure cell population was obtained. This cell line has also been described previously<sup>1</sup>. The wild-type U2OS cell line used to make this cell line was also authenticated using STR profiling against the same loci as C32 and also showed a 100% match with U2OS.</p> <p>mESC C3 Halo-Sox2 was made through homozygous N-terminal tagging of Sox2 in JM8.N4<sup>2</sup> mouse embryonic stem cells using CRISPR/Cas9-mediated genome editing as previously described (C3 refers to clone number 3)<sup>3</sup>. The functionality of the C3 Halo-Sox2 knock-in was validated through control experiments and pluripotency through teratoma assays as described previously<sup>3</sup>.</p> <p>Each file contains single-molecule trajectories from a single cell imaged over 30,000 frames. Localization and tracking was performed using a custom-written Matlab implementation of the MTT-algorithm<sup>4</sup> and the following settings: Localization error: 10<sup>-6.25</sup>; deflation loops: 0; Blinking (frames): 1; max competitors: 3; max <em>D</em> (m<sup>2</sup>/s): 20.</p> <p>The same 15 conditions were used for each of the 4 cell lines.</p> <p><strong>ExpA PA-JF549</strong></p> <p>The purpose of this experiment was to test the effect of “motion-blurring” on the Spot-On estimated <em>D</em><sub>FREE</sub> and <em>F</em><sub>BOUND</sub>. 5 different experimental conditions were considered. Full details are given in the Methods section. Briefly, cells were grown overnight on plasma-cleaned 25 mm circular coverslips either directly (U2OS) and MatriGel coated as described<sup>1</sup>. Cell were labeled with 5-50 nM PA-JF549<sup>5</sup> for around 15-30 min, washed twice and medium exchanged to phenol-red free medium. 30,000 frames were collected at a camera exposure time (Andor iXon Ultra 897; frame-transfer mode; vertical shift speed: 0.9 μs; -70C) of 9.5 ms which together with a ~447 μs camera integration time gave a frame rate of ~100 Hz. PA-JF549 dyes were photo-activated during the ~447 μs camera integration time using 405 nm pulses and the 405 nm pulse intensity optimized to achieve a mean density of 1 molecule per frame per nucleus. The JF549 dye was excited using a 561 nm laser and the total number of excitation photons kept constant but either delivered during a 1 ms pulse, a 2 ms pulse, a 4 ms pulse, a 7 ms pulse or with constant illumination.</p> <p>For each cell line and condition, 4 replicates were performed. We count a replicate as an independent experiment performed on a different day. For each replicate around 5 cells were imaged. Occasionally, fewer than 5 cells are available. To avoid tracking errors, we removed cells with too high a localization density from the analysis. All of this information is available in the file name. For example, “U2OS_C32_Halo-CTCF_PA-JF549_1ms-561nm_100Hz_rep2_cell03” refers to the third cell imaged in the second replicate of U2OS C32 Halo-CTCF using a 1 ms excitation pulse of 561 nm laser at a frame rate of 100 Hz. Similarly, “U2OS_C32_Halo-CTCF_PA-JF549_cont-561nm_100Hz_rep4_cell01” refers to the first cell imaged in the fourth replicate of U2OS C32 Halo-CTCF using constant 561 nm laser at a frame rate of 100 Hz.</p> <p>The five ExpA_PAJF549 conditions are separated by cell line such that each cell line is provided in a separate directory. E.g. the directory “U2OS_H2B_ExpA_PAJF549” contains all data for the U2OS H2B-Halo-SNAP cell line.</p> <p><strong>ExpA PA-JF646</strong></p> <p>This experiment was exactly identical to the “ExpA_PA-JF549” experiment except cell were labeled with PA-JF646<sup>5</sup> and excited using a 633 nm laser. The file names and data organization was otherwise the same and the same five excitation conditions were considered.</p> <p><strong>ExpB PA-JF646</strong></p> <p>The purpose of this experiment was to test if the Spot-On estimated <em>D</em><sub>FREE</sub> and <em>F</em><sub>BOUND</sub> values would depend on the frame rate. In particular, all four proteins exhibit some levels of apparent anomalous diffusion, which could cause a dependence on the frame rate. Cells were labeled with PA-JF646 and grown and imaged as described above. Photo-activation took place during the ~447 μs camera integration time and JF646 dyes were excited using 1 ms stroboscopic 633 nm excitation pulses. To change the frame rate, the camera exposure time was set to 4.5 ms (~201 Hz), 5.5 ms (~167 Hz), 7 ms (~134 Hz), 13 ms (~74 Hz) and 19.5 ms (~50 Hz) when also counting the ~447 μs camera integration time. All of this information is available in the file name. For example, “U2OS_Halo-3xNLS_PA-JF646_1ms-633nm_74Hz_rep2_cell04” refers to the fourth cell imaged in the second replicate of U2OS Halo-3xNLS using a 1 ms excitation pulse of 633 nm laser at a frame rate of 74 Hz. Similarly, “mESC_C3_Halo-Sox2_PA-JF646_1ms-633nm_201Hz_rep1_cell03” refers to the third cell imaged in the first replicate of mESC Halo-Sox2 using a 1 ms excitation pulse of 633 nm laser at a frame rate of 201 Hz.</p> <p><strong>Data format</strong></p> <p>All data is available in two different formats: CSV-files and Matlab MAT-files. Both file formats are readable by the web-version of Spot-On. The Matlab version of Spot-On is only able to read the MAT-files. The CSV format consists of comma-separated values and contains headers. If opened with Microsoft Excel, it should appear as shown:</p> <p>Here the “frame” column contains the frame number in which the molecule was detected. The “t” column contains the timestamp. The “trajectory” column contains the trajectory number. For example, trajectory number 1 was only detected in frame 13 after which it disappeared. In contrast, trajectory number 4 was detected in frames 20, 21 22, 23 and 24. Finally, the “x” and “y” columns contain the x,y coordinates of the localization in units of micrometers (μm).</p> <p>The MAT-files contain a structure array named “trackedPar”. trackedPar contains three variables:</p> <ul> <li> <p>trackedPar.xy: “xy” is a matrix with 2 columns and a number of rows corresponding to the number of localizations in that trajectory. The first column is the x-coordinate and the second column is the y-coordinate. The units are micrometers (μm).</p> </li> <li> <p>trackedPar.Frame: “Frame” is a column vector where each element is the frame where the particle was localized.</p> </li> <li> <p>trackedPar.TimeStamp: “TimeStamp” is a column vector where each element is the timepoint where the particle was localized.</p> </li> </ul> <p>Each element in the structure array “trackedPar” correspond to a different trajectory.</p>
Experimental Data for Natural Disaster Mobility Model and Typhoon Haiyan Scenario
<p>The experimental data set for running the <em>Typhoon Haiyan</em> scenario with the <em>Natural Disaster Mobility Model</em> presented in the paper:</p> <p>Milan Stute, Max Maass, Tom Schons, and Matthias Hollick, “<strong>Reverse Engineering Human Mobility in Large-scale Natural Disasters</strong>,” to appear in <em>ACM International Conference on Modeling, Analysis and Simulation of Wireless and Mobile Systems (MSWiM)</em>, November 2017, Miami Beach, USA.</p>
Structures of FDA-approved drugs and their active metabolites and data sets of experimental PD and PK properties
<p>Data sets are extracted from the 2024 release of the e-Drug3D Database (2118 FDA-approved drug structures)</p> <ol> <li><strong>e-Drug3D_2118.zip </strong>(contains e-Drug3D_2118.sdf)<strong> -</strong> <strong>Chemical Structures</strong> - The e-Drug3D collection in SDF format file - one 3D conformer; ionization of carboxylic acid, phosphate, phosphonate, phosphonoamide, amidinium and guanidinium groups. The datablock contains the ID, name (INN), CAS number and Status.</li> <li><strong>e-Drug3D_2118_PK.csv - </strong><strong>Pharmacokinetics</strong> - Column/field value is separated by a semicolon. It contains the e-Drug3D ID, INN (drug name), CAS number, year of approval, Status, is_or_has a metabolite, routes of administration, Volume of distribution (VD), Clearance (Cl), Plasma Protein Binding (PPB), Half-life (t1/2), Bioavailability (F), Cmax/Tmax, comment on solubility.</li> <li><strong>e-Drug3D_2118_PD.csv -</strong> <strong>Pharmacodynamics</strong> - Column/field value is separated by a semicolon. It contains the e-Drug3D ID, INN (drug name), CAS number, year of approval, Status, Primary target, ATC code(s), PDB codes and main list of drug targets.</li> <li><strong>e-Drug3D_2118_RD.csv -</strong> <strong>FDA Registration Data</strong> - Column/field value is separated by a semicolon. It contains the ID, name (INN), CAS number, First year of approval, Status, <a href="http://www.knapsackfamily.com/knapsack_core/top.php">KNApSAcK</a> or <a href="https://www.npatlas.org">NPAtlas</a> Id if natural product, all associated NDA numbers [FDA approval number, name of the label file in PDF format, company name, year of approval and commercial name of the drug] and the Indication/Therapeutic class information.</li> <li><strong>labels.tar.gz</strong> - The drug label files in PDF format (compressed directory). A label file is named with the NDA number. The NDA number is the approval number assigned by the FDA. A drug may possess several NDA numbers (see the above e-Drug3D-RD data set).</li> </ol>
Data from: A pioneering experimental investigation of a novel in-situ dynamic characterization of the tensile/compression stress-strain mechanism on human plantar soft tissue
<p><span>We have conducted the first in-situ and in-vivo dynamic mechanical test on human plantar soft tissue. A dynamic mechanical analysis (DMA)-like device has been invented to perform the in-situ and in-vivo stress-strain tests on living plantar in order to characterize the material mechanism of biological soft tissue, whereas it is nearly impossible to prepare a sample from a living body for classical tests. A series of pioneering tests of tensile/compression on the heel of ten volunteers are reported, with the reference of tests on mimic foot model made by silicon rubber, standard silicon rubber brick sample, and finite elementary analysis. In addition to demonstrating the effectiveness of the device and approach, interesting correlations between the results and clinic data were found, suggesting considerable potential for the invention in future research.</span></p>
Experimental Data of Air Heat Engine Characteristics
<p>Air heat engine characteristic experiment is an experimental method used to study the working principle, performance, and efficiency of air heat engines. An air heat engine is a device that uses thermal energy to compress and expand gases, thereby driving mechanical motion. During the experimental process, a small piston air compressor is usually used as the experimental object.</p>
Data supporting "Lessons learned from multi-objective automatic optimizations of classical three-site rigid water models using microscopic and macroscopic target experimental observables"
<p>This repository contains the set of data and the code to reproduce the results shown in "Lessons learned from multi-objective automatic optimizations of classical three-site rigid water models using microscopic and macroscopic target experimental observables" published on Journal of Chemical Engineering and Data (DOI: 10.1021/acs.jced.3c00538).</p>
Research data supporting ""Lessons learned from multi-objective automatic optimizations of classical three-site rigid water models using microscopic and macroscopic target experimental observables""
<p>This repository contains the set of data and the code to reproduce the results shown in "Lessons learned from multi-objective automatic optimizations of classical three-site rigid water models using microscopic and macroscopic target experimental observables" published on Journal of Chemical Engineering and Data (DOI: 10.1021/acs.jced.3c00538).</p>
Bi-fidelity Variational Auto-encoder for Uncertainty Quantification: Experimental Data
<p>Quantifying the uncertainty of quantities of interest (QoIs) from physical systems is a primary objective in model validation. However, achieving this goal entails balancing the need for computational efficiency with the requirement for numerical accuracy. To address this trade-off, we propose a novel bi-fidelity formulation of variational auto-encoders (BF-VAE) designed to estimate the uncertainty associated with a QoI from low-fidelity (LF) and high-fidelity (HF) samples of the QoI. This model allows for the approximation of the statistics of the HF QoI by leveraging information derived from its LF counterpart. Specifically, we design a bi-fidelity auto-regressive model in the latent space that is integrated within the VAE's probabilistic encoder-decoder structure. An effective algorithm is proposed to maximize the variational lower bound of the HF log-likelihood in the presence of limited HF data, resulting in the synthesis of HF realizations with a reduced computational cost. Additionally, we introduce the concept of the bi-fidelity information bottleneck (BF-IB) to provide an information-theoretic interpretation of the proposed BF-VAE model. Our numerical results demonstrate that BF-VAE leads to considerably improved accuracy, as compared to a VAE trained using only HF data, when limited HF data is available.</p>
Experimental raw data sets associated with certified reference material BAM-P116 (titanium dioxide) for comparison of nitrogen and argon sorption, available in the universal adsorption information format (AIF)
<p>These data sets serve as models for calculating the specific surface area (BET method) using gas sorption in accordance with ISO 9277.<br>The present measurements were carried out with nitrogen at 77 Kelvin and argon at 87 Kelvin.<br>It is recommended to use the following requirements for the molecular cross-sectional area:<br>Nitrogen: 0.1620 nm²<br>Argon: 0.1420 nm²</p> <p>Expected specific surface area for nitrogen (BET): 305 to 345 m²/g<br>Expected specific surface area for argon (BET): 300 to 310 m²/g</p> <p>Titanium dioxides certified with nitrogen sorption and additionally measured with argon for research purposes were used as sample material.<br>The resulting data sets are intended to serve as comparative data for own measurements and show the differences in sorption behaviour and evaluations between nitrogen and argon.<br>These data are stored in the universal AIF format (adsorption information format), which allows flexible use of the data.</p>
Modelling data for: Short-course combination treatment for experimental chronic Chagas disease
<p><span>Chagas disease, caused by the protozoan parasite <em>Trypanosoma</em> <em>cruzi</em>, affects millions of people in the Americas and across the world leading to considerable morbidity and mortality. Current treatment options, benznidazole (BNZ) and nifurtimox, offer limited efficacy and often lead to adverse side effects due to long treatment durations. Better treatment options are therefore urgently required. Here we describe a pyrrolopyrimidine series, identified through phenotypic screening, that offers a clear opportunity to improve on current treatments. In vitro cell-based washout assays demonstrate that compounds in the series are incapable of killing all parasites, however, combining these pyrrolopyrimidines with a sub-efficacious dose of BNZ can clear all parasites in vitro after five days. Importantly, these findings were replicated in a clinically predictive<em> in vivo</em> model of chronic Chagas disease, where five days of treatment with the combination was sufficient to prevent parasite relapse. Comprehensive mechanism of action studies, supported by ligand-structure modelling, show that compounds from this pyrrolopyrimidine series inhibit the Q</span><sub><span>i</span></sub><span> active site of <em>T. cruzi</em> cytochrome <em>b</em>, part of the cytochrome <em>bc1</em> complex of the electron transport chain. Knowledge of the molecular target enabled a cascade of assays to be assembled to evaluate selectivity over the human cytochrome <em>b</em> homologue. As a result, a highly selective and efficacious lead compound was identified. The combination of our lead compound with BNZ rapidly clears<em> T. cruzi</em> parasites, both <em>in vitro</em> and <em>in vivo</em>, and shows great potential to overcome key issues associated with currently available treatments. </span></p>
Experimental data from the initial validation of spark-eclib, a new framework for distributed metaheuristics in Spark
<p>This repository contains the experimental data obtained from two series of experiments to validate and profile <a href="https://doi.org/10.5281/zenodo.8431048"><strong>spark-eclib</strong></a>, a framework written in Scala to support the development of distributed population-based metaheuristics and their application to the global optimization of large-scale problems in Spark clusters:</p> <ul> <li>Experiments to validate the proposal of a generic topology for distributed PSO algorithms.</li> <li>Experiments to profile the parallel implementations of a PSO template.</li> </ul>
SPS fixed line experiment - experimental data
<p>Experimental turn-by-turn beam position monitor (BPM) data of an example shot of a kicked beam in the CERN Super Proton Synchrotron from 2018. The set contains data from 4 consecutive BPMs (vertical-horizontal-vertical-horizontal) with about 90 degree phase advance between them (in the respective plane). The vertical beam position data has been rotated to bring the measurement to the location of the first horizontal monitor. Like this, the scaled Poincaré surface of section can be reconstructed.</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.