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1,855 results for “framework”
CADD-SV - A framework to score the effects of structural variants in health and disease
<p>Required annotation data-set to run the CADD-SV framework; a method to retrieve and integrate a wide set of annotations to predict the effects of SVs. Pre-scored variants as well as additional information on used features.<br> A webserver for online scoring as well as data downloads is available at: https://cadd-sv.bihealth.org/<br> Source code for CADD-SV is available at GitHub: https://github.com/kircherlab/CADD-SV</p>
Data for article: A quantitative framework to infer the effect of traits, diversity and environment on dispersal and extinction rates from fossils
<p>Supplementary information for:</p> <p><strong>A quantitative framework to infer the effect of traits, diversity and environment on dispersal and extinction rates from fossils</strong></p> <p>Torsten Hauffe, Mathias M. Pires, Tiago B. Quental, Thomas Wilke, and Daniele Silvestro</p> <p> </p><ul> <li> Simulations <ul> <li>Scripts <ul> <li>Scenario1_SamplingHeterogeneity.R: Script to simulate biogeographic histories with sampling heterogeneity</li> <li>Scenario3_SealevelInvasion.R: Script to simulate biogeographic histories where sea level facilitates dispersal and invasion induces extinction</li> <li>Scenario3_DiversityDependence.R: Script to simulate diversity-dependent biogeographic histories</li> <li>Scenario4_TraitDependence.R: Script to simulate trait-dependent biogeographic histories</li> <li>Scenario5_CategoricalTraitDependence.R: Script to simulate trait-dependent biogeographic histories</li> </ul> </li> <li>Results <ul> <li>Scenario1_SamplingHeterogenetiy_alpha05.txt: Results of simulations scenario 1 with a sampling heterogeneity of alpha = 0.5</li> <li>Scenario1_SamplingHeterogenetiy_alpha1.txt: Results of simulations scenario 1 with a sampling heterogeneity of alpha = 1</li> <li>Scenario1_SamplingHeterogenetiy_alpha2.txt: Results of simulations scenario 1 with a sampling heterogeneity of alpha = 2</li> <li>Scenario1_SamplingHeterogenetiy_alpha10.txt: Results of simulations scenario 1 with a sampling heterogeneity of alpha = 10</li> <li>Scenario2_Independent_dispersal_and_extinction.txt: Results of simulation scenario 2 with sea-level independent dispersal and no invasion induced extinction</li> <li>Scenario2_Sealevel_dependent_dispersal_and_independent_extinction.txt: Results of simulation scenario 2 with sea-level dependent dispersal and no invasion induced extinction</li> <li>Scenario2_Sealevel_independent_dispersal_and_invasion_induced_extinction.txt: Results of simulation scenario 2 with sea-level independent dispersal and invasion induced extinction</li> <li>Scenario2_Sealevel_dependent_dispersal_and_invasion_induced_extinction.txt: Results of simulation scenario 2 with sea-level dependent dispersal and invasion induced extinction</li> <li>Scenario3_Independent_dispersal_and_extinction.txt: Results of simulations scenario 3 with diversity-independent dispersal and extinction</li> <li>Scenario3_Diversity_dependent_dispersal_and_independent_extinction.txt: Results of simulations scenario 3 with diversity-dependent dispersal and diversity-independent extinction</li> <li>Scenario3_Independent_dispersal_and_Diversity_dependent_extinction.txt: Results of simulations scenario 3 with diversity-dependent dispersal and diversity-independent extinction</li> <li>Scenario3_Diversity_dependent_dispersal_and_extinction.txt: Results of simulations scenario 3 with diversity-dependent dispersal and extinction</li> <li>Scenario4_Independent_dispersal_and_extinction.txt: Results of scenario 4 with trait-independent dispersal and extinction</li> <li>Scenario4_Trait_dependent_dispersal_and_independent_extinction.txt: Results of scenario 4 with trait-dependent dispersal and independent extinction</li> <li>Scenario4_Independent_dispersal_and_trait_dependent_extinction.txt: Results of scenario 4 with independent dispersal and trait-dependent extinction</li> <li>Scenario4_trait_dependent_dispersal_and_extinction.txt: Results of scenario 4 with trait-dependent dispersal and extinction</li> <li>Scenario5_CatTrait_dependent_dispersal_and_independent_extinction.txt: Results of model 2 with categorical traits (e.g family) influence dispersal but no influence of a category-specific continuous traits</li> </ul> </li> </ul> </li> <li>Carnivora <ul> <li>BinnedOccurrence: Folder with 100 replicates of binned occurrences of max. 330 carnivoran genera throughout the Neogene</li> <li>BodyMass: Folder with 100 replicates of body mass for 330 carnivoran genera</li> <li>Sealevel: Folder with sea level through the Neogene</li> <li>Temperature: Folder with the temperature record of the Neogene</li> <li>Families: Folder with families as taxonomic proxy for phylogeny. FamilyGeneraNumeric.txt is the numeric coding used for the Bayesian analyses of carnivoran biogeography</li> </ul> </li> </ul> <p></p>
PEATCLSM_Trop: Integrating peat-specific land surface hydrology of natural and drained tropical peatlands in the GEOS CLSM framework
<p>The datasets archived here include simulation results shown in the peer-reviewed article “Tropical peatland hydrology simulated with a global land surface model“, published in the open access AGU Journal of Advances in Modeling Earth Systems (JAMES; Apers et al., 2022). The output was produced using the Catchment land surface model (CLSM), the land model component of the NASA Goddard Earth Observing System (GEOS) modeling framework, and various versions of peatland-specific adaptations of CLSM, i.e. PEATCLSM. Here, we provide netCDF files (*.nc or *.nc4c) for CLSM, the natural (PEATCLSM<sub>Trop,Nat</sub>), and drained (PEATCLSM<sub>Trop,Drain</sub>) tropical versions of PEATCLSM. The simulations are at a 9-km spatial resolution (EASEv2 grid) for the three major tropical peatland regions in Central and South America, the Congo Basin, and Southeast Asia, using a peat grid cell distribution that is a combination of the PEATMAP distribution from Xu et al. (2018) and the peat distribution from De Lannoy et al. (2014). Simulations with the northern version of PEATCLSM (PEATCLSM<sub>North,Nat</sub>) are not included in the archived dataset but can be obtained upon request. We provide three types of netCDF files:<br> • daily_images_*.nc4c: daily land states and fluxes for variables discussed in Apers et al., (2022; Table 1), provided as netCDF image-chunked image stack;<br> • daily_mean_*.nc: 20-year mean of the land states and fluxes (Table 1), provided as a single netCDF image;<br> • daily_std_*.nc: 20-year standard deviation of the land states and fluxes (Table 1), provided as a single netCDF image.</p> <p>The file content is described in the file PEATCLSM_Trop-Simulations.pdf.</p> <p>Please contact Sebastian Apers (sebastian.apers@kuleuven.be) or Michel Bechtold (michel.bechtold@kuleuven.be) for any questions.<br> <br> References:<br> Apers, S., De Lannoy, G. J. M., Baird, A. J., Cobb, A. R., Dargie, G. C., del Aguila Pasquel, J., … others (2022). Tropical peatland hydrology simulated with a global land surface model. <em>Journal of Advances in Modeling Earth Systems</em>. https://doi.org/10.1029/2021MS002784<br> Bechtold, M., De Lannoy, G. J. M., Koster, R. D., Reichle, R. H., Mahanama, S. P., Bleuten, W., ... others (2019). PEAT-CLSM: A specific treatment of peatland hydrology in the NASA Catchment Land Surface Model. <em>Journal of Advances in Modeling Earth Systems, 11</em>(7), 2130–2162. https://doi.org/10.1029/2018MS001574<br> De Lannoy, G. J. M., Koster, R. D., Reichle, R. H., Mahanama, S. P. P., & Liu, Q. (2014). An updated treatment of soil texture and associated hydraulic properties in a global land modeling system. <em>Journal of Advances in Modeling Earth Systems, 6</em>(4), 957– 979. https://doi.org/10.1002/2014MS000330<br> Xu, J., Morris, P. J., Liu, J., & Holden, J. (2018). PEATMAP: Refining estimates of global peatland distribution based on a meta-analysis. <em>Catena, 160</em>, 134–140. https://doi.org/10.1016/j.catena.2017.09.010</p>
PaRoutes: a framework for benchmarking retrosynthesis route predictions
<p>PaRoutes is a framework for benchmarking multi-step retrosynthesis methods, i.e. route predictions.</p> <p>It provides:</p> <ul> <li>A curated reaction dataset for building one-step retrosynthesis models</li> <li>Two sets of 10,000 routes</li> <li>Two sets of stock molecules to use as stop-criterion for the search</li> </ul> <p>Homepage: <a href="https://github.com/MolecularAI/PaRoutes">https://github.com/MolecularAI/PaRoutes</a></p>
A generalized machine learning framework to predict the space-time yield of methanol from thermocatalytic CO2 hydrogenation
<p>Thermocatalytic CO<sub>2</sub> hydrogenation to methanol is an attractive decarbonization technology to combat climate change while producing a valuable platform chemical and energy carrier. However, predicting the performance of catalytic systems for this process remains a challenge. Herein, we present a machine learning framework to predict catalyst performance from experimental descriptors. A database of Cu-, Pd-, In<sub>2</sub>O<sub>3</sub>-, and ZnO-ZrO<sub>2</sub>-based catalysts with 1425 datapoints is compiled from literature and subjected to data mining. Accurate ensemble-tree models (<em>R</em><sup>2</sup> > 0.85) are developed to predict the methanol space-time yield (<em>STY</em>) from 12 descriptors, where the significance of space velocity, pressure, and metal content is revealed. The model prediction and its insights are experimentally validated, with a root mean squared error of 0.11 g<sub>MeOH</sub> h<sup>−1</sup> g<sub>cat</sub><sup>−1 </sup>between the actual and predicted methanol<em> STY</em>. The framework is purely data-driven, interpretable, cross-deployable to other catalytic processes, and serves as an invaluable tool for guided experiments and optimization.</p>
Mining for Framework Instantiation Pattern Interplays
<p>Software frameworks define generic application blueprints which can be instantiated into an application through application-specific instantiation actions such as overriding a method or providing an object that implements an interface. In case the framework’s documentation falls short, developers may use other instantiations of the same framework as a guide to the required instantiation actions. In this paper, we propose an automated approach to mining framework instantiation patterns from existing open-source instantiations.</p> <p>The approach leverages a graph-based representation to capture the common ways of implementing instantiation actions as well as their interplays, so called instantiation interplays. As a case study, we mined for patterns in a set of 2,028 Java projects that instantiate four of the most popular Java frameworks. We also classify the extracted interplays according to the different contexts in which they occur. We found that our approach discovers relevant practices and interplays that are not covered by previous approaches. Our results will allow developers to have a better understanding of the frameworks they instantiate.</p>
Adapting the Harmonized Data Quality Framework for Ontology Quality Assessment
<p>Ontologies play an important role in the representation, standardization, and integration of biomedical data, but are known to have data quality (DQ) issues. We aimed to understand if the Harmonized Data Quality Framework (HDQF), developed to standardize electronic health record DQ assessment strategies, could be used to improve ontology quality assessment. A novel set of 14 ontology checks was developed. These DQ checks were aligned to the HDQF and examined by HDQF developers. The ontology checks were evaluated using 11 Open Biomedical Ontology Foundry ontologies. 85.7% of the ontology checks were successfully aligned to at least 1 HDQF category. Accommodating the unmapped DQ checks (n=2), required modifying an original HDQF category and adding a new Data Dependency category. While all of the ontology checks were mapped to an HDQF category, not all HDQF categories were represented by an ontology check presenting opportunities to strategically develop new ontology checks. The HDQF is a valuable resource and this work demonstrates its ability to categorize ontology quality assessment strategies.</p>
Data and code accompanying: A quantitative synthesis of and predictive framework for studying winter warming effects in reptiles
<p>This data and code were used to generate the publication "A quantitative synthesis of and predictive framework for studying winter warming effects in reptiles", doi: 10.1007/s00442-022-05251-3</p> <p>Please direct any queries or requests to use these datasets/code to: k.macleod@bangor.ac.uk</p> <p>Two datasets are presented in separate excel files: one contains meta-analytical data from experimental studies on winter warming effects on reptiles, and the other contains the same type of data from observational studies on the same.</p> <p>R code for analysis is in an R file; this should be openable in any text editing application.</p> <p>Manuscript abstract below:</p> <p><em>Increases in temperature related to global warming have important implications for organismal fitness. For ectotherms inhabiting temperate regions, ‘winter warming’ is likely to be a key source of the thermal variation experienced in future years. Studies focusing on the active season predict largely positive responses to warming in the reptiles; however, overlooking potentially deleterious consequences of warming during the inactive season could lead to biased assessments of climate change vulnerability. Here, we review the overwinter ecology of reptiles, and test specific predictions about the effects of warming winters, by performing a meta-analysis of all studies testing winter warming effects on reptile traits to date. We collated information from observational studies measuring responses to natural variation in temperature in more than one winter season, and experimental studies which manipulated ambient temperature during the winter season. Available evidence supports that most reptiles will advance phenologies with rising winter temperatures, which could positively affect fitness by prolonging the active season although effects of these shifts are poorly understood. Conversely, evidence for shifts in survivorship and body condition in response to warming winters was equivocal, with disruptions to biological rhythms potentially leading to unforeseen fitness ramifications. Our results suggest that the effects of warming winters on reptile species are likely to be important but highlight the need for more data and greater integration of experimental and observational approaches. To improve future understanding, we recap major knowledge gaps in the published literature of winter warming effects in reptiles and outline a framework for future research.</em></p>
Melon pan-genome and multi-parental framework for highresolution trait dissection
<p>Gff3 annotation files for 25 de-novo melon genomes discussed in publication.<br> These are draft annotations based on lif-over from "Harukei-3" and "HS" melon genomes.<br> Genome fasta files can be found in NCBI PRJNA726743 </p>
A Ligand Field Molecular Mechanics Study of CO2 Induced Breathing in the metal-organic framework DUT-8(Ni)
<p>Raw Data, scripts and processed data for the publication "A Ligand Field Molecular Mechanics Study of CO2 Induced Breathing in metal-organic framework DUT-8(Ni)"</p>
VulnMiner: A Comprehensive Framework for Vulnerability Collection from C/C++ Source Code Projects
<p>In this repository, we present an initial release of the VulnMiner vulnerability dataset, curated from prevalent projects and annotated with vulnerable and benign instances. This dataset incorporates projects with vulnerabilities labeled as Common Weakness Enumeration (CWE) categories. The developed open-source extraction tool collects vulnerability data utilizing static security analyzers. The study also fosters the machine learning (ML) and natural language processing (NLP) model's effectiveness in accurately classifying vulnerabilities, evidenced by its identification of numerous weaknesses in open-source projects.</p>
MODUL4R EU Founded Project Swarm Learning framework dataset
<p>MODUL4R EU Founded Project Swarm Learning framework dataset v1.0.0</p> <p>Contains values for:</p> <ul> <li>Capacitor type </li> <li>Grab Pressure (Pa)</li> <li>Leg Cutting (mm)</li> <li>Polarity</li> <li>Quality Metric</li> </ul>
Remapping California's Wildland Urban Interface: A Property-Level Time-Space Framework, 2000-2020
<p>Maps of California's Wildland Urban Interface (WUI) generated using the Time Step Moving Window (TSMW) method outlined in the paper "Remapping California's Wildland Urban Interface: A Property-Level Time-Space Framework, 2000-2020".</p> <p> </p> <p>Please cite the original paper:</p> <p>Berg, Aleksander K, Dylan S. Connor, Peter Kedron, and Amy E. Frazier. 2024. “Remapping California’s Wildland Urban Interface: A Property-Level Time-Space Framework, 2000–2020.” <em>Applied Geography </em> 167 (June): 103271. https://doi.org/10.1016/j.apgeog.2024.103271.</p> <p><br>WUI maps were generated using Zillow ZTRAX parcel level attributes joined with FEMA USA Structures building footprints and the National Land Cover Database (NLCD).</p> <p>All files are geotiff rasters with WUI areas mapped at a ~30m resolution. A raster value of null indicates not WUI, raster value of 1 indicates intermix WUI, and a raster value of 2 indicates interface WUI.</p> <p>Three WUI maps were generated using structures built on of before the years indicated below:</p> <p>2000 - "CA_WUI_2000.tif"</p> <p>2010 - "CA_WUI_2010.tif"</p> <p>2020 - "CA_WUI_2020.tif" </p> <p> </p> <p>Acknowledgments -</p> <p>We thank our reviewers and editors for helping us to improve the manuscript. We gratefully acknowledge access to the Zillow Transaction and Assessment Dataset (ZTRAX) through a data use agreement between the University of Colorado Boulder, Arizona State University, and Zillow Group, Inc. More information on accessing the data can be found at http://www.zillow.com/ztrax. The results and opinions are those of the author(s) and do not reflect the position of Zillow Group. Support by Zillow Group Inc. is acknowledged. We thank Johannes Uhl and Stefan Leyk for their great work in preparing the original dataset. For feedback and comments, we also thank Billie Lee Turner II, Sharmistha Bagchi-Sen, and participants at the 2022 Global Conference on Economic Geography, the 2022 Young Economic Geographers Network meeting, and the 2023 annual meeting of the American Association of Geographers. Funding for our work has been provided by Arizona State University's Institute of Social Science Research (ISSR) Seed Grant Initiative. Additional funding was provided through the Humans, Disasters, and the Built Environment program of the National Science Foundation, Award Number 1924670 to the University of Colorado Boulder, the Institute of Behavioral Science, Earth Lab, the Cooperative Institute for Research in Environmental Sciences, the Grand Challenge Initiative and the Innovative Seed Grant program at the University of Colorado Boulder as well as the Eunice Kennedy Shriver National Institute of Child Health & Human Development of the National Institutes of Health under Award Numbers R21 HD098717 01A1 and P2CHD066613.</p>
Proposal for a Next-Generation Metadata framework
<p>This figure illustrates a Next-generation Metadata framework and how it will provide the community a composable collection of metadata schemas to remove barriers to re-use and collaboration. </p>
P2PXML Dataset: Deep Geometric Framework to Predict Antibody-Antigen Binding Affinity
<p>In drug development, the efficacy of an antibody depends on how the antibody interacts with the target antigen. The strength of these interactions indicates how successful an antibody is in neutralizing an antigen. Therefore, the strength, measured by “binding affinity”, is a critical aspect of antibody engineering. In theory, the higher the binding affinity, the higher the chances are that the antibody is successful against the target antigen. Currently, techniques such as molecular docking and molecular dynamics are utilized in quantifying the binding affinity. However, owing to the computational complexity of the aforementioned techniques, running simulations for large antibodies/antigens remains a daunting task. Despite the commendable improvements in deep learning-based binding affinity prediction, such approaches are highly dependent on the quality of the antibody-antigen structures and they tend to overlook the importance of capturing the evolutionary details of proteins upon mutation. Further, most of the existing datasets for the task only include antibody-antigen pairs related to one antigen variant and, thus, are not suitable for developing comprehensive data-driven approaches. To circumvent the said complexities, we first curate the largest and most generalized datasets for antibody-antigen binding affinity prediction, consisting of both protein sequences and structures. Subsequently, we propose a deep geometric neural network comprising a structure-based model and a sequence-based model that considers both atomistic and evolutionary details when predicting the binding affinity. The proposed framework exhibited a 10% improvement in mean absolute error compared to the state-of-the-art models while showing a strong correlation between the predictions and target values. We release the datasets and code publicly https://drug-discovery-entc.github.io/p2pxml/ to support the development of antibody-antigen binding affinity prediction frameworks for the benefit of science and society. </p>
Dataset - DeepWealth: A Generalizable Open-Source Deep Learning Framework using Satellite Images for Well-Being Estimation
<p>This dataset encapsulates the Checkpoints obtained during the training process of the Deep Learning model, which can be used for new estimations.</p> <p>The aim of the DeepWealth package is to provide a generalizable Deep Learning framework for the use of remote sensing in poverty estimation. The combination of Deep Learning and Earth Observation data is increasingly being used to estimate socioeconomic conditions at regional and global scales. The proposed framework aligns with the Sustainable Development Goal SDG1 of ending poverty. The framework provides open-source data, code, and training models (checkpoints) for reproducibility and replicability.</p> <ul> <li>The source code can be found in <a href="https://github.com/PARSECworld/DeepWealth" target="_blank" rel="noopener">https://github.com/PARSECworld/DeepWealth</a></li> <li>The metadata from source code can be found in <a href="https://github.com/PARSECworld/DeepWealth/blob/main/metadata.pdf" target="_blank" rel="noopener">https://github.com/PARSECworld/DeepWealth/blob/main/metadata.pdf</a></li> <li>The paper describing the development of this framework can be found at: Ben Abbes, A., Machicao, J., Corrêa, P. L. P., Specht, A., Devillers, R., Ometto, J. P., Kondo, Y., & Mouillot, D. (2024). DeepWealth: A generalizable open-source deep learning framework using satellite images for well-being estimation. <em>SoftwareX</em>, 27, 101785. <a href="https://doi.org/10.1016/j.softx.2024.101785">https://doi.org/10.1016/j.softx.2024.101785</a> </li> </ul>
Data: Homochiral metal-organic frameworks coated double-plasmon active optical fiber for in-situ enantioselective detection
<p>This dataset is focused on utilization of optical fiber with double-plasmon activity (ensured by a spatially separated gold and silver nanocoating of the fiber core) and subsequent surface grafting by HMOFs for enantioselective capture of organic enantiomers.</p>
Dataset and Source Code for the Paper: A Framework for Developing Strategic Cyber Threat Intelligence from Advanced Persistent Threat Analysis Reports Using Graph-Based Algorithms
<p>Here are the data set and source code related to the paper: "A Framework for Developing Strategic Cyber Threat Intelligence from Advanced Persistent Threat Analysis Reports Using Graph-Based Algorithms"</p> <p>1- aptnotes-downloader.zip : contains source code that downloads all APT reports listed in https://github.com/aptnotes/data and https://github.com/CyberMonitor/APT_CyberCriminal_Campagin_Collections</p> <p>2- apt-groups.zip : contains all APT group names gathered from https://docs.google.com/spreadsheets/d/1H9_xaxQHpWaa4O_Son4Gx0YOIzlcBWMsdvePFX68EKU/edit?gid=1864660085#gid=1864660085 and https://malpedia.caad.fkie.fraunhofer.de/actors and https://malpedia.caad.fkie.fraunhofer.de/actors</p> <p>3- apt-reports.zip : contains all deduplicated APT reports gathered from https://github.com/aptnotes/data and https://github.com/CyberMonitor/APT_CyberCriminal_Campagin_Collections</p> <p>4- countries.zip : contains country name list.</p> <p>5- ttps.zip : contains all MITRE techniques gathered from https://attack.mitre.org/resources/attack-data-and-tools/</p> <p>6- malware-families.zip : contains all malware family names gathered from https://malpedia.caad.fkie.fraunhofer.de/families</p> <p>7- ioc-searcher-app.zip : contains source code that extracts IoCs from APT reports. Extracted IoC files are provided in report-analyser.zip. Original code repo can be found at https://github.com/malicialab/iocsearcher</p> <p>8- extracted-iocs.zip : contains extracted IoCs by ioc-searcher-app.zip</p> <p>9- report-analyser.zip : contains source code that searchs APT reports, malware families, countries and TTPs. I case of a match, it updates files in extracted-iocs.zip.</p> <p>10- cti-transformation-app.zip : contains source code that transforms files in extracted-iocs.zip to CTI triples and saves into Neo4j graph database.</p> <p>11- graph-db-backup.zip : contains volume folder of Neo4j Docker container. When it is mounted to a Docker container, all CTI database becomes reachable from Neo4j web interface. Here is how to run a Neo4j Docker container that mounts folder in the zip:</p> <p>docker run -d --publish=7474:7474 --publish=7687:7687 --volume={PATH_TO_VOLUME}/DEVIL_NEO4J_VOLUME/neo4j/data:/data --volume={PATH_TO_VOLUME}/DEVIL_NEO4J_VOLUME/neo4j/plugins:/plugins --volume={PATH_TO_VOLUME}/DEVIL_NEO4J_VOLUME/neo4j/logs:/logs --volume={PATH_TO_VOLUME}/DEVIL_NEO4J_VOLUME/neo4j/conf:/conf --env 'NEO4J_PLUGINS=["apoc","graph-data-science"]' --env NEO4J_apoc_export_file_enabled=true --env NEO4J_apoc_import_file_enabled=true --env NEO4J_apoc_import_file_use__neo4j__config=true --env=NEO4J_AUTH=none neo4j:5.13.0</p> <h4><strong>web interface: http://localhost:7474</strong></h4> <h4><strong>username: neo4j</strong></h4> <h4><strong>password: neo4j</strong></h4> <p> </p>
Supplementary data for "Heterometallic perovskite-type metal-organic framework with an ammonium cation: structure, phonons, and optical response"
<p>Optimised structures of [NH<sub>4</sub>][Na<sub>0.5</sub>M<sub>0.5</sub>(COOH)<sub>3</sub>] (M = Al, Cr)</p> <p>Phonon output for [NH<sub>4</sub>][Na<sub>0.5</sub>Cr<sub>0.5</sub>(COOH)<sub>3</sub>]</p> <p>Gif of the T’(NH<sub>4</sub><sup>+</sup>) mode (no. 23). The c-axis is the vertical direction.</p> <p>For further information please see the associated publication.</p>
Real-time optical and electronic sensing with a β-amino enone linked, triazine-containing 2D covalent organic framework
<p>[This repository contains the source data for the manuscript "<strong>Real-time optical and electronic sensing with a β-amino enone linked, triazine-containing 2D covalent organic framework</strong>" https://nature-research-under-consideration.nature.com/users/37265-nature-communications/posts/47951-a-real-time-optical-and-electronic-chemical-sensor-based-on-a-amino-enone-linked-triazine-containing-2d-covalent-organic-framework]</p> <p>Fully-aromatic, two-dimensional covalent organic frameworks (2D COFs) are hailed as candidates for electronic and optical devices, yet to-date few applications emerged that make genuine use of their rational, predictive design principles and permanent pore structure. Here, we present a 2D COF made up of chemoresistant β-amino enone bridges and Lewis-basic triazine moieties that exhibits a dramatic real-time response in the visible spectrum and an increase in bulk conductivity by two orders of magnitude to a chemical trigger - corrosive HCl vapours. The optical and electronic response is fully reversible using a chemical switch (NH<sub>3</sub> vapours) or physical triggers (temperature or vacuum). These findings demonstrate a useful application of fully-aromatic 2D COFs as real-time responsive chemosensors and switches.</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.