cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22773503
title: DOM offsets the detrimental effects of climate change in the nitrogen fixing cyanobacterium <em>Crocosphaera </em>

description: ABSTRACT: Diazotrophs provide a significant reactive nitrogen source in the ocean. Increased warming, stratification and acidification may decrease nutrient availability in the future influencing all ecosystems with deleterious impacts for primary productivity and carbon export. Not depending on reactive nitrogen availability, diazotrophs may be "winners" in a nutrient depleted ocean. We exposed cultures of the widespread diazotroph <i>Crocosphaera</i> to low (26°C, pH 8.1), moderate (28°C, pH 8.0) and extreme (30°C, pH 7.9) climate change treatments and test their responses to additions of dissolved organic matter, including carbohydrates, and dissolved inorganic nitrogen.NOTE: This data set only contains the core parameters including pH, temperature, nutrients, as well as the cell abundance. Figures illustrating the experimental set up are also provided. In addition, gene expression analysis of the main metabolic pathways of this diazotroph between treatments, experimental time points and different coditions (e.g. DOM versus unmodified samples) are included in this dataset.Contact info: filella.lamadrid@gmail.com; jacqueline.umbricht@io-warnemuende.de<br><br>
DOI: 10.6084/m9.figshare.22773503.v1
title: DOM offsets the detrimental effects of climate change in the nitrogen fixing cyanobacterium <em>Crocosphaera </em>

description: ABSTRACT: Diazotrophs provide a significant reactive nitrogen source in the ocean. Increased warming, stratification and acidification may decrease nutrient availability in the future influencing all ecosystems with deleterious impacts for primary productivity and carboon export. Not depending on reactive nitrogen availability, diazotrophs may be "winners" in a nutrient depleted ocean. We exposed cultures of the widespread <em>Crocosphaera</em> to low (26°C, pH 8.1), moderate (28°C, pH 8.0) and extreme (30°C, pH 7.9) climate change treatments and test their responses to additions of dissolved organic matter, including carbohydrates, and dissolved inorganic nitrogen. NOTE: This data set only contains the core parameters including pH, temperature, nutrients, as well as the cell abundance. Figures illustrating the experimental set up are also provided. In addition, gene expression analysis of the main metabolic pathways of this diazotroph between treatments, experimental time points and different coditions (e.g. DOM versus unmodified samples) are included in this dataset. Contact info: filella.lamadrid@gmail.com; jacqueline.umbricht@io-warnemuende.de <br> <br>
DOI: 10.5281/zenodo.8202775
title: Benchmark: Architectural Smell ICSE 2024

description: Benchmark of Architectural Smell ICSE 2024 paper
DOI: 10.5281/zenodo.8202774
title: Benchmark: Architectural Smell ICSE 2024

description: Benchmark of Architectural Smell ICSE 2024 paper
DOI: 10.11583/dtu.23733330.v1
title: Supporting Material for: Life-cycle assessment as a prospection stage for the biochemical methane potential of pretreated lignocellulosic biomass

description: The file is supporting data for the journal article with the title " <b>Life-cycle assessment as a prospection stage for the biochemical methane potential of pretreated lignocellulosic biomass </b>", Ana Rosa Aon Cardoso Fernandes*, Bruno Eduardo Lobo Baêta, Anders Damgaard, Bioresources Technology, DOI: https://doi.org/10.1016/j.biortech.2023.129584It contains:Data underlying LCA model, details of life cycle impact assessment, and additional results. To open the file, use Microsoft Excel.
DOI: 10.5281/zenodo.8202802
title: MARitime SIMulated (MARSIM) Dataset for GPS Spoofing Detection

description: MARitime SIMulated (MARSIM) is a comprehensive and labeled dataset created to test and evaluate NMEA-based anomaly detection approaches related to GNSS/GPS spoofing attacks in the maritime context, e.g. MANA. It consists of multiple scenarios (benign and attacked) with a duration of 120 s, provided as network traffic recordings, i.e., in packet capture (pcap) format. Each recording contains the NMEA 0183 sentences transmitted within the network of a single vessel heading north from a fixed point with constant velocity. The recordings are reduced to two PNT transmitting devices, namely the pair of GPS receivers, which are placed at a fixed distance of 4 m from each other. Working with the provided packet captures can be facilitated by using our Wireshark dissector. For more information, please see Spravil J, Hemminghaus C, von Rechenberg M, Padilla E, Bauer J. Detecting Maritime GPS Spoofing Attacks Based on NMEA Sentence Integrity Monitoring. Journal of Marine Science and Engineering. 2023; 11(5):928. DOI: 10.3390/jmse11050928
DOI: 10.5281/zenodo.8202801
title: MARitime SIMulated (MARSIM) Dataset for GPS Spoofing Detection

description: MARitime SIMulated (MARSIM) is a comprehensive and labeled dataset created to test and evaluate NMEA-based anomaly detection approaches related to GNSS/GPS spoofing attacks in the maritime context, e.g. MANA. It consists of multiple scenarios (benign and attacked) with a duration of 120 s, provided as network traffic recordings, i.e., in packet capture (pcap) format. Each recording contains the NMEA 0183 sentences transmitted within the network of a single vessel heading north from a fixed point with constant velocity. The recordings are reduced to two PNT transmitting devices, namely the pair of GPS receivers, which are placed at a fixed distance of 4 m from each other. Working with the provided packet captures can be facilitated by using our Wireshark dissector. For more information, please see Spravil J, Hemminghaus C, von Rechenberg M, Padilla E, Bauer J. Detecting Maritime GPS Spoofing Attacks Based on NMEA Sentence Integrity Monitoring. Journal of Marine Science and Engineering. 2023; 11(5):928. DOI: 10.3390/jmse11050928
DOI: 10.5281/zenodo.8202936
title: MARitime SIMulated (MARSIM) Dataset for GPS Spoofing Detection

description: MARitime SIMulated (MARSIM) is a comprehensive and labeled dataset created to test and evaluate NMEA-based anomaly detection approaches related to GNSS/GPS spoofing attacks in the maritime context, e.g. MANA. It consists of multiple scenarios (benign and attacked) with a duration of 120 s, provided as network traffic recordings, i.e., in packet capture (pcap) format. Each recording contains the NMEA 0183 sentences transmitted within the network of a single vessel heading north from a fixed point with constant velocity. The recordings are reduced to two PNT transmitting devices, namely the pair of GPS receivers, which are placed at a fixed distance of 4 m from each other. Working with the provided packet captures can be facilitated by using our Wireshark dissector. For more information, please see Spravil J, Hemminghaus C, von Rechenberg M, Padilla E, Bauer J. Detecting Maritime GPS Spoofing Attacks Based on NMEA Sentence Integrity Monitoring. Journal of Marine Science and Engineering. 2023; 11(5):928. DOI: 10.3390/jmse11050928
DOI: 10.18112/openneuro.ds004341.v1.0.0
title: semantic_encoding
DOI: 10.6084/m9.figshare.23815038
title: Supplementary Material for: Application of the cytokinesis-block micronucleus assay for high dose exposures using imaging flow cytometry

description: The cytokinesis-block micronucleus (CBMN) assay is a well-established method to assess radiation-induced genetic damage in human cells. This assay has been adapted to imaging flow cytometry (IFC), allowing automated analysis of many cells, and eliminating the need to create microscope slides. Furthermore, to improve the efficiency of assay performance, a small-volume method previously developed was employed. Irradiated human blood samples were cultured, stained, and analysed by IFC to produce images of the cells. Samples were run using both manual and 96-well plate automated acquisition. Multiple parameter-based image features were collected for each sample and the results were compared to confirm that these acquisition methods are functionally identical. This paper details the multi-parametric analysis developed, and the resulting calibration curves up to 10 Gy. The calibration curves were created using a quadratic random coefficient model with Poisson errors, as well as a logistic discriminant function. The curves were then validated with blinded, irradiated samples, using relative bias and relative mean square error. Overall, the accuracy of the dose estimates was adequate for triage dosimetry (within 1 Gy of the true dose) over 90% of the time for lower doses and about half the time for higher doses, with the lowest success rate between 5 and 6 Gy where the calibration curve reached its peak and there was the smallest change in MN/BNC with dose. This work describes the application of novel multi-parametric analysis that fits the calibration curves and allows dose estimates up to 10 Gy, which were previously limited to 4 Gy. Furthermore, it demonstrates that the results from samples acquired manually and with the autosampler are functionally similar.
DOI: 10.6084/m9.figshare.23815038.v1
title: Supplementary Material for: Application of the cytokinesis-block micronucleus assay for high dose exposures using imaging flow cytometry

description: The cytokinesis-block micronucleus (CBMN) assay is a well-established method to assess radiation-induced genetic damage in human cells. This assay has been adapted to imaging flow cytometry (IFC), allowing automated analysis of many cells, and eliminating the need to create microscope slides. Furthermore, to improve the efficiency of assay performance, a small-volume method previously developed was employed. Irradiated human blood samples were cultured, stained, and analysed by IFC to produce images of the cells. Samples were run using both manual and 96-well plate automated acquisition. Multiple parameter-based image features were collected for each sample and the results were compared to confirm that these acquisition methods are functionally identical. This paper details the multi-parametric analysis developed, and the resulting calibration curves up to 10 Gy. The calibration curves were created using a quadratic random coefficient model with Poisson errors, as well as a logistic discriminant function. The curves were then validated with blinded, irradiated samples, using relative bias and relative mean square error. Overall, the accuracy of the dose estimates was adequate for triage dosimetry (within 1 Gy of the true dose) over 90% of the time for lower doses and about half the time for higher doses, with the lowest success rate between 5 and 6 Gy where the calibration curve reached its peak and there was the smallest change in MN/BNC with dose. This work describes the application of novel multi-parametric analysis that fits the calibration curves and allows dose estimates up to 10 Gy, which were previously limited to 4 Gy. Furthermore, it demonstrates that the results from samples acquired manually and with the autosampler are functionally similar.
DOI: 10.5281/zenodo.5644233
title: AP-4-mediated axonal transport controls endocannabinoid production in neurons - Imaging data 3

description: Imaging data associated with Fig. 6c,e,f, 7e-h, S5a,b, S6b-d and S7 from the article "AP-4-mediated axonal transport controls endocannabinoid production in neurons", published in Nature Communications by Davies et al. DAGLB_Axon_iPSC_derived_neurons: High-throughput confocal imaging was used to assay the density of DAGLB puncta in axons of iPSC neurons from a patient with AP-4 deficiency syndrome (patient 1) and their matched control, labelled with anti-DAGLB, the axonal marker antibody cocktail SMI312 and DAPI. DAGLB_Soma_iPSC_derived_neurons: High-throughput confocal imaging was used to assay the distribution of DAGLB in iPSC-derived neurons from two patients with AP-4 deficiency syndrome (LoF/LoF) and their matched unaffected controls (WT/LoF). Neurons in 96-well plates were labelled with antibodies against DAGLB, GOLGA1 (a TGN marker) and TUJ1, and DAPI. The ratio between the area of high intensity (HI; overlaps with TGN) and low intensity (LI) DAGLB labelling was quantified from three differentiations per cell line. iPSC_derived_neurons_neurite_outgrowth: Neurite outgrowth was assayed in iPSC-derived cortical neurons from two patients with AP4B1-associated AP-4 deficiency syndrome (SPG47) and their unaffected same sex heterozygous parents (control), using automated live cell imaging. Neurons were cultured in the presence of DMSO (vehicle control) or the MGLL inhibitor ABX-1431 at 10, 50, 100 or 500 nM (the highest two doses were administered only to the patient neurons). Neurons were monitored from 4 h post-plating, with images captured every 3 h until 25 h post-plating. See article for methods and further detail.
description: This work was funded by the German Research Foundation (DFG/Gottfried Wilhelm Leibniz Prize MA 1764/2-1) and the Max Planck Society for the Advancement of Science. A.K.D. received funding from the European Union's Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement no. 896725 and a Humboldt Research Fellowship. D.E.-F. had support from the CureAP4 Foundation, the Spastic Paraplegia Foundation, the National Institute of Health / National Institute of Neurological Disorders and Stroke (2R25NS070682 & 1K08NS123552-01) and the National Institutes of Health (BCH IDDRC, 1U54HD090255). M.Z. received scholarships from the DAAD (German National Exchange Service) and the German National Academic Foundation. J.E.A. is supported by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) 270949263/GRK2162, the DAAD (German National Exchange Service), the German National Academic Foundation and the Max Weber-Program of the State of Bavaria.
DOI: 10.5281/zenodo.8192233
title: Response of water isotopes in precipitation to a collapse of the West Antarctic Ice Sheet in high-resolution simulations with the Weather Research and Forecasting Model

description: This archive includes data and ipython notebooks to create the figures for the manuscript "Response of water isotopes in precipitation to a collapse of the West Antarctic Ice Sheet in high-resolution simulations with the Weather Research and Forecasting Model" submitted to Journal of Climate in August 2022. Model output from WRFwiso and iCAM is in data.zip (saved as monthly means) Notebooks and python modules are in scripts.zip Required python packages (all included in environment.yml): numpy matplotlib netcdf4 basemap scipy wrf-python windspharm metpy intergrid cmocean Version 1 is the original upload from the first submission. Version 2 includes small updates of the data and scripts from the revision.
DOI: 10.5281/zenodo.7007863
title: Response of water isotopes in precipitation to a collapse of the West Antarctic Ice Sheet in high-resolution simulations with the Weather Research and Forecasting Model

description: This archive includes data and ipython notebooks to create the figures for the manuscript "Response of water isotopes in precipitation to a collapse of the West Antarctic Ice Sheet in high-resolution simulations with the Weather Research and Forecasting Model" submitted to Journal of Climate in August 2022. Model output from WRFwiso and iCAM is in data.zip (saved as monthly means) Notebooks and python modules are in scripts.zip Required python packages (all included in environment.yml): numpy matplotlib netcdf4 basemap scipy wrf-python windspharm metpy intergrid cmocean Version 1 is the original upload from the first submission. Version 2 includes small updates of the data and scripts from the revision.
DOI: 10.5281/zenodo.7007864
title: Response of water isotopes in precipitation to a collapse of the West Antarctic Ice Sheet in high-resolution simulations with the Weather Research and Forecasting Model

description: This archive includes data and ipython notebooks to create the figures for the manuscript "Response of water isotopes in precipitation to a collapse of the West Antarctic Ice Sheet in high-resolution simulations with the Weather Research and Forecasting Model" submitted to Journal of Climate in August 2022. Model output from WRFwiso and iCAM is in data.zip (saved as monthly means) Notebooks and python modules are in scripts.zip Required python packages (all included in environment.yml): numpy matplotlib netcdf4 basemap scipy wrf-python windspharm metpy intergrid cmocean Version 1 is the original upload from the first submission. Version 2 includes small updates of the data and scripts from the revision.
DOI: 10.5281/zenodo.8202814
title: ECOLE Result Reproduction

description: This repository contains the scripts, data, and instructions to reproduce the results of the paper: ECOLE: Learning to call copy number variants on whole exome sequencing data.
DOI: 10.5281/zenodo.8202813
title: ECOLE Result Reproduction

description: This repository contains the scripts, data, and instructions to reproduce the results of the paper: ECOLE: Learning to call copy number variants on whole exome sequencing data.
DOI: 10.5281/zenodo.8191495
title: MOTION Dashboard on Sustainable Destinations in the EU

description: <strong>Content of the dashboard:</strong> All regions in the EU: Countries + NUT2. Period 2010-2022. Environmental sustainability: 9 indicators. Economic sustainability: 8 indicators. Social sustainability: 5 indicators.
description: Co-funded by the Erasmus+ Programme of the European Union. Strategic Partnerships-The European Commission accepts no responsibility for the contents of the publication. The Finnish National Agency for Education is hosting the national agency for the European Union's education and youth programmes. 2020-1-FI01-KA203-066543.
DOI: 10.5281/zenodo.8191494
title: MOTION Dashboard on Sustainable Destinations in the EU

description: <strong>Content of the dashboard:</strong> All regions in the EU: Countries + NUT2. Period 2010-2022. Environmental sustainability: 9 indicators. Economic sustainability: 8 indicators. Social sustainability: 5 indicators.
description: Co-funded by the Erasmus+ Programme of the European Union. Strategic Partnerships-The European Commission accepts no responsibility for the contents of the publication. The Finnish National Agency for Education is hosting the national agency for the European Union's education and youth programmes. 2020-1-FI01-KA203-066543.
DOI: 10.6084/m9.figshare.23814942.v1
title: Data

description: The civil aviation transport due to the closed environment inevitable is an important route for the global spread of respiratory diseases. In order to reduce the probability of infection of passengers, an improved wells-reily model for cabin passenger risk assessment have been given in this work, the cabin ventilation and passenger nose and mouth orientation were considered and the effectiveness of the model was verified with published data. And the association between load factor, empty seat use scheme and the number of infected people were finally discussed. The results show the number of infected people is positively correlated with the passenger load factor, and the most suitable load factor can be determined by controlling the final number of infected people with the condition of the epidemic situation in the departure city. The results also show passengers in the window position are less likely to be infected than in the aisle position, and the empty seats are arranged in the aisle can reduce the probability of infection by up to 9.11%. By using the model, the airlines can seek the full load factor threshold and seat use scheme to improve economic benefits and reduce the probability of infection of passengers.
DOI: 10.5281/zenodo.6838482
title: Experimental data: Low-velocity out-of-plane impact tests on double-wythe unreinforced brick masonry walls instrumented with optical measurements

description: This dataset includes the results of laboratory impact tests conducted on natural-scale double-wythe unreinforced brick masonry walls. The walls were spanning vertically between two reinforced concrete slabs and were subjected to low-velocity drop-weight pendulum tests in which they were repeatedly hit until the opening of a breach in the center of the wall. The tests were instrumented with both hard-wired and optical measurements, the latter consisting of high-speed cameras and digital image correlation techniques. Investigated in these tests were the out-of-plane response of the walls and their capacity to resist the impacts. The axial load applied on the top of the walls was varied for two wall configurations and monitored throughout the tests to study the effect of arching on the failure mechanism produced and number of repeated hits needed to open the breach. Of interest was also the evidence of cracking, more specifically the way it initiated on the undamaged walls and next propagated upon consecutive hits. The data generated from the tests is made here available and documented to support further investigations on masonry structures subjected to extreme actions. The dataset includes four ZIP files, ordered from 01 to 05, along with an auxiliary PDF document describing the content and organization of the data. Test implementation and test results that are built upon this data are presented and discussed in the following research article: Godio M, Flansbjer M, Williams Portal N (2023) Low-velocity out-of-plane impact tests on double-wythe unreinforced brick masonry walls instrumented with optical measurements, International Journal of Impact Engineering To cite this data in your work please refer to the article. The Authors
description: COPYRIGHT 2022 RISE Research Institutes of Sweden. THIS MATERIAL IS LICENCED UNDER THE CREATIVE COMMONS ATTRIBUTION-SHAREALIKE 4.0 INTERNATIONAL (CC BY-SA 4.0).