cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7943629
title: Roles of regional transport and vertical mixing in aerosol pollution in Shanghai over the COVID-19 lockdown period observed above urban canopy

description: Abstract Regional transport and vertical mixing are important for aerosol pollution of megacities, but their roles are often challenging to assess via ground observations. In this study, we measured aerosol chemical composition simultaneously above urban canopy (Shanghai Tower, 609 m), a site representative of aerosols from regional scale, and a nearby ground site and investigated the roles of regional transport and vertical mixing over 2020 COVID-19 lockdown period (Jan.1-Apr. 18), when local emissions were first drastically reduced and then recovered. During the lockdown period, regional transport was the major source of most aerosol species (organics, NO<sub>3</sub><sup>-</sup>, SO<sub>4</sub><sup>2-</sup>, and NH<sub>4</sub><sup>+</sup>) at both heights according to the high correlation coefficients (R=0.81~0.87) between both heights. Correlation coefficients and vertical ratios (609 m/ground) of most aerosol components showed similar diurnal variations with the evolution of planetary boundary layer height, indicating the role of vertical mixing in aerosol pollution. Moreover, the concentrations of aerosol components at 609 m generally preceded those at ground level by 1~2 h, indicating that aerosols were first transported at upper boundary layer, and then were mixed downwards to ground level. At 609 m, highly oxidized oxygenated organic aerosol (OOA; a surrogate of secondary organic aerosol (SOA)) dominated in organic aerosol (≥75%). The high correlations (R=0.96) between OOA and hydrocarbon-like organic aerosol (HOA; a surrogate of primary organic aerosol (POA)) at 609 m indicated that they originated similarly from regional transport. This study highlights the importance of regional joint prevention and control of pollutant emissions and observation above urban canopy. The data files are provided for readers to evaluate this research.
DOI: 10.5281/zenodo.7944402
title: Roles of regional transport and vertical mixing in aerosol pollution in Shanghai over the COVID-19 lockdown period observed above urban canopy

description: Abstract Regional transport and vertical mixing are important for aerosol pollution of megacities, but their roles are often challenging to assess via ground observations. In this study, we measured aerosol chemical composition simultaneously above urban canopy (Shanghai Tower, 609 m), a site representative of aerosols from regional scale, and a nearby ground site and investigated the roles of regional transport and vertical mixing over 2020 COVID-19 lockdown period (Jan.1-Apr. 18), when local emissions were first drastically reduced and then recovered. During the lockdown period, regional transport was the major source of most aerosol species (organics, NO<sub>3</sub><sup>-</sup>, SO<sub>4</sub><sup>2-</sup>, and NH<sub>4</sub><sup>+</sup>) at both heights according to the high correlation coefficients (R=0.81~0.87) between both heights. Correlation coefficients and vertical ratios (609 m/ground) of most aerosol components showed similar diurnal variations with the evolution of planetary boundary layer height, indicating the role of vertical mixing in aerosol pollution. Moreover, the concentrations of aerosol components at 609 m generally preceded those at ground level by 1~2 h, indicating that aerosols were first transported at upper boundary layer, and then were mixed downwards to ground level. At 609 m, highly oxidized oxygenated organic aerosol (OOA; a surrogate of secondary organic aerosol (SOA)) dominated in organic aerosol (≥75%). The high correlations (R=0.96) between OOA and hydrocarbon-like organic aerosol (HOA; a surrogate of primary organic aerosol (POA)) at 609 m indicated that they originated similarly from regional transport. This study highlights the importance of regional joint prevention and control of pollutant emissions and observation above urban canopy. The data files are provided for readers to evaluate this research.
DOI: 10.6084/m9.figshare.22194535.v4
title: FEEDS database

description: MEROPS database and DIAMOND builded file to use in the FEEDS tools.
DOI: 10.5281/zenodo.7936728
title: Data example and code used in the publication "Is transport of microplastics different from that of mineral dust? Results from idealized wind tunnel studies"

description: Background The code labels microspheres and counts them. Further, the code determines which microspheres are independent of microsphere-microsphere collisions by their relative position to the other microspheres in an image. Images were taken with a full-frame visual camera (Sony Alpha 7RII) with a long-distance-microscopy lens (K2 DistaMax). Description of the dataset image_data_all.zip contains 228 tif-format images taken in a single experiment the images show borosilicate microspheres with diameters from 63 to 75 µm during the experiment, the microspheres are detached from the substrate and are transported out of the image functions_particle_labeling.jl contains all necessary functions for particle labeling analysis_protocol.jl is an example, that first determines a color threshold, and then labels all microspheres in all images stored in "image_data_all/substrate_a/image_data_single_experiment" post_processing_visualisation.R is an r-script, that reads the output of analysis_protocol.jl and demonstrates how logistic functions were fitted to the data We used julia 1.8.5 and R 4.3.0.
description: This project was funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation), Project Number 391977956, SFB 1357, subprojects B05.
description: {"references": ["Bezanson, J., Edelman, A., Karpinski, S., and Shah, V.B. (2017). Julia: A Fresh Approach to Numerical Computing. SIAM Rev 59 (1):65\u201398. doi:10.1137/141000671.", "R Core Team (2023). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria."]}
DOI: 10.5281/zenodo.7936729
title: Data example and code used in the publication "Is transport of microplastics different from that of mineral dust? Results from idealized wind tunnel studies"

description: Background The code labels microspheres and counts them. Further, the code determines which microspheres are independent of microsphere-microsphere collisions by their relative position to the other microspheres in an image. Images were taken with a full-frame visual camera (Sony Alpha 7RII) with a long-distance-microscopy lens (K2 DistaMax). Description of the dataset image_data_all.zip contains 228 tif-format images taken in a single experiment the images show borosilicate microspheres with diameters from 63 to 75 µm during the experiment, the microspheres are detached from the substrate and are transported out of the image functions_particle_labeling.jl contains all necessary functions for particle labeling analysis_protocol.jl is an example, that first determines a color threshold, and then labels all microspheres in all images stored in "image_data_all/substrate_a/image_data_single_experiment" post_processing_visualisation.R is an r-script, that reads the output of analysis_protocol.jl and demonstrates how logistic functions were fitted to the data We used julia 1.8.5 and R 4.3.0.
description: This project was funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation), Project Number 391977956, SFB 1357, subprojects B05.
description: {"references": ["Bezanson, J., Edelman, A., Karpinski, S., and Shah, V.B. (2017). Julia: A Fresh Approach to Numerical Computing. SIAM Rev 59 (1):65\u201398. doi:10.1137/141000671.", "R Core Team (2023). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria."]}
DOI: 10.24339/390923d7-fa26-4324-b76d-0a5b9dc80969
title: AMA: An Ageing Task Migration Aware for High-Performance Computing

description: The Dark-Silicon challenge poses a design problem for future many-core systems. As a result of this, several techniques have been introduced to improve the number of processing elements that can be powered on. One of the techniques employed by many is Task Migration. In this paper, An Ageing Task Migration Aware for High-Performance Computing (AMA) is proposed to improve the lifetime of nodes. The proposed method determines which clusters applications are mapped to and, migrates high-demand tasks amongst nodes to improve the lifetime at every epoch. Experimental results show that the proposed method outperforms state-of-the-art techniques by more than 10%.
DOI: 10.5255/ukda-sn-856523
title: Conceptualising Marine Identities, 2022

description: The research sought to collaboratively lay the foundations of an academic understanding of how the ocean can form part of a person’s identity, enabling future study of the role marine identities play in shaping the relationships people have with the ocean. An international group of marine researchers and practitioners came together in a workshop to co-produce marine identity conceptualisations. This process was supported by a photovoice collection contributed to by participants. Collaborators recruited to this project shared up to four images representing marine/ocean identity. All ‘photovoice’ contributions were compiled into an album and shared with participants prior to a co-development workshop. Images with appropriate permission to share are included in this data deposit. An online co-development workshop was held in November 2022 and was attended by 26 participants working in marine research and/or practice. Participants contributing to the photovoice and/or the workshop came from 17 different nations.
DOI: 10.6084/m9.figshare.22194535.v5
title: FEEDS database

description: MEROPS database and DIAMOND builded file to use in the FEEDS tools.
DOI: 10.5517/ccdc.csd.cc279b74
title: CCDC 2064545: Experimental Crystal Structure Determination

description: Related Article: Wentao Han, Xing Ma, Jingxue Wang, Fucheng Leng, Chenfan Xie, Hai-Long Jiang|2023|J.Am.Chem.Soc.|145|9665|doi:10.1021/jacs.3c00957
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc279b85
title: CCDC 2064546: Experimental Crystal Structure Determination

description: Related Article: Wentao Han, Xing Ma, Jingxue Wang, Fucheng Leng, Chenfan Xie, Hai-Long Jiang|2023|J.Am.Chem.Soc.|145|9665|doi:10.1021/jacs.3c00957
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc282b8z
title: CCDC 2087610: Experimental Crystal Structure Determination

description: Related Article: Mohana Reddy Mutra, Jing Li, Yu-Ting Chen, Jeh-Jeng Wang|2022|Chem.-Eur.J.|28|e202200742|doi:10.1002/chem.202200742
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc285n59
title: CCDC 2090800: Experimental Crystal Structure Determination

description: Related Article: Chaiyon Chaiwai, Wipaporn Kitisriworaphan, Sujinda Petdee, Phattananawee Nalaoh, Thanyarat Chawanpunyawat, Pongsakorn Chasing, Thanaporn Manyum, Taweesak Sudyoadsuk, Vinich Promarak|2023|Dyes Pigm.|216|111311|doi:10.1016/j.dyepig.2023.111311
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc28hht3
title: CCDC 2100275: Experimental Crystal Structure Determination

description: Related Article: Chao Liu, Xiangwen Tan, Lingzhi Zhan, Yaru Jing, Wanqing Wu, Zhuofeng Ke, Huanfeng Jiang|2022|Angew.Chem.,Int.Ed.|61|e202215020|doi:10.1002/anie.202215020
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc27v059
title: CCDC 2080570: Experimental Crystal Structure Determination

description: Related Article: Tapasi Chand, Laxmikanta Khamari, Deepak Chopra, Saptarshi Mukherjee, Manmohan Kapur|2022|Chem.-Eur.J.|28|e202200723|doi:10.1002/chem.202200723
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25403/upresearchdata.22067801
title: Molecular characteristics (resistance, virulence and genetic relatedness) of S. aureus collected from South African private and public clinical settings

description: This dataset describes the Multiplex polymerase chain (M-PCR) assay and whole-genome sequencing (WGS) results for the detected genes. The data also describes detailed antimicrobial susceptibilty (AST) results as well as demographic information from which the isolates were collected. The figures summarises the overall results for the study.
DOI: 10.25403/upresearchdata.22067801.v1
title: Molecular characteristics (resistance, virulence and genetic relatedness) of S. aureus collected from South African private and public clinical settings

description: This dataset describes the Multiplex polymerase chain (M-PCR) assay and whole-genome sequencing (WGS) results for the detected genes. The data also describes detailed antimicrobial susceptibilty (AST) results as well as demographic information from which the isolates were collected. The figures summarises the overall results for the study.
DOI: 10.6084/m9.figshare.22889792
title: Tabella 1. Gli appezzamenti.pdf

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889795.v1
title: Tabella 2. I proprietari.pdf

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889807
title: Tabella 3. Elenco delle proprietà dei privati.pdf

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889807.v1
title: Tabella 3. Elenco delle proprietà dei privati.pdf

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889792.v1
title: Tabella 1. Gli appezzamenti.pdf

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889795
title: Tabella 2. I proprietari.pdf

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889810
title: Tabella 1. Gli appezzamenti.csv

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889810.v1
title: Tabella 1. Gli appezzamenti.csv

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889819.v1
title: Tabella 2. I proprietari.csv

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889819
title: Tabella 2. I proprietari.csv

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.5281/zenodo.7708994
title: MOM5 FAFMIP datasets for the study of Tropical Pacific Ocean Heat Budget in Control, FAF-STRESS and FAF-HEAT experiments

description: Data sets for reproducing results in "Tropical Pacific Ocean Heat Budget and the Role of Shallow and Deep Circulations" by Navarro-Labastida and Farneti, including all time-mean temperature tendencies and Meridional Overturning mass transports in density space for both Control and perturbation experiments.
DOI: 10.5281/zenodo.7708995
title: MOM5 FAFMIP datasets for the study of Tropical Pacific Ocean Heat Budget in Control, FAF-STRESS and FAF-HEAT experiments

description: Data sets for reproducing results in "Tropical Pacific Ocean Heat Budget and the Role of Shallow and Deep Circulations" by Navarro-Labastida and Farneti, including all time-mean temperature tendencies and Meridional Overturning mass transports in density space for both Control and perturbation experiments.
DOI: 10.6084/m9.figshare.22889822
title: Tabella 4. Elenco delle proprietà degli Enti.pdf

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.6084/m9.figshare.22889822.v1
title: Tabella 4. Elenco delle proprietà degli Enti.pdf

description: BANCHE_DATI_ALFANUMERICHE
DOI: 10.5281/zenodo.7351548
title: MD trajectories - "Hidden GPCR structural transitions addressed by multiple walker supervised molecular dynamics (mwSuMD)" - https://www.biorxiv.org/content/10.1101/2022.10.26.513870v1

description: MD trajectories relative to the preprint "Hidden GPCR structural transitions addressed by multiple walker supervised molecular dynamics (mwSuMD)" For a summary of all the simulations performed and the settings employed see Table S1 of the preprint: https://www.biorxiv.org/content/10.1101/2022.10.26.513870v1
description: {"references": ["Deganutti, G. et al; BioRxiv. 2022 Oct 27 DOI: 10.1101/2022.10.26.513870"]}
DOI: 10.5281/zenodo.7944479
title: Updated MD trajectories for "Hidden GPCR structural transitions addressed by multiple walker supervised molecular dynamics (mwSuMD)"

description: MD trajectories relative to the preprint "Hidden GPCR structural transitions addressed by multiple walker supervised molecular dynamics (mwSuMD)" For a summary of all the simulations performed and the settings employed see Table S1 of the preprint: https://www.biorxiv.org/content/10.1101/2022.10.26.513870v1
description: {"references": ["Deganutti, G. et al; BioRxiv. 2022 Oct 27 DOI: 10.1101/2022.10.26.513870"]}
DOI: 10.6084/m9.figshare.22890332
title: ctrl_S11.bw

description: Commercial Takara Test fragmented DNA, aligned to human hg19 reference genome. BigWig coverage track.
DOI: 10.6084/m9.figshare.22890332.v1
title: ctrl_S11.bw

description: Commercial Takara Test fragmented DNA, aligned to human hg19 reference genome. BigWig coverage track.
DOI: 10.6084/m9.figshare.22890554
title: Takara fragmented DNA

description: Test DNA
DOI: 10.6084/m9.figshare.22890554.v1
title: Takara fragmented DNA

description: Test DNA
DOI: 10.5281/zenodo.7944551
title: fastq files

description: Fake fastq files for bioinformatics course
DOI: 10.5281/zenodo.7944550
title: fastq files

description: Fake fastq files for bioinformatics course
DOI: 10.25505/fiz.icsd.cc2fy75t
title: CSD 2262416: Experimental Crystal Structure Determination

description: Related Article: SANDRA WALHA|2023|ICSD Communication|||
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.34740/kaggle/dsv/5707479
title: Cyclistics Bikeshare Cleaned
DOI: 10.5281/zenodo.7941609
title: Dataset for Preferred and actual involvement of caregivers in oncologic treatment decision-making: A systematic review

description: This dataset shows the search that was done for the publication Preferred and actual involvement of caregivers in oncologic treatment decision-making: A systematic review, which can be found at https://doi.org/10.1016/j.jgo.2023.101525.
DOI: 10.5281/zenodo.7941610
title: Dataset for Preferred and actual involvement of caregivers in oncologic treatment decision-making: A systematic review

description: This dataset shows the search that was done for the publication Preferred and actual involvement of caregivers in oncologic treatment decision-making: A systematic review, which can be found at https://doi.org/10.1016/j.jgo.2023.101525.
DOI: 10.25345/c5bv7b565
title: MassIVE MSV000091974 - Metabolomics_Triticale_Dataset
title: Triticale wheat grain metabolomic data set. Obtained on a mono-quadrupole GC-MS instrument.
DOI: 10.7488/ds/3860
title: Innervation of the developing kidney in vivo and in vitro

description: Within the adult kidney, renal neurites can be observed alongside the arteries where they play a role in regulating blood flow. However, their role and localization during development has so far not been described in detail. In other tissues, such as the skin of developing limb buds, neurons play an important role during arterial differentiation. Here we aim to investigate whether renal nerves could potentially carry out a similar role during arterial development in the mouse kidney. In order to do so, we used whole mount immunofluorescence staining to identify whether the timing of neuronal innervation correlates with the recruitment of arterial smooth muscle cells. Our results show that neurites innervate the kidney between day 13.5 and 14.5 of development, arriving after the recruitment of smooth muscle actin-positive cells to the renal arteries. It can therefore be concluded that neurons are not required to initiate arterial smooth muscle cell recruitment within the kidney. The dataset is related to the upcoming publication Tarnick et al. (in submission), "Innervation of the developing kidney in vivo and in vitro".
description: These files contain: • original images used for the figures presented in the paper. • a video of a 3D reconstruction (a still of which appears in the paper). • the Excel spreadsheets used to create graphs in the paper are also present.
DOI: 10.5281/zenodo.7928537
title: SpliceAI_rocksdb_hg38_chr20

description: SpliceAI RocksDB for chromosome 20 of hg38 as used in the AbSplice publication: https://www.nature.com/articles/s41588-023-01373-3 Precomputed SpliceAI scores for all SNVs and indels up to 4 nucleotides are stored in this database. To use this database for fast computation of SpliceAI predictions see: https://github.com/gagneurlab/spliceai_rocksdb This is also implemented in the AbSplice package: https://github.com/gagneurlab/absplice This dataset includes SpliceAI scores. The scores are free for academic and not-for-profit use; other use requires a commercial license from Illumina, Inc., see the GitHub repository of SpliceAI: https://github.com/Illumina/SpliceAI/tree/master
DOI: 10.5281/zenodo.7928536
title: SpliceAI_rocksdb_hg38_chr20

description: SpliceAI RocksDB for chromosome 20 of hg38 as used in the AbSplice publication: https://www.nature.com/articles/s41588-023-01373-3 Precomputed SpliceAI scores for all SNVs and indels up to 4 nucleotides are stored in this database. To use this database for fast computation of SpliceAI predictions see: https://github.com/gagneurlab/spliceai_rocksdb This is also implemented in the AbSplice package: https://github.com/gagneurlab/absplice This dataset includes SpliceAI scores. The scores are free for academic and not-for-profit use; other use requires a commercial license from Illumina, Inc., see the GitHub repository of SpliceAI: https://github.com/Illumina/SpliceAI/tree/master