cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7488/ds/7477
title: Transcription modulates chromatin dynamics and locus configuration sampling

description: In living cells the 3D structure of gene loci is dynamic, but this is not revealed by 3C and FISH experiments in fixed samples, leaving a significant gap in our understanding. To overcome these limitations, we applied the “highly predictive heteromorphic polymer” (HiP-HoP) model to determine chromatin fibre mobility at the Pax6 locus in three mouse cell lines with different transcription states. While transcriptional activity minimally affects movement of 40kbp regions, we observed that motion of smaller 1kbp regions depends strongly on local disruption to chromatin fibre structure marked by H3K27 acetylation. This also significantly influenced locus configuration dynamics by modulating protein mediated promoter-enhancer loops. Importantly these simulations indicate that chromatin dynamics are sufficiently fast to sample all possible locus conformations within minutes, generating wide dynamic variability within single cells. This combination of simulation and experimental validation provides insight on how transcriptional activity influences chromatin structure and gene dynamics. This dataset contains simulation results, FISH data, and processed data underlying the figures of the associated paper.
description: Details of the data are provided in the README text file. Data relating to each figure in the related manuscript are provided in a separate gzipped tar archive, and each of these contains an additional README text files with further details.
DOI: 10.5281/zenodo.8050007
title: DR-Benchmark

description: DR-Benchmark
DOI: 10.5281/zenodo.8050006
title: DR-Benchmark

description: DR-Benchmark
DOI: 10.34740/kaggle/ds/3448193
title: GTFS Traffic Prediction Dataset
DOI: 10.4121/bead775f-2674-477a-85b5-cf8446291348
title: Data underlying the publication: Solar Cooling Integrated Façades: Key perceived enabling factors and prospects of future applications

description: This study is part of an ongoing Ph.D. research in the Department of Architectural Engineering + Technology, Faculty of Architecture and the Built Environment, Delft University of Technology (TU Delft), the Netherlands. The study was approved by the Human Research Ethics Committee (HREC) at TU Delft on 04-April-2022. The research team obtained the informed consent from all participants involved in the study. The authors followed the committee regulations, including the interview tools for recording as well as the obtaining the interviewee’s signature in a consent form. The interviewees signed the consent form and agreed on allowing audio-recording of the interviews that will be stored on the institutional storage drive where it will has a restricted access only among the study team. Furthermore, they agreed on using, processing, and publishing the anonymized transcriptions of the interviews. The audio-recording for the virtual and in-person interviews was conducted by Microsoft Teams platform and Tascam DR-05 digital recorder, respectively. The study aimed to identify main factors enabling the widespread integration of solar cooling technologies in façades from the point of view of various experts. An interview guide was designed to tackle main aspects to be considered for supporting the widespread application, including technical &product-related, financial-related, and process &stakeholder-related aspects. The qualitative interviews in this study tackled practitioners and applied researchers that are experts in the European building industry. The interviews were based on a purposive, non-probabilistic, sampling. The main criteria considered for selecting interviewees include that experts should achieve one or more of the following conditions to ensure their competence: Involvement in the façade design and construction industry (design, production, assembly, and/or operation/maintenance). Involvement in projects related to the application or façade integration of solar/solar cooling technologies. Involvement in the research& development (R&D) or applied research in relevant fields, such as multi-functional façades, including prototyping façade products integrating solar/solar cooling technologies or other relevant subject.The data analysis involved a hybrid approach, combining deductive and inductive coding. Taking into account all of the previously mentioned criteria, the finalized number of interviews was 23. The interviews were conducted between 19-May-2022 and 26-September-2022.
DOI: 10.4121/bead775f-2674-477a-85b5-cf8446291348.v1
title: Data underlying the publication: Solar Cooling Integrated Façades: Key perceived enabling factors and prospects of future applications

description: This study is part of an ongoing Ph.D. research in the Department of Architectural Engineering + Technology, Faculty of Architecture and the Built Environment, Delft University of Technology (TU Delft), the Netherlands. The study was approved by the Human Research Ethics Committee (HREC) at TU Delft on 04-April-2022. The research team obtained the informed consent from all participants involved in the study. The authors followed the committee regulations, including the interview tools for recording as well as the obtaining the interviewee’s signature in a consent form. The interviewees signed the consent form and agreed on allowing audio-recording of the interviews that will be stored on the institutional storage drive where it will has a restricted access only among the study team. Furthermore, they agreed on using, processing, and publishing the anonymized transcriptions of the interviews. The audio-recording for the virtual and in-person interviews was conducted by Microsoft Teams platform and Tascam DR-05 digital recorder, respectively. The study aimed to identify main factors enabling the widespread integration of solar cooling technologies in façades from the point of view of various experts. An interview guide was designed to tackle main aspects to be considered for supporting the widespread application, including technical &product-related, financial-related, and process &stakeholder-related aspects. The qualitative interviews in this study tackled practitioners and applied researchers that are experts in the European building industry. The interviews were based on a purposive, non-probabilistic, sampling. The main criteria considered for selecting interviewees include that experts should achieve one or more of the following conditions to ensure their competence: Involvement in the façade design and construction industry (design, production, assembly, and/or operation/maintenance). Involvement in projects related to the application or façade integration of solar/solar cooling technologies. Involvement in the research& development (R&D) or applied research in relevant fields, such as multi-functional façades, including prototyping façade products integrating solar/solar cooling technologies or other relevant subject.The data analysis involved a hybrid approach, combining deductive and inductive coding. Taking into account all of the previously mentioned criteria, the finalized number of interviews was 23. The interviews were conducted between 19-May-2022 and 26-September-2022.
DOI: 10.5281/zenodo.8082195
title: Specimens data of Japanese Meloe spp.

description: This is a supplementary file of Okano et al. (in prep.) titled "Revision of the genus Meloe Linnaeus (Coleoptera: Meloidae) of Japan".
DOI: 10.5281/zenodo.8082194
title: Specimens data of Japanese Meloe spp.

description: This is a supplementary file of Okano et al. (in prep.) titled "Revision of the genus Meloe Linnaeus (Coleoptera: Meloidae) of Japan".
DOI: 10.5517/ccdc.csd.cc28wrgd
title: CCDC 2112044: Experimental Crystal Structure Determination

description: Related Article: Prodip Howlader, Shakil Ahmed, Surajit Mondal, Ennio Zangrando, Partha Sarathi Mukherjee|2022|Inorg.Chem.|61|8121|doi:10.1021/acs.inorgchem.2c01081
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.cc28wrhf
title: CCDC 2112045: Experimental Crystal Structure Determination

description: Related Article: Prodip Howlader, Shakil Ahmed, Surajit Mondal, Ennio Zangrando, Partha Sarathi Mukherjee|2022|Inorg.Chem.|61|8121|doi:10.1021/acs.inorgchem.2c01081
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.cc2g9xpd
title: CCDC 2273654: Experimental Crystal Structure Determination

description: Related Article: Jessica L. Holmes, Brendan F. Abrahams, Timothy A. Hudson, Keith F. White, Richard Robson, Christopher J. Commons|2023|CSD Communication|||
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: 10.34740/kaggle/dsv/6027900
title: Egypt Gold Prices | Daily Updated
DOI: 10.34740/kaggle/dsv/6027937
title: Global Genomic Neurofibromatosis Neoplasia
DOI: 10.6084/m9.figshare.20026397.v1
title: Mälaren methane concentrations

description: Concentrations of dissolved methane from eleven sampling stations in Lake Mälaren, sampling on five different occasions.
DOI: 10.5281/zenodo.8082223
title: tyrannus_melancholicus_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.8082222
title: tyrannus_melancholicus_zanfona_1.fasta.gz

description: .
DOI: 10.48331/scielodata.hiftcj/mq2xyv
title: database2_urbanskietal.csv

description: :unav
DOI: 10.48331/scielodata.hiftcj/cyyzs7
title: readme.txt

description: :unav
DOI: 10.48331/scielodata.hiftcj/o7y3ko
title: database1_urbanskietal.csv

description: :unav
DOI: 10.48331/scielodata.hiftcj
title: Replication Data for: Length-weight relationship and condition factor for Prochilodus lineatus, an important commercial fish, in contrasting water-quality environments of the middle Tietê River basin, Southeast Brazil

description: This work was carried out with the objective of evaluating the length-weight relationship (LWR), the allometric condition factor (Ka), as well as its correlation with limnological variables for Prochilodus lineatus from the middle Tietê River basin. Fish were collected using gill nets, between December 2016 and October 2019, in two rivers with contrasting environmental conditions, totaling 46 specimens in the highly polluted Tietê River, and 37 in the Peixe River, a relatively well-conserved tributary. Environmental measures were obtained concomitantly to the fish captures. The results showed an isometric growth (b=3.00) for the fish from the Tietê River and a positive allometric growth (b=3.23) for the fish from the Peixe River. The mean value of Ka was, unexpectedly, higher for the main river (Ka=2.63) when compared to its tributary (Ka=2.42), being statistically different from each other. This can be explained by the much higher availability of organic sediments in the main river, resulting from a long-term eutrophication process. Nevertheless, the positive and statistically significant correlations with dissolved oxygen, for both rivers, as well as the negative correlation with electric conductivity for Tietê River, indicate the negative effects of the water quality deterioration on the fish condition factor. Results indicated that P. lineatus, even in a poor-quality environment is capable to maintain good growth rates. The work contributes to the expansion of knowledge about P. lineatus, the fish of higher commercial interest for the anglers of the middle Tietê River basin, which is severely impacted by unsustainable human actions.
DOI: 10.5517/ccdc.csd.cc2bprmf
title: CCDC 2165865: Experimental Crystal Structure Determination

description: Related Article: Jiwei Liu, Zhonglin Wei, Jungang Cao, Dapeng Liang, Yingjie Lin, Haifeng Duan|2023|Tetrahedron|140|133471|doi:10.1016/j.tet.2023.133471
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.cc2c1jpn
title: CCDC 2176221: Experimental Crystal Structure Determination

description: Related Article: Sergey Miltsov, Alexander Yakimansky, Alexander Mitroshin, Vladislav Gurzhiy, Julian Alonso-Chamarro, Mar Puyol|2023|Tetrahedron|140|133485|doi:10.1016/j.tet.2023.133485
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.cc2c8fkn
title: CCDC 2182851: Experimental Crystal Structure Determination

description: Related Article: Si-Si Du, Peng Zhou, Guang-Jian Mei, Shi-Kun Jia, Yuan-Zhao Hua, Min-Can Wang|2023|Tetrahedron|140|133487|doi:10.1016/j.tet.2023.133487
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.cc2dff9l
title: CCDC 2217439: Experimental Crystal Structure Determination

description: Related Article: Jiwei Liu, Zhonglin Wei, Jungang Cao, Dapeng Liang, Yingjie Lin, Haifeng Duan|2023|Tetrahedron|140|133471|doi:10.1016/j.tet.2023.133471
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.cc2f3k48
title: CCDC 2237739: Experimental Crystal Structure Determination

description: Related Article: Olga V. Dyablo, Alexander F. Pozharskii, Valery A. Ozeryanskii, Anna V. Tkachuk, Semyon A. Pozharskii|2023|Tetrahedron|140|133467|doi:10.1016/j.tet.2023.133467
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.cc2f3k59
title: CCDC 2237740: Experimental Crystal Structure Determination

description: Related Article: Olga V. Dyablo, Alexander F. Pozharskii, Valery A. Ozeryanskii, Anna V. Tkachuk, Semyon A. Pozharskii|2023|Tetrahedron|140|133467|doi:10.1016/j.tet.2023.133467
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: 10.5281/zenodo.8082282
title: Isotopic nitrogen fractionation and fermentation products from invitro culture experiments using rumen bacteria

description: Dataset used in the paper titled : The extent of nitrogen isotopic fractionation in rumen bacteria is associated with changes in rumen nitrogen metabolism (DOI: 10.21203/rs.3.rs-2350552/v1). It contains individual data for isotopic nitrogen fractionation and fermentation products from invitro culture experiments using rumen bacteria
DOI: 10.5281/zenodo.8082281
title: Isotopic nitrogen fractionation and fermentation products from invitro culture experiments using rumen bacteria

description: Dataset used in the paper titled : The extent of nitrogen isotopic fractionation in rumen bacteria is associated with changes in rumen nitrogen metabolism (DOI: 10.21203/rs.3.rs-2350552/v1). It contains individual data for isotopic nitrogen fractionation and fermentation products from invitro culture experiments using rumen bacteria
DOI: 10.5281/zenodo.7818025
title: Dataset to the article 'Redox-zoning in high-energy subterranean estuaries as a function of storm floods, temperatures, seasonal groundwater recharge and morphodynamics'

description: This repository contains model input files, and pre- and post-processing scripts for the research article: Janek Greskowiak, Stephan L. Seibert, Vincent E.A. Post, Gudrun Massmann (2023), Redox-zoning in high-energy subterranean estuaries as a function of storm floods, temperatures, seasonal groundwater recharge and morphodynamics, Estuarine, Coastal and Shelf Science, https://doi.org/10.1016/j.ecss.2023.108418 <br> Data: The folder Laserascannerdata_top_and_hydr_heads contains five cross-shore topography profiles of a high energy beach on Spiekeroog Island, Germany, including a python-script that assembles them to a daily times-series over one year and that calculates the tide-averaged hydraulic heads in the intertidal zone as detailed in Greskowiak and Massmann (2021), The impact of morphodynamics and storm floods on pore water flow and transport in the subterranean estuary, Hydrological Processes, 35:e14050, https://doi.org/10.1002/hyp.14050 <br> Model input: The file Dynamod_1_redox_basecase.zip contains a folder with the model input textfiles (SEAWAT and PHT3D) for the case that considers all dynamic influence factors investigated in the paper, i.e., seasonal meteoric groundwater recharge, stormfloods, temperature-dependence of reaction rates and morphodynamics. The files pht3d_ph.dat and pht3d_datab.dat are PHT3D model specific files defining the reacants and reactions, and have to be copied into the model folder before PHT3D is started. <br> Run models: First the SEAWAT model needs to be run with the name file 'Dynamod_1_redox_basecase.nam'. This creates the mt3d link file 'mt3d_link.ftl'. After that, PHT3D has to be started with the name file 'pht3d.nam' Note that running the models will generate 22 Gybte output. <br> Pre-processing: All model input files were generated with the python-script Dynamod_1_redox_basebase.py using Flopy, a python-based groundwater modelling user-interface:<br> https://www.usgs.gov/software/flopy-python-package-creating-running-and-post-processing-modflow-based-models <br> Post-processing: For the figures 3,4 and S1, S2 in the paper, the corresponding python scripts are provided in this database. Note that with respect to Figures 5 and S3, only the results for the case with all dynamic influence factors (Figure S3_h) are being plotted. Other model output:<br> Animation_A1_Dynamod_redox.mp4 is a video animation showing the dynamic modelled salinity and temperature distribution, and redox zoning in the subterranean estuary all dynamic influence factors investigated in the paper, i.e., seasonal meteoric groundwater recharge, stormfloods, temperature-dependence of reaction rates and morphodynamics.
DOI: 10.5281/zenodo.7818024
title: Dataset to the article 'Redox-zoning in high-energy subterranean estuaries as a function of storm floods, temperatures, seasonal groundwater recharge and morphodynamics'

description: This repository contains model input files, and pre- and post-processing scripts for the research article: Janek Greskowiak, Stephan L. Seibert, Vincent E.A. Post, Gudrun Massmann (2023), Redox-zoning in high-energy subterranean estuaries as a function of storm floods, temperatures, seasonal groundwater recharge and morphodynamics, Estuarine, Coastal and Shelf Science, https://doi.org/10.1016/j.ecss.2023.108418 <br> Data: The folder Laserascannerdata_top_and_hydr_heads contains five cross-shore topography profiles of a high energy beach on Spiekeroog Island, Germany, including a python-script that assembles them to a daily times-series over one year and that calculates the tide-averaged hydraulic heads in the intertidal zone as detailed in Greskowiak and Massmann (2021), The impact of morphodynamics and storm floods on pore water flow and transport in the subterranean estuary, Hydrological Processes, 35:e14050, https://doi.org/10.1002/hyp.14050 <br> Model input: The file Dynamod_1_redox_basecase.zip contains a folder with the model input textfiles (SEAWAT and PHT3D) for the case that considers all dynamic influence factors investigated in the paper, i.e., seasonal meteoric groundwater recharge, stormfloods, temperature-dependence of reaction rates and morphodynamics. The files pht3d_ph.dat and pht3d_datab.dat are PHT3D model specific files defining the reacants and reactions, and have to be copied into the model folder before PHT3D is started. <br> Run models: First the SEAWAT model needs to be run with the name file 'Dynamod_1_redox_basecase.nam'. This creates the mt3d link file 'mt3d_link.ftl'. After that, PHT3D has to be started with the name file 'pht3d.nam' Note that running the models will generate 22 Gybte output. <br> Pre-processing: All model input files were generated with the python-script Dynamod_1_redox_basebase.py using Flopy, a python-based groundwater modelling user-interface:<br> https://www.usgs.gov/software/flopy-python-package-creating-running-and-post-processing-modflow-based-models <br> Post-processing: For the figures 3,4 and S1, S2 in the paper, the corresponding python scripts are provided in this database. Note that with respect to Figures 5 and S3, only the results for the case with all dynamic influence factors (Figure S3_h) are being plotted. Other model output:<br> Animation_A1_Dynamod_redox.mp4 is a video animation showing the dynamic modelled salinity and temperature distribution, and redox zoning in the subterranean estuary all dynamic influence factors investigated in the paper, i.e., seasonal meteoric groundwater recharge, stormfloods, temperature-dependence of reaction rates and morphodynamics.