cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.8351123
title: A geographical dataset of the Gor River megalithic landscape

description: This is the dataset that have served as the basis for the study of the spatial patterns of the megaliths of the Gor River Valley (Granada, Spain) as part of a PhD dissertation presented in July 2023 at the University of Granada and carried out by the author Carolina Cabrero. This complex, of which 151 dolmens are currently preserved, is one of the largest in Europe, standing out fundamentally because of its density. This feature undoubtedly points out the importance of symbolic territorial control searched by Late Prehistoric communities that built these graves. The geographical databases here presented are two: on the one hand, the database made up of up to 70 quantitative and qualitative variables that has been used to carry out the bulk of the doctoral study on the 151 referred dolmens and, on the other hand, the database made up of a total of 230 points identified through the review of DTMs based on LiDAR data and which could correspond totally or partially to burial mounds that have practically disappeared or are poorly preserved on the surface.
DOI: 10.5281/zenodo.8351124
title: A geographical dataset of the Gor River megalithic landscape

description: This is the dataset that have served as the basis for the study of the spatial patterns of the megaliths of the Gor River Valley (Granada, Spain) as part of a PhD dissertation presented in July 2023 at the University of Granada and carried out by the author Carolina Cabrero. This complex, of which 151 dolmens are currently preserved, is one of the largest in Europe, standing out fundamentally because of its density. This feature undoubtedly points out the importance of symbolic territorial control searched by Late Prehistoric communities that built these graves. The geographical databases here presented are two: on the one hand, the database made up of up to 70 quantitative and qualitative variables that has been used to carry out the bulk of the doctoral study on the 151 referred dolmens and, on the other hand, the database made up of a total of 230 points identified through the review of DTMs based on LiDAR data and which could correspond totally or partially to burial mounds that have practically disappeared or are poorly preserved on the surface.
DOI: 10.34740/kaggle/dsv/6818370
title: COVID Vaccination in World (updated daily)
DOI: 10.5281/zenodo.10050006
title: Three-layer exchange flow patterns driven by differential stratification in a micro-tidal fjord

description: The datasets show transects at the mouth and along the Swedish Gullmar Fjord. They are taken from a realistic 3D model and were used to investigate three-layer exchange flows at the sill of the fjord.
DOI: 10.5281/zenodo.10050005
title: Three-layer exchange flow patterns driven by differential stratification in a micro-tidal fjord

description: The datasets show transects at the mouth and along the Swedish Gullmar Fjord. They are taken from a realistic 3D model and were used to investigate three-layer exchange flows at the sill of the fjord.
DOI: 10.6084/m9.figshare.24269353.v1
title: Systems_DNN_TF_ADN_OPF

description: We provide system parameters of two test systems that are used to verify our DNN-based method in the TF-ADN-OPF problem.
DOI: 10.5281/zenodo.10049995
title: Effects of Parametric Uncertainty on ITCZ Precipitation: Understanding the Role of Interactions between Parameters in Reducing the Double ITCZ Bias

description: Data used to draw figures in the manuscript.
DOI: 10.5281/zenodo.10049996
title: Effects of Parametric Uncertainty on ITCZ Precipitation: Understanding the Role of Interactions between Parameters in Reducing the Double ITCZ Bias

description: Data used to draw figures in the manuscript.
DOI: 10.5281/zenodo.6340159
title: Datasets for the integration of MT data with magnetic inversion: proof-of-concept using synthetic data and field application

description: This dataset is a companion dataset to the manuscript "Utilisation of probabilistic MT inversions to constrain magnetic data inversion: proof-of-concept and field application", by Jérémie Giraud, Hoël Seillé, Mark D. Lindsay, Gerhard Visser, Vitaliy Ogarko, and Mark W. Jessel. It contains models and data shown in the paper.The document was submitted for publication in Solid Earth: https://se.copernicus.org/preprints/se-2021-124/se-2021-124-manuscript-version2.pdfThe folder organisation is as follows, where bold refers to folders and subfolders, and text in italic corresponds to a succinct description of the contents.|-- Dataset_synth  > synthetic dataset and results|   |-- Mag  >  magnetic data and models: inversion and results |   |   |-- domains  >  contains the files used to define domains for inversion|   |   |-- inversion results  >  contains subfolders with inversion results for different cases |   |   |   |-- case a |   |   |   |-- case b|   |   |   |-- case c|   |   |   |-- case d|   |   |   |-- case e|   |   |   |-- case f  |   |   |-- membership values  >  contain files with membership values for the cases (a)-(f)|   |   |-- responses  >  simulated data with and without noise|   |   |-- true model  >  true model used for simulation|   |-- MT  >  MT probabilities, sites information and models|   |   |-- probabilities  >  MT-derived probabilities|   |   |-- responses  >  simulated MT data|   |   |   |-- edi_noise_5p  >  5% noise-contaminated data (*.edi files)|   |   |   |-- MansfieldMT_fwd.dat  >  uncontaminated (ModEM format *.dat file)|   |   |-- model  >  model in ModEM format (*.mod) and WinGLink format (.out) formats|   |   |-- coordinates.txt  >  location of MT sites|   |-- Rock units  >  contains the file with indices of the rock unit model, in 3D, of the modified Mansfield model. The indices are stored as a column vector. |-- Dataset_field  > field dataset|   |-- Mag  >  magnetic data and models: inversion and results|   |   |-- admm constraints  >  file with bound constraints used in cases 3, 4, and adjusted case 4.|   |   |-- data  >  magnetic data for inversion, x, y, z, data column format.|   |   |-- inverted models  >  folders containing inversion results for the different cases tested|   |   |   |-- case 1 |   |   |   |-- case 2|   |   |   |-- case 3|   |   |   |-- case 4|   |   |   |-- case 4 adjusted|   |-- MT  >  MT probabilities and sites information|   |   |-- probabilities  >  MT probabilities of interface and rock units (*.txt files)|   |   |-- coord_L26_sites  >  File containing the location of sites along ligne L26
DOI: 10.5281/zenodo.6340158
title: Datasets for the integration of MT data with magnetic inversion: proof-of-concept using synthetic data and field application

description: This dataset is a companion dataset to the manuscript "Utilisation of probabilistic MT inversions to constrain magnetic data inversion: proof-of-concept and field application", by Jérémie Giraud, Hoël Seillé, Mark D. Lindsay, Gerhard Visser, Vitaliy Ogarko, and Mark W. Jessel. It contains models and data shown in the paper.The document was submitted for publication in Solid Earth: https://se.copernicus.org/preprints/se-2021-124/se-2021-124-manuscript-version2.pdfThe folder organisation is as follows, where bold refers to folders and subfolders, and text in italic corresponds to a succinct description of the contents.|-- Dataset_synth  > synthetic dataset and results|   |-- Mag  >  magnetic data and models: inversion and results |   |   |-- domains  >  contains the files used to define domains for inversion|   |   |-- inversion results  >  contains subfolders with inversion results for different cases |   |   |   |-- case a |   |   |   |-- case b|   |   |   |-- case c|   |   |   |-- case d|   |   |   |-- case e|   |   |   |-- case f  |   |   |-- membership values  >  contain files with membership values for the cases (a)-(f)|   |   |-- responses  >  simulated data with and without noise|   |   |-- true model  >  true model used for simulation|   |-- MT  >  MT probabilities, sites information and models|   |   |-- probabilities  >  MT-derived probabilities|   |   |-- responses  >  simulated MT data|   |   |   |-- edi_noise_5p  >  5% noise-contaminated data (*.edi files)|   |   |   |-- MansfieldMT_fwd.dat  >  uncontaminated (ModEM format *.dat file)|   |   |-- model  >  model in ModEM format (*.mod) and WinGLink format (.out) formats|   |   |-- coordinates.txt  >  location of MT sites|   |-- Rock units  >  contains the file with indices of the rock unit model, in 3D, of the modified Mansfield model. The indices are stored as a column vector. |-- Dataset_field  > field dataset|   |-- Mag  >  magnetic data and models: inversion and results|   |   |-- admm constraints  >  file with bound constraints used in cases 3, 4, and adjusted case 4.|   |   |-- data  >  magnetic data for inversion, x, y, z, data column format.|   |   |-- inverted models  >  folders containing inversion results for the different cases tested|   |   |   |-- case 1 |   |   |   |-- case 2|   |   |   |-- case 3|   |   |   |-- case 4|   |   |   |-- case 4 adjusted|   |-- MT  >  MT probabilities and sites information|   |   |-- probabilities  >  MT probabilities of interface and rock units (*.txt files)|   |   |-- coord_L26_sites  >  File containing the location of sites along ligne L26
DOI: 10.6084/m9.figshare.22199491.v3
title: <b>From partial to complete: moult sequence and intensity depend on moult completeness in passerines</b>

description: Data used for analyses of partial moult sequence and intensity in passerine species.
DOI: 10.6084/m9.figshare.22828196.v1
title: HALD, a human aging and longevity knowledge graph for precision gerontology and geroscience analyses

description: HALD includes five sets of files in JSON format: (1) The “Literature_Info.json” file containing the human aging and longevity-related literature information about PMID, title (TI), abstract (AB), IF, IF5, author (AU), full author (FAU), affiliation (AD), publication type (PT), date of publication (DP), place of publication (PL), journal title (JT), journal title abbreviation (TA), and source(SO). (2) The “Entity_Info.json” file containing the information of the entities appearing in the literature about entity, type, PMID, sentence, numbers of articles, JT, TA, IF, IF5, year, date, alias names, description, url, NCBI gene ID, mutation position, mutation alleles, MeSH ID, relation, aging biomarker, and longevity biomarker. (3) The “Relation_Info.json” file containing the triples information about source entity, relationship, target entity, sentence, source, target, source type, target type, PMID, DP, date, TI, TA, IF, and IF5. (4) The “Aging_Biomarkers.json” file containing the aging biomarkers information about source entity, relationship, target entity, sentence, source, target, source type, target type, PMID, DP, date, TI, TA, IF, and IF5. (5) The “Longevity_Biomarkers.json” file containing the longevity biomarkers information about source entity, relationship, target entity, sentence, source, target, source type, target type, DP, TI, TA, IF, and IF5.
DOI: 10.5281/zenodo.10027189
title: IPA Transcription

description: This file provides transcription of dialects data using IPA  found in ten survey sites in West Manggarai, East Nusa Tenggara, Indonesia.
DOI: 10.5281/zenodo.10050016
title: IPA Transcription and Recordings
title: Recordings of sound differences

description: This file provides transcription of dialects data using IPA  found in ten survey sites in West Manggarai, East Nusa Tenggara, Indonesia.
DOI: 10.5281/zenodo.8275068
title: IPA Transcription and Recordings
title: Recordings of sound differences

description: This file provides transcription of dialects data using IPA  found in ten survey sites in West Manggarai, East Nusa Tenggara, Indonesia.
DOI: 10.5281/zenodo.8275069
title: IPA Transcription

description: This file provides transcription of dialects data using IPA found in ten survey sites in West Manggarai, East Nusa Tenggara, Indonesia.
DOI: 10.5281/zenodo.10050065
title: Statistically Significant Correlations from SBR Practices Survey
DOI: 10.5281/zenodo.10050064
title: Statistically Significant Correlations from SBR Practices Survey
DOI: 10.6084/m9.figshare.24454177
title: Suppressing UBE2N ameliorates Alzheimer’s disease pathology through the clearance of amyloid-β.

description: The RNA sequencing data of the control and experimental groups. The groups of FAD-/-, FAD+/-;NSC and FAD+/-;Veh related to the Figure.5.
DOI: 10.6084/m9.figshare.24454177.v1
title: Suppressing UBE2N ameliorates Alzheimer’s disease pathology through the clearance of amyloid-β.

description: The RNA sequencing data of the control and experimental groups. The groups of FAD-/-, FAD+/-;NSC and FAD+/-;Veh related to the Figure.5.
DOI: 10.5281/zenodo.10050021
title: Supplementary material of the article "OpenModelica-based virtual simulator for the cardiovascular and respiratory physiology of a neonate"
title: Database adjustment of a model for analysis of cardiovascular and respiratory anomalies in neonates

description: This document contains the adjustment data for the parameters of the model presented in the article: "OpenModelica-based virtual simulator for the cardiovascular and respiratory physiology of a neonate"
DOI: 10.5281/zenodo.10050022
title: Supplementary material of the article "OpenModelica-based virtual simulator for the cardiovascular and respiratory physiology of a neonate"
title: Database adjustment of a model for analysis of cardiovascular and respiratory anomalies in neonates

description: This document contains the adjustment data for the parameters of the model presented in the article: "OpenModelica-based virtual simulator for the cardiovascular and respiratory physiology of a neonate"
DOI: 10.5883/ds-eupcyp
title: Eupithecia conquesta Tabell and Junnilainen, a new species from Cyprus (Lepidoptera: Geometridae, Larentiinae)

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/ds-colmor
title: New and little known Coleophora Huebner, 1822 species from Morocco. Part I. (Lepidoptera, Coleophoridae)

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/ds-gahyd
title: DNA Barcode Library for Water Mites of Georgia

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5883/bold:aab2200
title: Overview of Barcode Index Number - BOLD:AAB2200

description: DNA barcode data hosted in the Data Portal of the Barcode of Life Data Systems. Records consist of specimen metadata, specimen images, and sequence data.
DOI: 10.5281/zenodo.10050077
title: Data for "Deciphering the code of viral-host adaptation through maximum entropy models"

description: Data needed to reproduce the figures of the paper "Deciphering the code of viral-host adaptation through maximum entropy models", following the instructions provided in this GitHub repository.
DOI: 10.5281/zenodo.10050076
title: Data for "Deciphering the code of viral-host adaptation through maximum entropy models"

description: Data needed to reproduce the figures of the paper "Deciphering the code of viral-host adaptation through maximum entropy models", following the instructions provided in this GitHub repository.
DOI: 10.6084/m9.figshare.22776431
title: Surveying the Relevance of the Critical Success Factors of Agile Transformation Initiatives from a Project Management Perspective

description: Planilha com os resultados extraídos.
DOI: 10.6084/m9.figshare.24454171.v1
title: <b>Transcriptome Analysis Reveals the Genes Involved in Spermatogenesis in</b><b> </b><b>White</b><b> </b><b>F</b><b>eather Broilers</b>

description: Semen volume is an important economic trait of broilers and one of the important indices for continuous breeding. The objective of this study was to identify genes related to semen volume through transcriptome analysis of the testis tissue of white feather broilers. The testis samples with the highest semen volume (H group, n = 5) and lowest semen volume (L group, n = 5) were selected from four hundred-day-old roosters for transcriptome analysis by RNA sequencing. During the screening of differentially expressed genes (DEGs) between the H and L groups, a total of 386 DEGs were identified, among which 348 were upregulated and 38 were downregulated. Gene Ontology (GO) enrichment analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed that the immune response, leukocyte differentiation, cell adhesion molecules and collagen binding played vital roles in spermatogenesis. The results showed that 4 genes related to spermatogenesis, namely, COL1A1, CD74, ARPC1B<i> </i>and APOA1, were significantly expressed in Group H, which was consistent with the phenotype results. Our findings may provide a basis for further research on the genetic mechanism of semen volume in white feather broilers
DOI: 10.6084/m9.figshare.24454417
title: 20231029_starrydata2

description: All data on Starrydata2, a database of experimental properties in the field of inorganic materials
DOI: 10.6084/m9.figshare.24454417.v1
title: 20231029_starrydata2

description: All data on Starrydata2, a database of experimental properties in the field of inorganic materials
DOI: 10.5519/qd.xds03nrk
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5281/zenodo.10048644
title: rMD17-aq dataset

description: The rMD17-aq dataset:
Citation:
Jas Kalayan, Ismaeel Ramzan, Christopher D. WIlliams, Neil A. Burton and Richard A. Bryce "A neural network potential based on pairwise resolved atomic forces and energies", publication TBC
Description:
QM/MM aqueous simulations of the 10 molecules from the original MD17 dataset by Chmiela et al. (and revised dataset by Christensen et al.) were performed surrounded by 400 SPC/E water molecules. Each simulation was performed for 100~ps at 500K temperature and 1 atm pressure. The solute conformations sampled from the QM/MM simulations performed with CP2K are used to recalculate forces and energies of each conformation in Gaussian with a denser integral grid to effectively remove numerical noise.
We also include an 11th molecule of a higher energy conformer of salicylic acid (directory name: salicylic_high_energy_conformer) in addition to the lower energy conformer sampled in the MD17 dataset.
For each molecule (excluding all surrounding water molecules), this dataset contains the nuclear charges, coordinates (Angstrom), forces (kcal/mol/Ang), energies (kcal/mol/Ang) and partial atomic charges (atomic units) in space separated formats outputted from the numpy savetxt function.
The data:
The files in each molecule directory are:
'nuclear_charges.txt' : The nuclear charges for each atom in a molecule.
'coords.txt'  : The Cartesian coordinates for each atom in a conformation (Angstrom units)
'energies.txt'  : The total energy of each conformation (kcal/mol units)
'forces.txt'  : The Cartesian forces for each atom in a conformation (kcal/mol/Angstrom units)
'charges.txt'  : The partial ElectroStatic Potential (ESP) atomic charges (atomic units)
'molecules.prmtop' : The Amber formatted topology file containing the MM parameters for water molecules (solute MM parameters are not used)
'minimised.rst.pdb' : The initial coordinates of a minimised system used to perform QM/MM simulations in CP2K
The input data:
The input files to perform simulations and single point energy calculations are provided in the '_cp2k_gaussian_example_inputs' directory. These files are:
'cp2k-qmmm-example.inp' : input file for the QM/MM simulations performed with CP2K. The number of QM atom kinds are replaced with placeholders CCC, OOO, HHH, NNN for the number of carbon, oxygen, hydrogen and nitrogen atoms respectively in a solute molecule. The system dimensions placeholder XXYYZZ can be replaced with the BOX_DIMENSIONS in the molecules.prmtop file.
'def2-svp.1.cp2k' : the basis set used in QM/MM simulations
'gaussain_input.com': an example of a Gaussian input file for single point energy calculations for aspirin.
DOI: 10.5281/zenodo.10048643
title: rMD17-aq dataset

description: The rMD17-aq dataset:
Citation:
Jas Kalayan, Ismaeel Ramzan, Christopher D. WIlliams, Neil A. Burton and Richard A. Bryce "A neural network potential based on pairwise resolved atomic forces and energies", publication TBC
Description:
QM/MM aqueous simulations of the 10 molecules from the original MD17 dataset by Chmiela et al. (and revised dataset by Christensen et al.) were performed surrounded by 400 SPC/E water molecules. Each simulation was performed for 100~ps at 500K temperature and 1 atm pressure. The solute conformations sampled from the QM/MM simulations performed with CP2K are used to recalculate forces and energies of each conformation in Gaussian with a denser integral grid to effectively remove numerical noise.
We also include an 11th molecule of a higher energy conformer of salicylic acid (directory name: salicylic_high_energy_conformer) in addition to the lower energy conformer sampled in the MD17 dataset.
For each molecule (excluding all surrounding water molecules), this dataset contains the nuclear charges, coordinates (Angstrom), forces (kcal/mol/Ang), energies (kcal/mol/Ang) and partial atomic charges (atomic units) in space separated formats outputted from the numpy savetxt function.
The data:
The files in each molecule directory are:
'nuclear_charges.txt' : The nuclear charges for each atom in a molecule.
'coords.txt'  : The Cartesian coordinates for each atom in a conformation (Angstrom units)
'energies.txt'  : The total energy of each conformation (kcal/mol units)
'forces.txt'  : The Cartesian forces for each atom in a conformation (kcal/mol/Angstrom units)
'charges.txt'  : The partial ElectroStatic Potential (ESP) atomic charges (atomic units)
'molecules.prmtop' : The Amber formatted topology file containing the MM parameters for water molecules (solute MM parameters are not used)
'minimised.rst.pdb' : The initial coordinates of a minimised system used to perform QM/MM simulations in CP2K
The input data:
The input files to perform simulations and single point energy calculations are provided in the '_cp2k_gaussian_example_inputs' directory. These files are:
'cp2k-qmmm-example.inp' : input file for the QM/MM simulations performed with CP2K. The number of QM atom kinds are replaced with placeholders CCC, OOO, HHH, NNN for the number of carbon, oxygen, hydrogen and nitrogen atoms respectively in a solute molecule. The system dimensions placeholder XXYYZZ can be replaced with the BOX_DIMENSIONS in the molecules.prmtop file.
'def2-svp.1.cp2k' : the basis set used in QM/MM simulations
'gaussain_input.com': an example of a Gaussian input file for single point energy calculations for aspirin.
DOI: 10.5281/zenodo.10050139
title: ICITS'24 - A Systematic Mapping Study on the Use and Development of Research Software

description: Artifacts used for data collection and analysis of the article accepted for publication in ICITS'24.
Mourão, E., Trevisan, D., Viterbo, J. and Pantoja, C.E. (2024). A Systematic Mapping Study on the Use and Development of Research Software. In: ICITS'24 - 7th International Conference on Information Technology & Systems. Lecture Notes in Networks and Systems. Springer, Cham.
DOI: 10.5281/zenodo.10050140
title: ICITS'24 - A Systematic Mapping Study on the Use and Development of Research Software

description: Artifacts used for data collection and analysis of the article accepted for publication in ICITS'24.
Mourão, E., Trevisan, D., Viterbo, J. and Pantoja, C.E. (2024). A Systematic Mapping Study on the Use and Development of Research Software. In: ICITS'24 - 7th International Conference on Information Technology & Systems. Lecture Notes in Networks and Systems. Springer, Cham.
DOI: 10.34740/kaggle/dsv/6819434
title: MoviesDatasets
DOI: 10.34740/kaggle/dsv/6819439
title: Mahanagar Yatayat Transport Dataset