cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.8289246
title: Optimized structures of the stationary points on the potential energy surface of the OH(2Π) + C2H4 reaction

description: This Zip file contains the cartesian coordinates of optimized stationary points of the OH(<sup>2</sup>Π) + C<sub>2</sub>H<sub>4</sub> potential energy surface published in our article “OH(<sup>2</sup>Π) + C<sub>2</sub>H<sub>4</sub> Reaction: A Combined Crossed Molecular Beam and Theoretical Study” (P<em>hys. Chem. A</em> 2023, 127, 21, 4609–4623), that can be found in https://doi.org/10.1021/acs.jpca.2c08662. All calculations have been performed with Gaussian 09, Revision D.01. All structures have been optimized at B3LYP/aug-cc-pVTZ level of theory.
DOI: 10.5281/zenodo.8414225
title: Simulated datasets for detector and particle flow reconstruction: CLIC detector, hit-based data, machine learning format

description: Derived from https://zenodo.org/record/8260741, prepared in a machine-learning friendly TFDS format, ready to be used with https://zenodo.org/record/8397954. clic_edm_ttbar_hits_pf10k.tar: ee -&gt; ttbar, center of mass energy at 380 GeV, 10k events clic_edm_qq_hits_pf10k.tar: ee -&gt; Z* -&gt; qqbar, center of mass energy at 380 GeV, 10k events <strong>Contents</strong> Each .tar file contains the dataset in the tensorflow-datasets (minimum version v4.9.1), array_record format. <strong>Dataset semantics</strong> Each dataset consists of events that can be iterated over using the tensorflow-datasets library in either tensorflow or pytorch. Each event has the following information available: X: the reconstruction input features, i.e. tracks and calorimeter hits ygen: the ground truth particles with the features ["PDG", "charge", "pt", "eta", "sin_phi", "cos_phi", "energy", "jet_idx"], with "jet_idx" corresponding to the gen-jet assignment of this particle ycand: the baseline Pandora PF particles with the features ["PDG", "charge", "pt", "eta", "sin_phi", "cos_phi", "energy", "jet_idx"], with "jet_idx" corresponding to the gen-jet assignment of this particle The full semantics, including the list of features for X, are available at https://github.com/jpata/particleflow/blob/v1.6/mlpf/heptfds/clic_pf_edm4hep_hits/utils_edm.py.
description: Funding support for the development and generation of this dataset by Estonian Research Council (ETAG) grant PSG864. The full dataset is hosted at the Julich HPC, supported by the CoE RAISE project. CoE RAISE project has received funding from the European Union's Horizon 2020 – Research and Innovation Framework Programme H2020-INFRAEDI-2019-1 under grant agreement no. 951733.
DOI: 10.5281/zenodo.8414224
title: Simulated datasets for detector and particle flow reconstruction: CLIC detector, hit-based data, machine learning format

description: Derived from https://zenodo.org/record/8260741, prepared in a machine-learning friendly TFDS format, ready to be used with https://zenodo.org/record/8397954. clic_edm_ttbar_hits_pf10k.tar: ee -&gt; ttbar, center of mass energy at 380 GeV, 10k events clic_edm_qq_hits_pf10k.tar: ee -&gt; Z* -&gt; qqbar, center of mass energy at 380 GeV, 10k events <strong>Contents</strong> Each .tar file contains the dataset in the tensorflow-datasets (minimum version v4.9.1), array_record format. <strong>Dataset semantics</strong> Each dataset consists of events that can be iterated over using the tensorflow-datasets library in either tensorflow or pytorch. Each event has the following information available: X: the reconstruction input features, i.e. tracks and calorimeter hits ygen: the ground truth particles with the features ["PDG", "charge", "pt", "eta", "sin_phi", "cos_phi", "energy", "jet_idx"], with "jet_idx" corresponding to the gen-jet assignment of this particle ycand: the baseline Pandora PF particles with the features ["PDG", "charge", "pt", "eta", "sin_phi", "cos_phi", "energy", "jet_idx"], with "jet_idx" corresponding to the gen-jet assignment of this particle The full semantics, including the list of features for X, are available at https://github.com/jpata/particleflow/blob/v1.6/mlpf/heptfds/clic_pf_edm4hep_hits/utils_edm.py.
description: Funding support for the development and generation of this dataset by Estonian Research Council (ETAG) grant PSG864. The full dataset is hosted at the Julich HPC, supported by the CoE RAISE project. CoE RAISE project has received funding from the European Union's Horizon 2020 – Research and Innovation Framework Programme H2020-INFRAEDI-2019-1 under grant agreement no. 951733.
DOI: 10.5281/zenodo.8414390
title: Raw ptychography data for manuscript with title 'Structured Illumination Ptychography and At-wavelength Characterization with an EUV diffuser at 13.5 nm Wavelength'

description: - Given are the HDF files containing the raw diffraction patterns<br> - Although some meta-data might be available in these files, these might not be correct. The following data were used for reconstruction:<br> wavelength: 13.5 nm<br> distance sample &lt;-&gt; detector: ~29.2 mm<br> sCMOS pixel size: 11 um<br> Number of incoherent modes: 4<br> Initial probe guess: 9 um<br> For the reconstruction, OPR was used (Although it might have not been necessary for all data. However, to have comparable results it was used for each reconstruction)<br> - For each scenario, there are two data sets to calculate the Fourier ring correlation (FRC)<br> - For the analysis of the diffuser the reconstructed probe of the data set "dp_diffuser_max_dynam_range.hdf5" was used - Data were measured at the Institute of Applied Physics in Jena using a Fiber Laser driven High-order harmonic source Please contact me (wilhelm.eschen@uni-jena.de) for additional support.
DOI: 10.5281/zenodo.8413893
title: Physical oceanography and meteorological data from the W1M3A observatory, Ligurian Sea (North Western Mediterranean) July 2021 - April 2022

description: Time series data of physical oceanography (salinity, temperature) and meteorology (atmospheric pressure, wind speed and direction, air temperature and humidity, shortwave radiation, longwave radiation and rain) collected from July 2021 to April 2022 by observatory W1M3A at 1h interval. The file contains tabular data (tab delimited) with the following columns: Day; Month; Year; UTC Hour; Minute ; Longitude [deg]; Latitude [deg]; Atmospheric Pressure [hPa]; Wind speed [m/s]; Wind direction [deg]; Air Temperature [°C]; Relative air humidity [%]; Short wave Radiation [W/m2]; Long wave radiation [W/m2]; Rainfall [mm/h]; Sea temperature @ 6 m [°C]; Sea temperature @ 20 m [°C]; Sea temperature @ 36 m [°C]; Salinity @ 6 m [psu]; Salinity @ 20 m [psu], Salinity @ 36 m [psu].
DOI: 10.5281/zenodo.8413894
title: Physical oceanography and meteorological data from the W1M3A observatory, Ligurian Sea (North Western Mediterranean) July 2021 - April 2022

description: Time series data of physical oceanography (salinity, temperature) and meteorology (atmospheric pressure, wind speed and direction, air temperature and humidity, shortwave radiation, longwave radiation and rain) collected from July 2021 to April 2022 by observatory W1M3A at 1h interval. The file contains tabular data (tab delimited) with the following columns: Day; Month; Year; UTC Hour; Minute ; Longitude [deg]; Latitude [deg]; Atmospheric Pressure [hPa]; Wind speed [m/s]; Wind direction [deg]; Air Temperature [°C]; Relative air humidity [%]; Short wave Radiation [W/m2]; Long wave radiation [W/m2]; Rainfall [mm/h]; Sea temperature @ 6 m [°C]; Sea temperature @ 20 m [°C]; Sea temperature @ 36 m [°C]; Salinity @ 6 m [psu]; Salinity @ 20 m [psu], Salinity @ 36 m [psu].
DOI: 10.5281/zenodo.8413783
title: Physical oceanography and meteorological data from the W1M3A observatory, Ligurian Sea (North Western Mediterranean) October 2020 - July 2021

description: Time series data of physical oceanography (salinity, temperature) and meteorology (atmospheric pressure, wind speed and direction, air temperature and humidity, shortwave radiation, longwave radiation and rain) collected from October 2020 to July 2021 by observatory W1M3A at 1h interval. The file contains tabular data (tab delimited) with the following columns: Day; Month; Year; UTC Hour; Minute ; Longitude [deg]; Latitude [deg]; Atmospheric Pressure [hPa]; Wind speed [m/s]; Wind direction [deg]; Air Temperature [°C]; Relative air humidity [%]; Short wave Radiation [W/m2]; Long wave radiation [W/m2]; Rainfall [mm/h]; Sea temperature @ 6 m [°C]; Sea temperature @ 20 m [°C]; Sea temperature @ 36 m [°C]; Salinity @ 6 m [psu]; Salinity @ 20 m [psu], Salinity @ 36 m [psu].
DOI: 10.5281/zenodo.8413782
title: Physical oceanography and meteorological data from the W1M3A observatory, Ligurian Sea (North Western Mediterranean) October 2020 - July 2021

description: Time series data of physical oceanography (salinity, temperature) and meteorology (atmospheric pressure, wind speed and direction, air temperature and humidity, shortwave radiation, longwave radiation and rain) collected from October 2020 to July 2021 by observatory W1M3A at 1h interval. The file contains tabular data (tab delimited) with the following columns: Day; Month; Year; UTC Hour; Minute ; Longitude [deg]; Latitude [deg]; Atmospheric Pressure [hPa]; Wind speed [m/s]; Wind direction [deg]; Air Temperature [°C]; Relative air humidity [%]; Short wave Radiation [W/m2]; Long wave radiation [W/m2]; Rainfall [mm/h]; Sea temperature @ 6 m [°C]; Sea temperature @ 20 m [°C]; Sea temperature @ 36 m [°C]; Salinity @ 6 m [psu]; Salinity @ 20 m [psu], Salinity @ 36 m [psu].
DOI: 10.6084/m9.figshare.24260743
title: EPI-Clone supplementary dataset: Single cell RNA-seq of clonally barcoded hematopoietic progenitors

description: This is the dataset supporting the EPI-Clone manuscript: scRNA-seq profiling of hematopoietic stem and progenitor cells (HSPCs) was performed with the 3' 10x Genomics profiling. Three experiments are included: Two where HSCs were clonally labeled with the LARRY system, transplanted to recipient mouse and profiled 4-5 months later (post-transplant hematopoiesis), and one where HSPCs were profiled straight from an unperturbed mouse.<br>Dataset is a seurat (v4) object with the following assays, reductions and metadata:<b>ASSAYS:</b><br>AB: Antibody expression data<br>RNA: RNA expression profiles<br>integrated: Integration of DNA methylation data performed across experimental batches with two batch correction methods: CCA (https://satijalab.org/seurat/reference/runcca) and harmony (https://portals.broadinstitute.org/harmony/articles/quickstart.html).<br><b>DIMENSIONALITY REDUCTION</b><br>pca_cca: PCA performed on the integrated data (CCA integration)<br>umap_cca: UMAP computed on the integrated data (CCA integration)<br>umap_harmony: UMAP computed on the integrated data (Harmony integration)<b>METADATA</b><br>Experiment: The experiment that the cell is from, values are "LARRY main experiment", "LARRY replicate" and "Native hematopoiesis"<br>ProcessingBatch: Experiments were processed in several batches.<br>CellType: Cell type annotation<br>LARRY: Error corrected LARRY barcode<br>percent.mt: percentage of mitochondrial DNA<br>nCount_RNA: Read count for the RNA modality<br>nFeature_RNA: Number of RNAs with at least one read<br>nCount_AB: Read count for the surface protein modality<br>nFeature_AB: Number of ABs with at least one read
DOI: 10.5281/zenodo.7741617
title: Phylogenetic and epidemiologic data relating to age-specific HIV incidence and transmission in Rakai, Uganda, 2003-2018.

description: This repository contains the data for the analyses presented in the paper Growing gender inequity in HIV infection in Africa: sources and policy implications by M. Monod, A. Brizzi, R. Galiwango, R. Ssekubugu, Y. Chen, X. Xi et al. available in the pre-print https://doi.org/10.1101/2023.03.16.23287351 We thank all contributors, program staff and participants to the Rakai Community Cohort Study; all members of the PANGEA-HIV consortium, the Rakai Health Sciences Program, and CDC Uganda for comments on an earlier version of the manuscript. We also extend our gratitude to the Imperial College Research Computing Service and the Biomedical Research Computing Cluster at the University of Oxford for providing the computational resources to perform this study. Additionally, we thank the Office of Cyberinfrastructure and Computational Biology at the National Institute for Allergy and Infectious Diseases for data management support; and Zulip for sponsoring team communications through the Zulip Cloud Standard chat app. All analysis code is available from https://github.com/MLGlobalHealth/phyloSI-RakaiAgeGender.
description: Project leaders: Oliver Ratmann, Kate Grabowski, Joseph Kagaayi Researchers: all others Keywords: HIV prevention; HIV transmission; phylogenetics Grants: OR, MKG, CF, DB report grants from the Bill & Melinda Gates Foundation during the conduct of this study. MKG, MJW, RHG, LCW report grants from the National Institutes of Health during the conduct of this study. ABr, CY, XX report an EPSRC PhD studentship during the conduct of this study. Dr. Wawer and Dr. Gray are paid consultants to the Rakai Health Sciences Program and serves on its Board of Directors. This arrangement has been reviewed and approved by the Johns Hopkins University in accordance with its conflict of interest policies. Licencse: CC-BY Communities: AfricArXiv - the pan-African Open Access portal; Africa Research Database: Zenodo
description: {"references": ["Golubchik, Tanya et al (2022). HIV-phyloTSI: Subtype-independent estimation of time since HIV-1 infection for cross-sectional measures of population incidence using deep sequence data", "Wymant, Chris et al (2017). PHYLOSCANNER: Inferring Transmission from Within- and Between-Host Pathogen Genetic Diversity", "Xi, Xiaoyue et al (2022). Inferring the Sources of HIV Infection in Africa from Deep-Sequence Data with Semi-Parametric Bayesian Poisson Flow Models"]}
DOI: 10.6084/m9.figshare.24260784
title: Dataset from Parasite-mediated manipulation? <i>Toxoplasma gondii</i> infection increases risk behaviour towards culling in red deer

description: Dataset used for analisys .csv
DOI: 10.6084/m9.figshare.24260784.v1
title: Dataset from Parasite-mediated manipulation? <i>Toxoplasma gondii</i> infection increases risk behaviour towards culling in red deer

description: Dataset used for analisys .csv
DOI: 10.6084/m9.figshare.24260790.v1
title: Supplementary material from Parasite-mediated manipulation? <i>Toxoplasma gondii</i> infection increases risk behaviour towards culling in red deer

description: Additional statistical analyses
DOI: 10.6084/m9.figshare.24260790
title: Supplementary material from Parasite-mediated manipulation? <i>Toxoplasma gondii</i> infection increases risk behaviour towards culling in red deer

description: Additional statistical analyses
DOI: 10.34740/kaggle/dsv/6623178
title: Bitcoin Lightning Network Stats Dataset
DOI: 10.5281/zenodo.8414590
title: costaria_costata_spades_01.fasta.gz

description: .
DOI: 10.5281/zenodo.8414589
title: costaria_costata_spades_01.fasta.gz

description: .
DOI: 10.5517/ccdc.csd.cc2g68yx
title: CCDC 2270159: Experimental Crystal Structure Determination

description: Related Article: Mamoun M. Bader, Phuong-Truc Pham|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: 10.5517/ccdc.csd.cc2g7vdz
title: CCDC 2271661: Experimental Crystal Structure Determination

description: Related Article: Philip Parker, Mark R.J. Elsegood, Philip C. Bulman Page, and Jake M. Cuckson|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: 10.5517/ccdc.csd.cc2g7wsd
title: CCDC 2271704: Experimental Crystal Structure Determination

description: Related Article: Masafumi Nakanishi, Pascal Retailleau, Robert H. Dodd|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: 10.5517/ccdc.csd.cc2g7xzm
title: CCDC 2271741: Experimental Crystal Structure Determination

description: Related Article: Rita Ruivo, Luis G. Alves, Ana M. Martins|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: 10.5517/ccdc.csd.cc2g7y0p
title: CCDC 2271742: Experimental Crystal Structure Determination

description: Related Article: Sara C. A. Sousa, Tiago A. Fernandes, Luis G. Alves, Ana C. Fernandes|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: 10.5517/ccdc.csd.cc2g81vn
title: CCDC 2271861: Experimental Crystal Structure Determination

description: Related Article: Philip Parker, Mark R. J.  Elsegood, Philip C. Bulman Page, Jake M. Cuckson|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: 10.5517/ccdc.csd.cc2g81xq
title: CCDC 2271863: Experimental Crystal Structure Determination

description: Related Article: Philip Parker, Mark R. J. Elsegood, Philip C. Bulman Page|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: 10.5517/ccdc.csd.cc2g8395
title: CCDC 2271906: Experimental Crystal Structure Determination

description: Related Article: Olivia Koentjoro, Paul J. Low, Dmitry S. Yufit|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: 10.5517/ccdc.csd.cc2g83b6
title: CCDC 2271907: Experimental Crystal Structure Determination

description: Related Article: Dmitry Yufit|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: 10.5517/ccdc.csd.cc2g84fb
title: CCDC 2271941: Experimental Crystal Structure Determination

description: Related Article: Dmitry Yufit|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: 10.5517/ccdc.csd.cc2g84yv
title: CCDC 2271957: Experimental Crystal Structure Determination

description: Related Article: Christopher Murray, Graham Sandford, Dmitry S. Yufit|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: 10.5517/ccdc.csd.cc2g86jh
title: CCDC 2272006: Experimental Crystal Structure Determination

description: Related Article: Rubí Navarro-Peñaloza, Jhony Anacleto-Santos, Norma Rivera-Fernández, Francisco Sánchez-Bartez, Isabel Gracia-Mora, Ana B. Caballero, Patrick Gamez, Norah Barba-Behrens|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: 10.5517/ccdc.csd.cc2g8744
title: CCDC 2272025: Experimental Crystal Structure Determination

description: Related Article: Hongbo Dong|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.