cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5759108
title: GWTC-2.1: Deep Extended Catalog of Compact Binary Coalescences Observed by LIGO and Virgo During the First Half of the Third Observing Run - Candidate Data Release

description: Data associated with candidates in GWTC-2.1. These are gravitational-wave candidates from the first half of the third observing run (O3a) of the Advanced LIGO and Virgo detectors that pass a false alarm rate threshold of 2/day. We upload a tar file (search_data_GWTC2p1.tar.gz) containing all the data and a python notebook (search_data.ipynb) which provides description on how to use the files contained in the dataset.
description: LIGO Laboratory and Advanced LIGO are funded by the United States National Science Foundation (NSF) as well as the Science and Technology Facilities Council (STFC) of the United Kingdom, the Max-Planck-Society (MPS), and the State of Niedersachsen/Germany for support of the construction of Advanced LIGO and construction and operation of the GEO600 detector. Additional support for Advanced LIGO was provided by the Australian Research Council. Virgo is funded, through the European Gravitational Observatory (EGO), by the French Centre National de Recherche Scientifique (CNRS), the Italian Istituto Nazionale di Fisica Nucleare (INFN) and the Dutch Nikhef, with contributions by institutions from Belgium, Germany, Greece, Hungary, Ireland, Japan, Monaco, Poland, Portugal, Spain.
DOI: 10.5281/zenodo.5117761
title: GWTC-2.1: Deep Extended Catalog of Compact Binary Coalescences Observed by LIGO and Virgo During the First Half of the Third Observing Run - Candidate Data Release

description: Data associated with candidates in GWTC-2.1. These are gravitational-wave candidates from the first half of the third observing run (O3a) of the Advanced LIGO and Virgo detectors that pass a false alarm rate threshold of 2/day. We upload a tar file (search_data_GWTC2p1.tar.gz) containing all the data and a python notebook (search_data.ipynb) which provides description on how to use the files contained in the dataset.
description: LIGO Laboratory and Advanced LIGO are funded by the United States National Science Foundation (NSF) as well as the Science and Technology Facilities Council (STFC) of the United Kingdom, the Max-Planck-Society (MPS), and the State of Niedersachsen/Germany for support of the construction of Advanced LIGO and construction and operation of the GEO600 detector. Additional support for Advanced LIGO was provided by the Australian Research Council. Virgo is funded, through the European Gravitational Observatory (EGO), by the French Centre National de Recherche Scientifique (CNRS), the Italian Istituto Nazionale di Fisica Nucleare (INFN) and the Dutch Nikhef, with contributions by institutions from Belgium, Germany, Greece, Hungary, Ireland, Japan, Monaco, Poland, Portugal, Spain.
DOI: 10.6084/m9.figshare.3761562.v2064
title: Online Labour Index: Measuring the Online Gig Economy for Policy and Research

description: Data repository for the data underlying the Online Labour Index. See http://ilabour.oii.ox.ac.uk online-labour-index/ for details.
DOI: 10.5281/zenodo.5759979
title: Data for CS447 Final Project

description: Datasets for our CS447 final project's sequence classification experiment. The .fa.gz files are the genomes we used; .fastq.gz files are the reads we used; .pkl files are saved objects that are used in the jupyter notebook.
DOI: 10.5281/zenodo.5760011
title: Data for CS447 Final Project

description: Datasets for our CS447 final project's sequence classification experiment. The .fa.gz files are the genomes we used; .fastq.gz files are the reads we used.
DOI: 10.5281/zenodo.5759978
title: Data for CS447 Final Project

description: Datasets for our CS447 final project's sequence classification experiment. The .fa.gz files are the genomes we used; .fastq.gz files are the reads we used.
DOI: 10.21227/nemq-pe22
title: Data for A Novel Semiparametric Structural Model for Electricity Forward Curves

description: This dataset contains the input and output data used in the paper A Novel Semiparametric Structural Model for Electricity Forward Curves by Marina Dietze, Iago Chávarry, Ana Carolina Freire, Davi Valladão, Alexandre Street and Stein-Erik Fleten.
DOI: 10.6084/m9.figshare.16945771.v1
title: Tonkin etal_2021 lock_7_8_Mullaroo_discharge_and_levels.csv

description: Flow data to test movement behavior of a threatened native fish
DOI: 10.6084/m9.figshare.16945771
title: Tonkin etal_2021 lock_7_8_Mullaroo_discharge_and_levels.csv

description: Flow data to test movement behavior of a threatened native fish
DOI: 10.6084/m9.figshare.16945750
title: Tonkin etal_2021 fish locations.csv

description: Movement data of a threatened native fish.
DOI: 10.6084/m9.figshare.16945750.v1
title: Tonkin etal_2021 fish locations.csv

description: Movement data of a threatened native fish.
DOI: 10.5281/zenodo.3921886
title: Pressure control using stochastic cell rescaling - dataset

description: Supporting data related to manuscript "Pressure control using stochastic cell rescaling"
description: {"references": ["Bernetti and Bussi, Pressure control using stochastic cell rescaling, arXiv:2006.09250"]}
DOI: 10.5281/zenodo.3921885
title: Pressure control using stochastic cell rescaling - dataset

description: Supporting data related to manuscript "Pressure control using stochastic cell rescaling"
description: {"references": ["Bernetti and Bussi, Pressure control using stochastic cell rescaling, arXiv:2006.09250"]}
DOI: 10.5281/zenodo.5753467
title: Molecular dynamics of solids at constant pressure and stress using anisotropic stochastic cell rescaling - dataset

description: Supporting data related to manuscript "Molecular dynamics at constant pressure and stress using anisotropic stochastic cell rescaling"
DOI: 10.5281/zenodo.5753466
title: Molecular dynamics of solids at constant pressure and stress using anisotropic stochastic cell rescaling - dataset

description: Supporting data related to manuscript "Molecular dynamics at constant pressure and stress using anisotropic stochastic cell rescaling"
DOI: 10.5517/cc115k0s
title: CCDC 958644: Experimental Crystal Structure Determination

description: Related Article: J. C. Berthet, P. Thuery, M. Ephritikhine|2013|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc1zz335
title: CCDC 1846177: Experimental Crystal Structure Determination

description: Related Article: Dejia Ma, Tiezhu Pei, Yunhe Bai, Lina Zhou, Ying Bao, Qiuxiang Yin, Chuang Xie|2019|J.Mol.Struct.|1179|487|doi:10.1016/j.molstruc.2018.11.033
DOI: 10.5517/ccdc.csd.cc23s503
title: CCDC 1959634: Experimental Crystal Structure Determination

description: Related Article: Peter Urbanovský, Jan Kotek, Ivana Císařová, Petr Hermann|2020|Dalton Trans.|49|1555|doi:10.1039/C9DT04056K
DOI: 10.5517/ccdc.csd.cc23mcw0
title: CCDC 1955042: Experimental Crystal Structure Determination

description: Related Article: Jin Fu, Bo Zheng, Huizheng Zhang, Yanxia Zhao, Dan Zhang, Wenyao Zhang, Xiao-Juan Yang, Biao Wu|2020|Chem.Commun.|56|2475|doi:10.1039/C9CC09752J
DOI: 10.5281/zenodo.5760047
title: Muscicapa adusta SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5760046
title: Muscicapa adusta SPAdes preassembly

description: .
DOI: 10.6084/m9.figshare.15177543
title: Supplementary information 2

description: Random Forest Clasifier model. Model was created using the H2O module on python - https://docs.h2o.ai/h2o/latest-stable/h2o-docs/data-science/drf.html<br>
DOI: 10.6084/m9.figshare.15177510
title: Supplementary table 3

description: Count matrix of unique loci variants by genome
DOI: 10.6084/m9.figshare.14955558
title: Supplementary table 6

description: supp table for paper
DOI: 10.6084/m9.figshare.14955555
title: Supplementary table 5

description: supp table for paper
DOI: 10.6084/m9.figshare.14913075
title: Supplementary table 4

description: Genome metadata and cluster
DOI: 10.6084/m9.figshare.14912988
title: Supplementary table 1

description: HMMs output for genes used in the arsenic genomics project
DOI: 10.5281/zenodo.5500659
title: Supporting data of "Temperature and barometric pressure affect the activity intensity and movement of an endangered thermoconforming lizard"

description: JOURNAL PUBLICATION CITATION: Daniel Ariano-Sánchez, Rasmus M. Mortensen, Rory P. Wilson, Peder Bjureke, Stefanie Reinhardt and Frank Rosell. Temperature and barometric pressure affect the activity intensity and movement of an endangered thermoconforming lizard. <em>Ecosphere.</em> <em>------------</em> Raw data in RDS format and R codes of movement paths and step-selection function analyses ------------- CleanDBALMM.R – R script of the LMM for VeDBA from obtained from the daily diaries in the backpack system. CleanGPSHeloderma.R – R script for calculation of step-lengths, bearings and turning angles from the GPS data of the Guatemalan Beaded Lizards tracked, including the LMM and circular-linear regressions. CleanSSF.R – R script of the step-selection functions. DBAHeloderma.rds – Raw data of the Guatemalan Beaded Lizard movement obtained from the daily diaries in the backpack system. GPSData.rds - Raw data of the Guatemalan Beaded Lizard movement obtained from GPS tags. ssf3.rds – Dataset for the step-section functions.
DOI: 10.5281/zenodo.5500658
title: Supporting data of "Temperature and barometric pressure affect the activity intensity and movement of an endangered thermoconforming lizard"

description: JOURNAL PUBLICATION CITATION: Daniel Ariano-Sánchez, Rasmus M. Mortensen, Rory P. Wilson, Peder Bjureke, Stefanie Reinhardt and Frank Rosell. Temperature and barometric pressure affect the activity intensity and movement of an endangered thermoconforming lizard. <em>Ecosphere.</em> <em>------------</em> Raw data in RDS format and R codes of movement paths and step-selection function analyses ------------- CleanDBALMM.R – R script of the LMM for VeDBA from obtained from the daily diaries in the backpack system. CleanGPSHeloderma.R – R script for calculation of step-lengths, bearings and turning angles from the GPS data of the Guatemalan Beaded Lizards tracked, including the LMM and circular-linear regressions. CleanSSF.R – R script of the step-selection functions. DBAHeloderma.rds – Raw data of the Guatemalan Beaded Lizard movement obtained from the daily diaries in the backpack system. GPSData.rds - Raw data of the Guatemalan Beaded Lizard movement obtained from GPS tags. ssf3.rds – Dataset for the step-section functions.
DOI: 10.17632/rv629spy2p.1
title: FRET-based single-cell imaging reveals Piezo1-induced Ca2+ flux mediates  membrane ruffling and cell survival

description: raw data of FRET-based single-cell imaging reveals Piezo1-induced Ca2+ flux mediates  membrane ruffling and cell survival
DOI: 10.17632/txzzw9n7xs.1
title: ELS_NBI_Classification_Validation_Dataset

description: Validation of the European Laryngological Society classification of glottic vascular changes as seen by Narrow Band Imaging in the optical biopsy setting

Abstract
Purpose
In 2016, the European Laryngological Society (ELS) proposed a classification for vascular changes occurring in glottic lesions as visible by Narrow Band Imaging (NBI), based on the dichotomic distinction between longitudinal vessels (not suspicious) and perpendicular ones (suspicious). The aim of our study was to validate this classification assessing the interobserver agreement and diagnostic test performance in detecting the final histopathology.
Methods
A retrospective study was carried out by reviewing clinical charts, preoperative videos, and final pathologic diagnosis of patients submitted to transoral microsurgery for laryngeal lesions in two Italian referral centers. In each institution, two physicians, independently re-assessed each case applying the ELS classification.
Results
The cohort was composed of 707 patients. The pathologic report showed benign lesions in 208 (29.5%) cases, papillomatosis in 34 (4.8%), squamous intraepithelial neoplasia (SIN) up to carcinoma in situ in 200 (28.2%), and squamous cell carcinoma (SCC) in 265 (37.5%). The interobserver agreement was extremely high in both institutions (k=0.954, p<0.001 and k=0.880, p<0.001). Considering the diagnostic performance for identification of at least SIN or SCC, the sensitivity was 0.804 and 0.902, the specificity 0.793 and 0.581, the positive predictive value 0.882 and 0.564, and the negative predictive value 0.678 and 0.908, respectively.
Conclusions
The ELS classification for NBI vascular changes of glottic lesions is a highly reliable tool whose systematic use allows a better diagnostic evaluation of suspicious laryngeal lesions, reliably distinguishing benign ones from those with a diagnosis of papillomatosis, SIN or SCC, thus paving the way towards confirmation of the optical biopsy concept.
DOI: 10.17632/znc7zp2dth.1
title: SUMOylation of Linker Histone H1 Drives Chromatin Condensation and Restriction of Embryonic Cell Fate Identity. Sheban et al.

description: Western blot images that were used to make figures in Sheban et al., Molecular Cell, 2021
DOI: 10.15151/esrf-es-639220078
title: Structural Biology at EMBL Grenoble, IBS-CIBB and IAB

description: The proposals covers a broad range of structural biology projects related to pathogen biology, host-pathogen interactions, RNA biology and structure-based drug development that are carried out by PIs at EMBL Grenoble, IBS-CIBB and IAB. The proposers have long-standing experience in the use, as well as the development of beam lines for macromolecular crystallography and have participated in successive BAG applications over the years, mostly at the ESRF but also at other synchrotrons (e.g. Soleil, Petra III, Diamond, SLS).
DOI: 10.5517/ccdc.csd.cc27jpr7
title: CCDC 2071629: Experimental Crystal Structure Determination

description: Related Article: Magdalena Ceborska, Karolina Kędra-Królik, Jakub Narodowiec, Kajetan Dąbrowa|2021|Cryst.Growth Des.|21|6714|doi:10.1021/acs.cgd.1c00558
DOI: 10.5517/ccdc.csd.cc27jpbt
title: CCDC 2071616: Experimental Crystal Structure Determination

description: Related Article: Magdalena Ceborska, Karolina Kędra-Królik, Jakub Narodowiec, Kajetan Dąbrowa|2021|Cryst.Growth Des.|21|6714|doi:10.1021/acs.cgd.1c00558
DOI: 10.5517/ccdc.csd.cc27jnv9
title: CCDC 2071601: Experimental Crystal Structure Determination

description: Related Article: Magdalena Ceborska, Karolina Kędra-Królik, Jakub Narodowiec, Kajetan Dąbrowa|2021|Cryst.Growth Des.|21|6714|doi:10.1021/acs.cgd.1c00558
DOI: 10.5517/ccdc.csd.cc27jpn4
title: CCDC 2071626: Experimental Crystal Structure Determination

description: Related Article: Magdalena Ceborska, Karolina Kędra-Królik, Jakub Narodowiec, Kajetan Dąbrowa|2021|Cryst.Growth Des.|21|6714|doi:10.1021/acs.cgd.1c00558
DOI: 10.5517/ccdc.csd.cc27jpp5
title: CCDC 2071627: Experimental Crystal Structure Determination

description: Related Article: Magdalena Ceborska, Karolina Kędra-Królik, Jakub Narodowiec, Kajetan Dąbrowa|2021|Cryst.Growth Des.|21|6714|doi:10.1021/acs.cgd.1c00558
DOI: 10.5281/zenodo.5760073
title: Pinacopodium congolense SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5760072
title: Pinacopodium congolense SPAdes preassembly

description: .
DOI: 10.18112/openneuro.ds003892.v5.0.0
title: Loss and enhancement of layer-selective signals in geniculostriate and corticotectal pathways of adult human amblyopia
DOI: 10.6084/m9.figshare.17126783
title: Sequencing quality.xlsx

description: Supplement to sequencing data<br>
DOI: 10.6084/m9.figshare.17126783.v1
title: Sequencing quality.xlsx

description: Supplement to sequencing data<br>
DOI: 10.6084/m9.figshare.17126786
title: Apostrophes in Greek Papyri 1-200 CE

description: This is a list of all the uses of apostrophe in Greek papyri, literary and documentary, 1-200 CE
DOI: 10.5281/zenodo.5760110
title: Paleozoanthus reticulatus SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5760109
title: Paleozoanthus reticulatus SPAdes preassembly

description: .
DOI: 10.18112/openneuro.ds003953.v1.0.0
title: Worry and Mindfulness
DOI: 10.5281/zenodo.5760133
title: Primary data of X-ray data and NMR spectra

description: Primary data of X-ray data and NMR spectra.
DOI: 10.5281/zenodo.5739613
title: Primary data of X-ray data and NMR spectra

description: Primary data of X-ray data and NMR spectra.
DOI: 10.6084/m9.figshare.16869177.v1
title: Supporting Information for Provenance Shifts During Neogene Brahmaputra Delta Progradation Tied to Coupled Climate, Tectonic, and Watershed Change in the Eastern Himalaya submitted to Geochemistry, Geophysics, Geosystems

description: This supplemental text (pp. 2-4) describes the analytical procedures for the detrital zircon fission track (dzFT) and detrital zircon U-Pb analyses (dzUPb). Sample locations are listed in supplemental file S1. The new dzUPb analytical data are presented in supplemental file S2. Supplemental files S3, S4, and S5 give the data sets used in the regional dzUPb compilations, a list of the compiled data, and the intersample comparison statistical results for the dzUPb compilations, respectively. Supplemental S6 contains the Monte-Carlo modeling results for the source terrane inversions using DZMix (Sundell and Saylor, 2017). Supplemental file S7 contains the full data tables and a summary of the dzFT results. All prior datasets were compiled from the supplemental files released with the original publications.
DOI: 10.6084/m9.figshare.16869177.v2
title: Supporting Information for Provenance Shifts During Neogene Brahmaputra Delta Progradation Tied to Coupled Climate, Tectonic, and Watershed Change in the Eastern Himalaya submitted to Geochemistry, Geophysics, Geosystems

description: This supplemental text (pp. 2-4) describes the analytical procedures for the detrital zircon fission track (dzFT) and detrital zircon U-Pb analyses (dzUPb). Sample locations are listed in supplemental file S1. The new dzUPb analytical data are presented in supplemental file S2. Supplemental files S3, S4, and S5 give the data sets used in the regional dzUPb compilations, a list of the compiled data, and the intersample comparison statistical results for the dzUPb compilations, respectively. Supplemental S6 contains the Monte-Carlo modeling results for the source terrane inversions using DZMix (Sundell and Saylor, 2017). Supplemental file S7 contains the full data tables and a summary of the dzFT results. All prior datasets were compiled from the supplemental files released with the original publications.
DOI: 10.26186/146092
title: 2021 GHG Acreage Release Areas

description: The 2021 Offshore Greenhouse Gas Storage Acreage Release is a key strategy of the Australian Government to reduce emissions and support Australia's resource sector. The GHG acreage release will provide companies the opportunity to explore for offshore carbon dioxide injection and storage locations. The 2021 GHG acreage release consists of 5 areas across the Bonaparte, Browse and Northern Carnarvon Basins.
DOI: 10.11577/1834012
title: Heavy Atom Detergent/Lipid Combined X-ray Crystallography for Elucidating the Structure-Function Relationships of Membrane Proteins

description: Please check the README file for more information about the dataset.
DOI: 10.6084/m9.figshare.16869177
title: Supporting Information for Provenance Shifts During Neogene Brahmaputra Delta Progradation Tied to Coupled Climate, Tectonic, and Watershed Change in the Eastern Himalaya submitted to Geochemistry, Geophysics, Geosystems

description: This supplemental text (pp. 2-4) describes the analytical procedures for the detrital zircon fission track (dzFT) and detrital zircon U-Pb analyses (dzUPb). Sample locations are listed in supplemental file S1. The new dzUPb analytical data are presented in supplemental file S2. Supplemental files S3, S4, and S5 give the data sets used in the regional dzUPb compilations, a list of the compiled data, and the intersample comparison statistical results for the dzUPb compilations, respectively. Supplemental S6 contains the Monte-Carlo modeling results for the source terrane inversions using DZMix (Sundell and Saylor, 2017). Supplemental file S7 contains the full data tables and a summary of the dzFT results. All prior datasets were compiled from the supplemental files released with the original publications.
DOI: 10.6084/m9.figshare.16869177.v3
title: Supporting Information for Provenance Shifts During Neogene Brahmaputra Delta Progradation Tied to Coupled Climate, Tectonic, and Watershed Change in the Eastern Himalaya submitted to Geochemistry, Geophysics, Geosystems

description: This supplemental text (pp. 2-4) describes the analytical procedures for the detrital zircon fission track (dzFT) and detrital zircon U-Pb analyses (dzUPb). Sample locations are listed in supplemental file S1. The new dzUPb analytical data are presented in supplemental file S2. Supplemental files S3, S4, and S5 give the data sets used in the regional dzUPb compilations, a list of the compiled data, and the intersample comparison statistical results for the dzUPb compilations, respectively. Supplemental S6 contains the Monte-Carlo modeling results for the source terrane inversions using DZMix (Sundell and Saylor, 2017). Supplemental file S7 contains the full data tables and a summary of the dzFT results. All prior datasets were compiled from the supplemental files released with the original publications.
DOI: 10.5281/zenodo.5760159
title: Uncovering cryptic pockets in the SARS-CoV-2 spike glycoprotein

description: The COVID-19 pandemic has prompted a rapid response in vaccine and drug development targeting SARS-CoV-2. Herein, we modelled a complete membrane-embedded SARS-CoV-2 spike (S) protein and used molecular dynamics (MD) simulations in the presence of benzene probes designed to enhance discovery of cryptic, potentially druggable pockets. This approach recapitulated lipid binding sites previously characterized by cryo-electron microscopy, and uncovered a novel cryptic pocket with promising druggable properties located underneath the 617-628 loop, which was shown to be involved in modulating the stability of cleaved S protein trimers a well as the formation of S protein multimers on the viral surface. A multi-conformational behaviour of this loop in simulations was validated using hydrogen-deuterium exchange mass spectrometry (HDX-MS) experiments, supportive of opening and closing dynamics. The pocket is the site of multiple mutations associated with increased transmissibility and severity of infection found in SARS-CoV-2 variants of concern including D614G. Collectively, this work highlights the utility of the benzene mapping approach in uncovering potential druggable sites on the surface of SARS-CoV-2 targets.
DOI: 10.5281/zenodo.5760158
title: Uncovering cryptic pockets in the SARS-CoV-2 spike glycoprotein

description: The COVID-19 pandemic has prompted a rapid response in vaccine and drug development targeting SARS-CoV-2. Herein, we modelled a complete membrane-embedded SARS-CoV-2 spike (S) protein and used molecular dynamics (MD) simulations in the presence of benzene probes designed to enhance discovery of cryptic, potentially druggable pockets. This approach recapitulated lipid binding sites previously characterized by cryo-electron microscopy, and uncovered a novel cryptic pocket with promising druggable properties located underneath the 617-628 loop, which was shown to be involved in modulating the stability of cleaved S protein trimers a well as the formation of S protein multimers on the viral surface. A multi-conformational behaviour of this loop in simulations was validated using hydrogen-deuterium exchange mass spectrometry (HDX-MS) experiments, supportive of opening and closing dynamics. The pocket is the site of multiple mutations associated with increased transmissibility and severity of infection found in SARS-CoV-2 variants of concern including D614G. Collectively, this work highlights the utility of the benzene mapping approach in uncovering potential druggable sites on the surface of SARS-CoV-2 targets.
DOI: 10.6084/m9.figshare.17126924
title: Elephant microbiome code_final_Keady et al 2021

description: Analysis of elephant microbiome structure<br>