cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3761562.v1270
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: 10.6084/m9.figshare.7442468.v2
title: Ichnological photogrammetric data for the vertebrate track-bearing Pliensbachian–Toarcian sandstone interbeds of the Karoo continental flood basalts at Highlands, South Africa (see Bordy et al. 2019).

description: <b>Highlands project</b> field photographs used in the <b>photogrammetric</b> models, and the cleaned and aligned 3D models themselves (as recommended by Falkingham et al. 2018).Additional supporting data include ichnological measurements taken from the track-bearing sandstone interbeds of the Pliensbachian–Toarcian Karoo continental flood basalts at Highlands, South Africa and comparative trackway measurements from Chewore, Zimbabwe (using published trackway outlines from Lingham-Soliar and Broderick 2000). The measurements include standard track and trackway measurements, speed calculations for trackmakers that were theropods, ornithischians and synapsids. These morphometric parameters are supporting information for Bordy et al. (2019), and are available on Figshare here: <b>https://doi.org/10.6084/m9.figshare.9197558.v1</b><br>
DOI: 10.6084/m9.figshare.7442468.v1
title: Ichnological photogrammetric data for the vertebrate track-bearing Pliensbachian–Toarcian sandstone interbeds of the Karoo continental flood basalts at Highlands, South Africa ( see Bordy et al. 2019).

description: <b>Highlands project</b> field photographs used in the <b>photogrammetric</b> models, and the cleaned and aligned 3D models themselves (as recommended by Falkingham et al. 2018).Additional supporting data include ichnological measurements taken from the track-bearing sandstone interbeds of the Pliensbachian–Toarcian Karoo continental flood basalts at Highlands, South Africa and comparative trackway measurements from Chewore, Zimbabwe (using published trackway outlines from Lingham-Soliar and Broderick 2000). The measurements include standard track and trackway measurements, speed calculations for trackmakers that were theropods, ornithischians and synapsids. These morphometric parameters are supporting information for Bordy et al. (2019), and are available on Figshare here: <b>https://doi.org/10.6084/m9.figshare.9197558.v1</b><br>
DOI: 10.6084/m9.figshare.3761562.v1275
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: 10.6084/m9.figshare.3761562.v1274
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: 10.6084/m9.figshare.5640502.v3
title: OBSOLETE: Imine formation from neat aromatic primary amines and benzaldehyde (optimized using (aug)-pcseg-0) (part I)

description: Input and output files from quantum chemical computation of the reaction mechanism<br><br><br>https://peerj.com/preprints/27710v1/<br><br><br>SUPERSEDED by the computations present in 10.6084/m9.figshare.8794859, which have been published as:<br>"New insights into the mechanism of Schiff base synthesis from aromatic amines in the absence of acid catalyst or polar solvents" PeerJ Organic Chemistry 2, e4 (DOI: 10.7717/peerj-ochem.4)
DOI: 10.6084/m9.figshare.5640502.v2
title: Imine formation from neat aromatic primary amines and benzaldehyde (optimized using (aug)-pcseg-0) (part I)

description: Input and output files from quantum chemical computation of the reaction mechanism<br>
DOI: 10.6084/m9.figshare.10025147.v1
title: grid.417738.e

description: Network data for What does NZ research look like<br>
DOI: 10.6084/m9.figshare.10024994.v1
title: grid.252547.3

description: Network data for What does NZ research look like<br>
DOI: 10.6084/m9.figshare.3761562.v1278
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: 10.6084/m9.figshare.3761562.v1277
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: 10.6084/m9.figshare.3761562.v1280
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: 10.6084/m9.figshare.3761562.v1279
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: 10.6084/m9.figshare.7056161.v4
title: A Sustainable Collaboratory for Coastal Resilience Research

description: Our goal is to create a cloud-ready repository of open-source coastal modeling tools which enable scientists and engineers to use high performance computers to study a variety of physical and ecological processes. The system we are building leverages Jupyter notebooks, Docker, Singularity, and the Agave Platform to create a platform for running jobs and analyzing data in a way that is (1) intuitive, (2) repeatable, (3) and collaborative. The paper describes the methodology to integrate the four technologies into the system that serves the coastal resilience research collaboratory. Two commonly used open-source numer- ical models are used to demonstrate the utility of the system. Simulation results of ocean waves generated by Hurricane Issac (2012) and coastal wave evolution are presented as an illustration. The sustainability of the collaboratory is discussed in detail.
DOI: 10.6084/m9.figshare.7056161.v3
title: A Sustainable Collaboratory for Coastal Resilience Research

description: Our goal is to create a cloud-ready repository of open-source coastal modeling tools which enable scientists and engineers to use high performance computers to study a variety of physical and ecological processes. The system we are building leverages Jupyter notebooks, Docker, Singularity, and the Agave Platform to create a platform for running jobs and analyzing data in a way that is (1) intuitive, (2) repeatable, (3) and collaborative. The paper describes the methodology to integrate the four technologies into the system that serves the coastal resilience research collaboratory. Two commonly used open-source numer- ical models are used to demonstrate the utility of the system. Simulation results of ocean waves generated by Hurricane Issac (2012) and coastal wave evolution are presented as an illustration. The sustainability of the collaboratory is discussed in detail.
DOI: 10.6084/m9.figshare.10251278.v1
title: observations of temperature

description: The observational dataset is provided by National Meteorological Information Center of China Meteorological Administration.
DOI: 10.6084/m9.figshare.10260359.v2
title: miclic breakout

description: miclic breakout
DOI: 10.6084/m9.figshare.10260359.v1
title: miclic breakout

description: miclic breakout
DOI: 10.6084/m9.figshare.6151127.v7
title: Full dataset for high-throughput phenotyping-enabled genetic dissection of crop lodging in wheat.

description: The primary objective of this research was to evaluate the potential of unmanned aerial systems-based imaging for quantification of crop lodging in wheat. This dataset contains images and associated files collected from large wheat breeding trials over the course of two seasons in 2016 and 2017. Using the validated digital lodging scores, we performed Genome-Wide Assocation Analysis on 1035 wheat genotypes and found a consistent peak at chromosome 2A. To follow up, we tested the hypothesis of complex genetic architecture of lodging in wheat by applying genomic prediction cross-validations within and across environments. Our findings provide a strong proof-of-concept in support of the application of unmanned aerial systems in breeding and genetic studies. The manuscript of this work is currently under review. This dataset provides a comprehensive collection of files to replicate the proposed methods and analysis. <br>
DOI: 10.6084/m9.figshare.6044525.v2
title: ferroelectric search misc. mongo databases

description: These files are included for archiving purposes. They are not intended for the general user.<br>These are compressed tgz folders generated by mongodump for multiple mongodbs used to create the ferroelectric_dataset json files. <br>These databases include the distortion databases generated from Bilbao Crystallographic Server queries, the Fireworks launchpad database (merged from multiple databases), and the full VASP calculation database (merged from multiple).<br>loadDBs.sh is included to upload the mongodumps to a mongodb after the files are untarred (tar -xvzf filename.tgz).
DOI: 10.6084/m9.figshare.6044525.v1
title: ferroelectric search misc. mongo databases

description: These files are included for archiving purposes. They are not intended for the general user.<br>These are compressed tgz folders generated by mongodump for multiple mongodbs used to create the ferroelectric_dataset json files. <br>These databases include the distortion databases generated from Bilbao Crystallographic Server queries, the Fireworks launchpad database (merged from multiple databases), and the full VASP calculation database (merged from multiple).<br>loadDBs.sh is included to upload the mongodumps to a mongodb after the files are untarred (tar -xvzf filename.tgz).
DOI: 10.6084/m9.figshare.5481541.v2
title: DFT study of the reaction mechanism of the Das/Chechik/Marek synthesis of stereodefined quaternary carbon centers

description: Inputs, outputs, and orbitals accompanying the manuscript<br><br>Bernardo and Silva (2017) DFT study of the reaction mechanism of the Das/Chechik/Marek synthesis of stereodefined quaternary carbon centers (in preparation )<br>
DOI: 10.6084/m9.figshare.5481541.v1
title: DFT study of the reaction mechanism of the Das/Chechik/Marek synthesis of stereodefined quaternary carbon centers

description: Inputs, outputs, and orbitals accompanying the manuscript<br><br>Bernardo and Silva (2017) DFT study of the reaction mechanism of the Das/Chechik/Marek synthesis of stereodefined quaternary carbon centers (in preparation )<br>
DOI: 10.6084/m9.figshare.9209420.v1
title: Table 1 - Angiosperms of dry grasslands and savannahs of Jalapão, the largest conserved Cerrado area in Brazil

description: <b>Table 1.</b> Taxa, followed by habit and voucher, recorded in this study for the Jalapão region, Tocantins, Brazil, within open cerrado physiognomies with dry non-rocky soils. Voucher prefix is the herbarium acronym, followed by collector and collector number.
DOI: 10.6084/m9.figshare.3761562.v1292
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: 10.6084/m9.figshare.3761562.v1291
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: 10.6084/m9.figshare.10308260.v1
title: Changes of basic variables for maps for 2050s and 2080s

description: Data in this directory is for generating spatial distribution maps of the four bisic variables (Tm, Tx, Tn and Pr). For each variable, there are 17 files representing 12 months, 4 seasons and annual averages. <br>In each table, there are 43 colums include id, Longitude, Latitude, 5 percentiles [5%,25%,50%,75% and 95%] for each of the 4 RCPs for 2 periods [2050s and 2080]<br>In each table, there are 8965 rows (head and 8964 grids).<br><br><br>
DOI: 10.6084/m9.figshare.10308125.v1
title: Annal values of ensemble mean for 50 Sub-regions of Ontario

description: In this directory, there are 90 csv files, 52 files for the 4 basic variables (mean, minimum and maximum temperature, and precipitation; 12 monthly averages and 1 annual average) and 48 files for climate extremes indices.<br>In each file, there are 121 columns (RCPs,Region Name, and Data_1[year of 1981], Data_2[year of 1982],...,Data_119[2099]), and 201 rows (row 1: head, 50 rows for RCP2.6 + 50 rows for RCP4.5 + 50 rows for RCP 6.0 +50 rows for RCP8.5). Each row represents one region indicated by regName.
DOI: 10.6084/m9.figshare.10308059.v1
title: Annal values of ensemble mean for provincial averages of Ontario

description: CSV format annual averages of 43 climate extrems indices and for basic climate variables (mean, maximum and minimum temperature, and precipiataion) for 1981-2099. Each table includes five columns: Year, RCP26,RCP45, RCP60 and RCP85; and 119 rows: 1981, 1982,...,2098, 2099.
DOI: 10.6084/m9.figshare.3761562.v1297
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: 10.6084/m9.figshare.3761562.v1296
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: 10.6084/m9.figshare.9831053.v1
title: Aboveground resource allocation in response to root herbivory is enhanced by the arbuscular mycorrhizal symbiosis

description: Data associated with this publication are separated into seven files- Treatments (meta-data)<br>- Plant biomass data- Plant root chemistry- Plant leaf chemistry- Mycorrhizal colonisation- Insect performance- Photosynthesis
DOI: 10.6084/m9.figshare.5826153.v2
title: Zhu Agricultural Climate Indices

description: See publication for details (https://agupubs.onlinelibrary.wiley.com/doi/full/10.1002/2017EF000687)<br>File updated on Nov 19, 2019 to fix formatting problems in the conversion to NetCDF. -TJT
DOI: 10.6084/m9.figshare.10069247.v1
title: EBP1 Regulates the Capacity of Protein Translation

description: Arabidopsis pgEBP1-YFP line expressing EBP1-YFP under the EBP1 promoter were grown in 3 repeats alongside with the same number of repeats of the control 35CaMVS:GFP (ref) for 7 days at 16/8 light and 150-200 seedlings were frozen in liquid N2 and total proteins were extracted in 1 mL of lysis buffer(150 mM NaCl, 1% Igepal CA-630, 50 mM Tris HCl (pH 8.0), 1 mM DTT, 3 mM PMSF, protease inhibitor cocktail, 3mM pNPP 10 uM MG132). The total protein extracts (4mg/IP) were cleared by centrifugation at 13,000g and 4°C for 20 min to remove remaining membrane and DNA, and the supernatant was incubated with 50 µl magnetic beads coupled to monoclonal mouse anti-GFP antibody (Miltenyi Biotec) for 15 min on ice. Magnetic columns were equilibrated using 250 µl lysis buffer. Cell lysates were added to the column after incubation and washed two times with 1 ml ice-cold lysis buffer, five times with 2 ml of 1xPBS (Dulbecco’s Phosphate Buffered Saline), and 2 times 1 ml 25 mM ABC (Ammonium bicarbonate), pH 7.5. Purified proteins were predigested by adding 20 µl 25 mM ABC , pH 7.5, 1 mM DTT, and 150 ng trypsin (Promega) for label-free experiments. After in-column digestion for 30 min at room temperature, proteins were eluted by adding two times 50 µl 25 mM ABC, pH 7.5, and 2.2 mM Iodoacetamide. Proteins were digested overnight at room temperature. The digestion was stopped by adding 5 µl 10 % formic acid, and peptides of each experiment were split and purified on two C18 Stage Tips and stored at 4°C.<br><br>The peptide mixture was analyzed by LC-MS/MS using a nanoflow RP-HPLC (LC program: linear gradient of 3-40 % B in 100 min, solvent A: 0.1% formic acid in water, solvent B: 0.1% formic acid in acetonitrile) on-line coupled to a linear ion trap-Orbitrap (Orbitrap-Fusion-Lumos, Thermo Fisher Scientific) mass spectrometer operating in positive ion mode.<br><br>o determine bait specific interactors, MaxQuant proteomics software version 1.6.6.0 (Cox and 131Mann 2008)based label-free quantification analysis was carried out on the corresponding MS data 132files (.raw) representing 6 repeats of each pull down against the Arabidopsis thaliana protein and 133common laboratory contaminant databases, concatenated with the reverse sequences. Standard 134parameters were kept unchanged with false discovery rates (FDRs) of 0.01 for peptide and protein 135identification, and the minimum ratio set at 1. Unique and razor peptides were used for quantification 136with “match between runs” option enabled to permit for peptide identification transfer between the 137corresponding LC-MS raw files.
DOI: 10.6084/m9.figshare.10565897.v1
title: 16S raw amplicon sequences from Para

description: 16S raw amplicon sequences from Para DNA-SIP
DOI: 10.6084/m9.figshare.8217854.v4
title: First draft genome for the sand-hopper Trinorchestia longiramus

description: Crustacean amphipods are important trophic links between primary producers and higher consumers. Although most amphipods occur in or around aquatic environments, the family Talitridae is the only family found in terrestrial and semi-terrestrial habitats. The sand-hopper <i>Trinorchestia longiramus</i> is a talitrid species often found in the sandy beaches of South Korea. In this study, we present the first draft genome assembly and annotation of this species. We generated ~380.3 Gb of sequencing data assembled in a 0.89 Gb draft genome. Annotation analysis estimated 26,123 protein-coding genes, with 89.9% genome completeness. Comparison with other amphipods showed that <i>T</i>.<i> longiramus</i> has 327 unique orthologous gene clusters, many of which are expanded gene families responsible for cellular transport of toxic substances, homeostatic processes, and ionic and osmotic stress tolerance. This first talitrid genome will be useful for further understanding the mechanisms of adaptation in terrestrial environments, the effects of heavy metal toxicity, as well as for studies of comparative genomic variation across amphipods.
DOI: 10.6084/m9.figshare.8217854.v3
title: First draft genome for the sand-hopper Trinorchestia longiramus

description: Crustacean amphipods are important trophic links between primary producers and higher consumers. Although most amphipods occur in or around aquatic environments, the family Talitridae is the only family found in terrestrial and semi-terrestrial habitats. The sand-hopper <i>Trinorchestia longiramus</i> is a talitrid species often found in the sandy beaches of South Korea. In this study, we present the first draft genome assembly and annotation of this species. We generated ~380.3 Gb of sequencing data assembled in a 0.89 Gb draft genome. Annotation analysis estimated 26,123 protein-coding genes, with 89.9% genome completeness. Comparison with other amphipods showed that <i>T</i>.<i> longiramus</i> has 327 unique orthologous gene clusters, many of which are expanded gene families responsible for cellular transport of toxic substances, homeostatic processes, and ionic and osmotic stress tolerance. This first talitrid genome will be useful for further understanding the mechanisms of adaptation in terrestrial environments, the effects of heavy metal toxicity, as well as for studies of comparative genomic variation across amphipods.
DOI: 10.6084/m9.figshare.3761562.v1306
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: 10.6084/m9.figshare.3761562.v1305
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: 10.6084/m9.figshare.7083182.v2
title: Multiscale socio-ecological networks

description: This archive contains two types of data (and a README file). A .csv file containing information on socio-ecological interactions in 16 case study sites (CSS) in Europe and a shapefile containing the spatial information associated with the interactions. We define a socio-ecological interaction as the presence of an individual in a given zone of a site during a given hour. Socio-ecological interactions have been extracted from a Flickr database containing more than 150,000 photographs taken by about 2,000 users between 2000 and 2017 in 16 case study sites. Each photograph has been manually validated and classified in ordrer to identify different types of interactions (agricultural and open landscape, sparse forest landscape, forested landscape, mountain landscape, anthropic infrastructures, water landscapes and wetlands). In practice, we divided every sites in zones using square grid cells with a side length of 500 meters. We also identified the place of residence of every users based on their Flickr timeline using a 100 x 100 km^2 world grid cells. At the end of the process we obtain a multiscale socio-ecological network composed of 7,354 socio-ecological interactions from 365 distinct places of residence all over the world to 3,418 grid cells located in 16 study sites.
DOI: 10.6084/m9.figshare.7083182.v1
title: Data.zip

description: This archive contains two types of data (and a README file). A .csv file containing information on socio-ecological interactions in 16 case study sites (CSS) in Europe and a shapefile containing the spatial information associated with the interactions. We define a socio-ecological interaction as the presence of an individual in a given zone of a site during a given hour. Socio-ecological interactions have been extracted from a Flickr database containing more than 150,000 photographs taken by about 2,000 users between 2000 and 2017 in 16 case study sites. Each photograph has been manually validated and classified in ordrer to identify different types of interactions (agricultural and open landscape, sparse forest landscape, forested landscape, mountain landscape, anthropic infrastructures, water landscapes and wetlands). In practice, we divided every sites in zones using square grid cells with a side length of 500 meters. We also identified the place of residence of every users based on their Flickr timeline using a 100 x 100 km^2 world grid cells. At the end of the process we obtain a multiscale socio-ecological network composed of 7,354 socio-ecological interactions from 365 distinct places of residence all over the world to 3,418 grid cells located in 16 study sites.
DOI: 10.6084/m9.figshare.3761562.v1310
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: 10.6084/m9.figshare.3761562.v1309
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: 10.6084/m9.figshare.6989636.v1
title: matched datasets

description: 100 matched datasets to account for variability in the datasets and therefore the outcome of the prediction models.
DOI: 10.6084/m9.figshare.9885902.v4
title: The properties of mid-troposphere CO2 concentrations and global surface air temperature multilayer networkSupporting Information

description: The properties of mid-tropospheric CO<sub>2</sub> data and temperature multilayer network.