cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7649051.v2
title: Hybrid Enterobacteriaceae assemblies using PacBio+Illumina or ONT+Illumina sequencing

description: Data associated with: De Maio, Shaw, et al. on behalf of the REHAB consortium (2019), Comparison of long-read sequencing technologies in the hybrid assembly of complex bacterial genomes. biorxiv 530824 <br>Illumina sequencing allows rapid, cheap and accurate whole genome bacterial analyses, but short reads (&lt;300 bp) do not usually enable complete genome assembly. Long read sequencing greatly assists with resolving complex bacterial genomes, particularly when combined with short-read Illumina data (hybrid assembly). However, it is not clear how different long-read sequencing methods impact on assembly accuracy. <br>In this study, we compared hybrid assemblies for 20 bacterial isolates, including two reference strains, using Illumina sequencing and long reads from either Oxford Nanopore Technologies (ONT) or from SMRT Pacific Biosciences (PacBio) sequencing platforms.<br><br>This set of files includes all hybrid assemblies produced using Unicycler with different sequencing approaches and strategies. Each isolate has 8 assemblies = 4 x ONT-Illumina + 4 x PacBio-Illumina. There are a total of 158 assemblies as two assemblies did not finish (8x20 - 2 = 160 - 2 = 158).<br><br>Assemblies were produced from different long read preparation strategies:• <b>Basic</b>: no filtering or correction of reads (i.e. all long reads available used for assembly).<br>• <b>Corrected</b>: Long reads were error-corrected and subsampled (preferentially selecting longest reads) to 30-40x coverage using Canu (v1.5, https://github.com/marbl/canu) with default options.<br>• <b>Filtered</b>: long reads were filtered using Filtlong (v0.1.1, https://github.com/rrwick/Filtlong) by using Illumina reads as an external reference for read quality and either removing 10% of the worst reads or by retaining 500Mbp in total, whichever resulted in fewer reads. We also removed reads shorter than 1kb and used the --trim and --split 250 options.<br>• <b> Subsampled</b>: we randomly subsampled long reads to leave approximately 600Mbp (corresponding to a long read coverage around 100x).<br>Assembly file names have the following format:<br>${sample-name}_${preparation-strategy}_${long-read-sequencing}.fastae.g. for sample CFT073 the filtered PacBio-Illumina assembly is: CFT073_filtered_pacbio.fasta<br><br>See the associated preprint for more details: https://doi.org/10.1101/530824
DOI: 10.6084/m9.figshare.3761562.v1164
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.v1163
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.v1168
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.v1167
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.9037382.v1
title: Figure 1

description: Raw image files for Figure 1.
DOI: 10.6084/m9.figshare.8015000.v2
title: Soleus and Tibialis Anterior Motor Axon Excitability

description: These are data files to accompany the paper "Nerve Excitability Differences in Slow and Fast Motor Axons of the Rat: more than just I_h". There are 4 separate files containing the nerve excitability tests on motor axons to two different muscles (soleus and tibialis anterior) using two different anaesthetics (ketamine-xylazine and sodium pentobarbital). The experiments were done using QTrac software and the raw data files were exported to Excel for sharing. There are an additional 2 PDF files, one of which is a research note with data complimentary to the published manuscript.
DOI: 10.6084/m9.figshare.8015000.v1
title: Soleus and Tibialis Anterior Motor Axon Excitability

description: These are data files to accompany the paper "Nerve Excitability Differences in Slow and Fast Motor Axons of the Rat: more than just I_h". There are 4 separate files containing the nerve excitability tests on motor axons to two different muscles (soleus and tibialis anterior) using two different anaesthetics (ketamine-xylazine and sodium pentobarbital). The experiments were done using QTrac software and the raw data files were exported to Excel for sharing. There are an additional 3 PDF files, one of which is a research note with data complimentary to the published manuscript.
DOI: 10.6084/m9.figshare.7353164.v2
title: BNCspoken2014_dative_dataset_v1.csv

description: Dataset created by Gard Jenset, Barbara McGillivray, and Michael Rundell for the study published in Jenset et al. (2018).<br>It is derived from the BNC Spoken 2014 corpus of Spoken British English (Love et al. 2017) available at https://cqpweb.lancs.ac.uk/bnc2014spoken.<br>References:<br>Jenset GB, McGillivray B, Rundell M. (2018) The English dative alternation revisited: Fresh insights from contemporary British spoken data. In: Brezina V, Love R, Aijmer K, editors. Corpus approaches to contemporary British speech: Sociolinguistic studies of the spoken BNC2014. London: Routledge; 2018. pp. 185–207.<br><br>Love, R., Dembry, C., Hardie, A., Brezina, V., & McEnery, T. (2017). The Spoken BNC2014: Designing and building a spoken corpus of everyday conversations. International Journal of Corpus Linguistics, 22(3), 319-344. DOI: 10.1075/ijcl.22.3.02lov<br>
DOI: 10.6084/m9.figshare.7353164.v1
title: BNCspoken2014_dative_dataset_v1.csv

description: Dataset created by Gard Jenset, Barbara McGillivray, and Michael Rundell for the study <br>Jenset GB, McGillivray B, Rundell M. The English dative alternation revisited: Fresh insights from contemporary British spoken data. In: Brezina V, Love R, Aijmer K, editors. Corpus approaches to contemporary British speech: Sociolinguistic studies of the spoken BNC2014. London: Routledge; 2018. pp. 185–207. It is derived from the BNC Spoken 2014 corpus of Spoken British English (https://cqpweb.lancs.ac.uk/bnc2014spoken)
DOI: 10.6084/m9.figshare.3761562.v1182
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.v1181
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.9250634.v1
title: data-mouse

description: Data consists of full and sparse reconstructed optoacoustic images from phantom and mice. <br>
DOI: 10.6084/m9.figshare.3761562.v1186
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.v1185
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.v1191
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.v1190
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.9275018.v1
title: FastQC quality reports (raw data)

description: FASTQC reports for the raw RNA-seq data from flat periwinkles
DOI: 10.6084/m9.figshare.9273587.v1
title: FastQC quality reports (clean data)

description: FASTQC reports for the RNA-seq data from flat periwinkles after filtering (clean)
DOI: 10.6084/m9.figshare.3761562.v1195
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.v1194
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.7479863.v1
title: Burgersdorp trace fossil surface

description: Containing one of the richest late Early to early Middle Triassic continental biotas globally, the Burgersdorp Formation of the main Karoo Basin in South Africa hosts a diverse vertebrate fossil assemblage. Comparatively, trace fossils in this unit are lesser known, and thus how the Burgersdorp biotas behaved and interacted with their palaeoenvironment remain enigmatic. Here we report on two Middle Triassic continental ichnofossil localities dominated by tetrapod scratch traces from the Anisian part (subzones B and C) of the Burgersdorp Formation in the main Karoo Basin (Eastern Cape, South Africa). Analyses of the trace fossils and associated sedimentary facies aim to identify the possible trace makers, their behaviours and the local depositional conditions in this southern part of Pangea. We establish a robust palaeoenvironmental context for the ichnofossils combining ichnological data with the sedimentological records of the trace fossil sites and the nearby type area of the Burgersdorp Formation. To facilitate comparisons with similar trace fossils in the future, we quantify the morphometric parameters of these Burgersdorp trace fossils in digital models. Our results show that bilobated, branching and cross-cutting furrow casts with abundant scratch traces: a) were generated within crevasse splay deposits adjacent to meandering river channels in a semi-arid setting, and b) can be interpreted as the claw-scratched ventral walls of a therapsid burrow system with a 3D network architecture. This well-developed vertebrate burrow network complex from the Middle Triassic of South Africa is among a handful of similarly complex vertebrate trace fossils in the global pre-Jurassic ichnological record. Collectively, these trace fossils indicate that the Triassic, and in particular the Middle Triassic, was an important period in the evolutionary history of the complex vertebrate burrowing.
DOI: 10.6084/m9.figshare.9657398.v1
title: Tillage systematic review data extraction files

description: Individual files from the systematic review on the impacts of tillage on soil organic carbon in temperate and boreal regions: https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-017-0108-9#Sec53<br>File names correspond to those in the systematic map database.
DOI: 10.6084/m9.figshare.5649394.v5
title: Imine formation from neat aromatic primary amines and benzaldehyde (optimized using (aug)-pcseg-0) (part II)

description: Additional Input and output files from quantum chemical computation of the reaction mechanism<br>
DOI: 10.6084/m9.figshare.9686315.v1
title: ERP data

description: ERP data for the manuscript entitled "Prediction differs at sentence and discourse level: An event-related potential study"
DOI: 10.6084/m9.figshare.3761562.v1206
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.v1205
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.3803955.v4
title: Plant palatability and orthopteran communities along an elevation gradient

description: <b>When using these datasets, please cite the following reference: </b><br>Descombes, P., Marchon, J., Pradervand, J.-N., Bilat, J., Guisan, A., Rasmann, S., & Pellissier, L. (2017). Community-level plant palatability increases with elevation as insect herbivore abundance declines. <i>Journal of Ecology</i>, 105, 142–151. https://doi.org/10.1111/1365-2745.12664<br>Details on the data sampling are fully described in the aforementioned reference.<br>DataOrtho.txt: This dataset contains the richness and abundance of 175 orthopteran (Ensifera and Caelifera) communities sampled along an elevation gradient in the Swiss Alps (only above 1000m). <br>DataOrtho_Total.txt: This dataset contains the richness and abundance of 190 orthopteran (Ensifera and Caelifera) communities sampled along an elevation gradient in the Swiss Alps. <br>DataTrait_Species.txt: This dataset contains the leaf traits (SLA, LDMC, C:N, leaf palatability) collected for 287 species along an elevation gradient in the Swiss Alps.<br>DataTrait_CWM.txt: This dataset contains the community weighted mean of the traits (SLA, LDMC, C:N, leaf palatability) calculated for 307 plant communities along an elevation gradient in the Swiss Alps. <br>
DOI: 10.6084/m9.figshare.3803955.v3
title: Plant palatability and orthopteran communities along an elevation gradient

description: DataOrtho.txt: This dataset contains the richness and abundance of 175 orthopteran (Ensifera and Caelifera) communities sampled along an elevation gradient in the Swiss Alps (only above 1000m). <br>DataOrtho_Total.txt: This dataset contains the richness and abundance of 190 orthopteran (Ensifera and Caelifera) communities sampled along an elevation gradient in the Swiss Alps. <br>DataTrait_Species.txt: This dataset contains the leaf traits (SLA, LDMC, C:N, leaf palatability) collected for 287 species along an elevation gradient in the Swiss Alps.<br>DataTrait_CWM.txt: This dataset contains the community weighted mean of the traits (SLA, LDMC, C:N, leaf palatability) calculated for 307 plant communities along an elevation gradient in the Swiss Alps. <br>
DOI: 10.6084/m9.figshare.6837053.v1
title: PolB Phylogeny

description: PolB Phylogeny, see directory_contents.txt for details by Nick Irwin.
DOI: 10.6084/m9.figshare.8850767.v2
title: old data

description: Merged data set of all raw data of the meta study<br>
DOI: 10.6084/m9.figshare.8850767.v1
title: truth_telling_meta_study_merged_data.csv

description: Merged data set of all raw data of the meta study<br>
DOI: 10.6084/m9.figshare.9705263.v2
title: Data from: Impacts of microplastics on growth and health of hermatypic corals are species-specific

description: 3D models and data from "Impacts of microplastics on growth and health of hermatypic corals are species-specific"
DOI: 10.6084/m9.figshare.9705263.v1
title: Data from: Impacts of microplastics on growth and health of hermatypic corals are species-specific

description: 3D models and data from "Impacts of microplastics on growth and health of hermatypic corals are species-specific"
DOI: 10.6084/m9.figshare.7661093.v3
title: RIL_v1.5_mapping_UN.csv.gz

description: Gene expression values for Brassica rapa<br>
DOI: 10.6084/m9.figshare.7661093.v2
title: RIL_v1.5_mapping_UN.csv.gz

description: Gene expression values for Brassica rapa<br>
DOI: 10.17632/6pfcfytmsh.1
title: Replication Files: "Skill Premiums and the Supply of Young Workers in Germany"

description: This collection of programs allows a replication of the findings reported in "Skill Premiums and the Supply of Young Workers in Germany", Labour Economics, Vol. 72, 102034, 2021. (https://doi.org/10.1016/j.labeco.2021.102034)
DOI: 10.6084/m9.figshare.3208252.v2
title: Data from: Spatial ecology of endophytes in Taiwan: combining traditional collection and next-generation sequence-based microbial survey techniques.

description: These are the original Illumina MiSeq and other datafiles associated with the paper: Spatial ecology in the Xylariaceae: combining traditional collection and next-generation sequence-based microbial survey techniques.
DOI: 10.6084/m9.figshare.3208252.v1
title: Data from: Spatial ecology in the Xylariaceae: combining traditional collection and next-generation sequence-based microbial survey techniques.

description: These are the original Illumina MiSeq and other datafiles associated with the paper: Spatial ecology in the Xylariaceae: combining traditional collection and next-generation sequence-based microbial survey techniques.
DOI: 10.6084/m9.figshare.3761562.v1211
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.v1210
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.8872463.v1
title: grid.1035.7

description: Network Graph Files for grid.1035.7, for "What Does a University Look Like?" Project
DOI: 10.6084/m9.figshare.8872790.v1
title: grid.26009.3d

description: Network Graphs for institution grid.26009.3d created for "What Does a University Look Like?" poster
DOI: 10.6084/m9.figshare.8874581.v1
title: grid.438526.e

description: Network Graphs for institution grid.438526.e created for "What Does a University Look Like?" poster
DOI: 10.6084/m9.figshare.8947097.v1
title: grid.12316.37

description: Network Graphs for institution grid.12316.37 created for "What Does a University Look Like?" poster
DOI: 10.6084/m9.figshare.8948774.v1
title: grid.21729.3f

description: Network Graphs for institution grid.21729.3f created for "What Does a University Look Like?" poster
DOI: 10.6084/m9.figshare.8955170.v1
title: grid.168010.e

description: Network Graphs for institution grid.168010.e created for "What Does a University Look Like?" poster
DOI: 10.6084/m9.figshare.8977412.v1
title: grid.40263.33

description: Network Graphs for institution grid.40263.33 created for "What Does a University Look Like?" poster
DOI: 10.6084/m9.figshare.8977430.v1
title: grid.10854.38

description: Network Graphs for institution grid.10854.38 created for "What Does a University Look Like?" poster
DOI: 10.6084/m9.figshare.3761562.v1214
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.v1213
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.9746609.v1
title: Insect DNA from bat faeces

description: FASTQ files from 178 bat faecal samples. Target DNA is the 158-bp minibarcode region for insects on the CO1 gene (ZBJ primers).
DOI: 10.6084/m9.figshare.9747704.v2
title: Data for manuscript

description: This is the necessary data required to replicate the results in:Optimizing the intrinsic parallel diffusivity in NODDI: an extensive empirical evaluation
DOI: 10.6084/m9.figshare.9747704.v1
title: Data for manuscript

description: This is the necessary data required to replicate the results in:Optimizing the intrinsic parallel diffusivity in NODDI: an extensive empirical evaluation
DOI: 10.6084/m9.figshare.3761562.v1219
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.v1218
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.4028685.v4
title: Sample annotations for CAGE human PRJDB3010 (FANTOM5)

description: A tab-separated values (TSV) file for RefEx_sample_ann_CAGE_human_PRJDB3010
DOI: 10.6084/m9.figshare.4733026.v1
title: Memory scrutinized through electrical brain stimulation: a review of 80 years of experiential phenomena (Curot et al. 2017).

description: Electrical Brain Stimulations (EBS) sometimes induce reminiscences, but it is largely unknown what type of memories they can trigger. We reviewed 80 years of literature on reminiscences induced by EBS and added our own database. This database includes all these reminiscences. We classified them according to modern conceptions of memory. <br><br>You can find the results of our analyses in our article (see reference below). We demonstrated that EBS mostly induced poorly contextualized and detailed memories. This overrepresentation of vaguely contextualized memories fits with the dynamic and progressive semantisation of episodic memories. The location of EBS influences the qualitative nature of induced memories suggesting that memory may be activated in a predictable manner. <br><br><br>This database is regularly updated (last update - september 2019).<br><br><br>This database is provided for research purpose. If you would like to add any information, or remove information for copyright reasons, please send an email at jonathan.curot@cnrs.fr<br><br>If you use this database, please cite our article:<br>Curot, J., Busigny, T., Valton, L., Denuelle, M., Vignal, J.P., Maillard, L., Chauvel, P., Pariente, J., Trebuchon, A., Bartolomei, F., et al. (2017). Memory scrutinized through electrical brain stimulation: A review of 80 years of experiential phenomena. <i>Neuroscience & Biobehavioral Reviews</i>. <i>78</i>, 161–177.https://doi.org/10.1016/j.neubiorev.2017.04.018<br>Other details can also be found in:Curot, J., Valton, L., Denuelle, M., Vignal, J. P., Maillard, L., Pariente, J., ... & Barbeau, E. J. (2018). Déjà-rêvé: Prior dreams induced by direct electrical brain stimulation. <i>Brain stimulation</i>, <i>11</i>(4), 875-885.https://doi.org/10.1016/j.brs.2018.02.016<i> </i><br><br><br>
DOI: 10.6084/m9.figshare.9770765.v1
title: The role of microRNA-210-3p in hepatitis B virus-related hepatocellular carcinoma

description: <b>Supplementary Figure 1.</b> List of the normalized expression intensities for the 879 miRNA probes that were used for the analysis.
DOI: 10.6084/m9.figshare.8259134.v2
title: SMSNet's predictions for HLA peptidome and human phosphoproteome datasets

description: SMSNet's predicted amino acid sequences for a public HLA peptidome dataset (MassIVE accession MSV000080527) and human phosphoproteome dataset (PRIDE accession PXD009227). For the human phosphoproteome dataset, both SMSNet's original output and the evidence output from MaxQuant after re-searching with additional peptides from SMSNet are provided.
DOI: 10.6084/m9.figshare.8259134.v1
title: SMSNet's predictions for HLA peptidome and human phosphoproteome datasets

description: SMSNet's predicted amino acid sequences for a public HLA peptidome dataset (MassIVE accession MSV000080527) and human phosphoproteome dataset (PRIDE accession PXD009227).