cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5480701.v1
title: BARM gene sequences

description: The proteins.faa.gz file contains amino-acid sequences for the genes present on contigs longer than 1 Kb contained in the Baltic Sea reference metagenome assembly. The proteins.ffn.gz file contains the nucleotide sequences for the same genes.<br>The proteins.bed.gz file contains the position on the assembly file for each gene.
DOI: 10.5281/zenodo.3932115
title: Evolution of field-induced metastable phases in the Shastry-Sutherland lattice magnet TmB4

description: Open data for "Evolution of field-induced metastable phases in the Shastry-Sutherland lattice magnet TmB4 ", Phys. Rev. B, 120, 060407, 2020 (R)
DOI: 10.6084/m9.figshare.5480710.v1
title: State of Open Data survey 2017

description: Anonymised raw data from Digital Science Open Data survey 2017
DOI: 10.6084/m9.figshare.5480659
title: 2-Methyl-4-chlorophenoxyacetic acid (MCPA) and bromoxynil herbicide ingestion

description: <b>Context:</b> Ingestion of bromoxynil and 2-methyl-4-chlorophenoxyacetic acid (MCPA) in combination is associated with high mortality. Toxicity is characterised by hyperthermia and metabolic acidosis. Dialysis is a proposed treatment, but little data exist regarding its effectiveness. <b>Case details:</b> Case 1: A 50-year-old female presented 18 h post-ingestion of 200 mL of bromoxynil(200 g/L) and MCPA(200 g/L). She was agitated, tachycardic and tachypnoeic. She was intubated and continuous venovenous haemodiafiltration (CVVHDF) was commenced. She deteriorated, becoming hypotensive, hyperthermic (39.5 °C) and hypercapnic (80 mmHg). She was cooled, paralysed, received CVVHDF for 2d and was extubated on day 4 making a full recovery. Case 2: A 60-year-old male presented 6 h post-ingestion of an unknown amount of bromoxynil (200 g/L) and MCPA (200 g/L). On arrival, he was tachycardic and tachypneic (pCO<sub>2</sub> 25 mmHg). At 8h post-ingestion he became hyperthermic, hypercapnic and acidotic (pH 7.15), and was intubated, paralysed, cooled and received CVVHDF for 36 h. He was extubated after 42 h and made a full recovery. Bromoxynil and MCPA serum and effluent concentrations were measured. Peak MCPA serum concentrations were 161 µg/ml and 259 µg/ml and peak bromoxynil concentrations were 119 µg/ml and 155 µg/ml in case 1 and 2, respectively. The estimated clearance of both herbicides by CVVHDF was low (&lt;10 mL/min). <b>Conclusion:</b> CVVHDF did not result in significant clearance of either herbicide but may have assisted with hyperthermia control. Both patients survived with vigorous cooling, paralysis and ventilatory support.
DOI: 10.5281/zenodo.3932114
title: Evolution of field-induced metastable phases in the Shastry-Sutherland lattice magnet TmB4

description: Open data for "Evolution of field-induced metastable phases in the Shastry-Sutherland lattice magnet TmB4 ", Phys. Rev. B, 120, 060407, 2020 (R)
DOI: 10.6084/m9.figshare.5480716.v2
title: Nature Graduate Survey 2017

description: Anonymised raw data and questionnaire from Springer Nature's 2017 Graduate survey
DOI: 10.6084/m9.figshare.5480659.v1
title: 2-Methyl-4-chlorophenoxyacetic acid (MCPA) and bromoxynil herbicide ingestion

description: <b>Context:</b> Ingestion of bromoxynil and 2-methyl-4-chlorophenoxyacetic acid (MCPA) in combination is associated with high mortality. Toxicity is characterised by hyperthermia and metabolic acidosis. Dialysis is a proposed treatment, but little data exist regarding its effectiveness. <b>Case details:</b> Case 1: A 50-year-old female presented 18 h post-ingestion of 200 mL of bromoxynil(200 g/L) and MCPA(200 g/L). She was agitated, tachycardic and tachypnoeic. She was intubated and continuous venovenous haemodiafiltration (CVVHDF) was commenced. She deteriorated, becoming hypotensive, hyperthermic (39.5 °C) and hypercapnic (80 mmHg). She was cooled, paralysed, received CVVHDF for 2d and was extubated on day 4 making a full recovery. Case 2: A 60-year-old male presented 6 h post-ingestion of an unknown amount of bromoxynil (200 g/L) and MCPA (200 g/L). On arrival, he was tachycardic and tachypneic (pCO<sub>2</sub> 25 mmHg). At 8h post-ingestion he became hyperthermic, hypercapnic and acidotic (pH 7.15), and was intubated, paralysed, cooled and received CVVHDF for 36 h. He was extubated after 42 h and made a full recovery. Bromoxynil and MCPA serum and effluent concentrations were measured. Peak MCPA serum concentrations were 161 µg/ml and 259 µg/ml and peak bromoxynil concentrations were 119 µg/ml and 155 µg/ml in case 1 and 2, respectively. The estimated clearance of both herbicides by CVVHDF was low (&lt;10 mL/min). <b>Conclusion:</b> CVVHDF did not result in significant clearance of either herbicide but may have assisted with hyperthermia control. Both patients survived with vigorous cooling, paralysis and ventilatory support.
DOI: 10.6084/m9.figshare.5480710.v2
title: State of Open Data survey 2017

description: Anonymised raw data from Digital Science Open Data survey 2017
DOI: 10.6084/m9.figshare.5480608
title: Concatenated DNA sequence alignment of plastid genomes for Lam et al. article, 'Phylogenomic inference in extremis: A case study with mycoheterotrophic plastomes'

description: DNA and amino acid alignments for Lam et al. article, 'Phylogenomic inference in extremis: A case study with mycoheterotrophic plastomes', submitted to American Journal of Botany
DOI: 10.6084/m9.figshare.5480563
title: Influence of faulting on the distribution and development of cold seep-related dolomitic conduit concretions at East Cape, New Zealand

description: An intertidal shore platform in bathyal mudstones of the Late Miocene Pohutu Formation near East Cape, North Island, New Zealand, hosts many impressive dolomitic conduit concretions having predominantly doughnut morphologies up to 6 m across. Carbon isotope values (δ<sup>13</sup>C + 6 to + 9‰ PDB) are interpreted to show that the carbon for dolomite precipitation was derived from extensive anaerobic oxidation of thermogenic methane, while oxygen isotope values (δ<sup>18</sup>O + 2 to + 6‰ PDB) implicate the dissociation of gas hydrates at the time of carbonate precipitation. The concretions are inferred to mark the shallow sub-seafloor locations of upward migrating hydrocarbon-enriched fluids in a fossil cold seep system on a convergent margin. The distribution of concretions and faults are intimately associated. We propose that doughnut concretion growth was related to a periodically active fault-valve mechanism involving fluid pressure increase, fault rupture and fluid discharge, followed by fluid pressure decrease, mineral precipitation and fault sealing.
DOI: 10.6084/m9.figshare.5480548
title: spillover paper data and code.zip

description: Data for research paper as required by the journal. Will be made public when paper is published.
DOI: 10.6084/m9.figshare.5480563.v1
title: Influence of faulting on the distribution and development of cold seep-related dolomitic conduit concretions at East Cape, New Zealand

description: An intertidal shore platform in bathyal mudstones of the Late Miocene Pohutu Formation near East Cape, North Island, New Zealand, hosts many impressive dolomitic conduit concretions having predominantly doughnut morphologies up to 6 m across. Carbon isotope values (δ<sup>13</sup>C + 6 to + 9‰ PDB) are interpreted to show that the carbon for dolomite precipitation was derived from extensive anaerobic oxidation of thermogenic methane, while oxygen isotope values (δ<sup>18</sup>O + 2 to + 6‰ PDB) implicate the dissociation of gas hydrates at the time of carbonate precipitation. The concretions are inferred to mark the shallow sub-seafloor locations of upward migrating hydrocarbon-enriched fluids in a fossil cold seep system on a convergent margin. The distribution of concretions and faults are intimately associated. We propose that doughnut concretion growth was related to a periodically active fault-valve mechanism involving fluid pressure increase, fault rupture and fluid discharge, followed by fluid pressure decrease, mineral precipitation and fault sealing.
DOI: 10.6084/m9.figshare.5480548.v1
title: spillover paper data and code.zip

description: Data for research paper as required by the journal. Will be made public when paper is published.
DOI: 10.6084/m9.figshare.5480536
title: Plant biodiversity drivers in Brazilian campos rupestres: insights from phylogenetic structure

description: We present here the supplementary files to the article "Plant biodiversity drivers in Brazilian <i>campos rupestres</i>: insights from phylogenetic structure", published in "Frontiers in Plant Science".<br><br>File 1.1 is the full database showing the occurrence of the species in all sites compiled from literature (66 sites). The floristic lists were updated for nomenclature and each site was classified according to the substrate and the phisiognomy of the vegetation using data reported in the paper or according to our own field experience for each individual site. We then created this initial database, showing the occurrence of all species in all sites.<br>File 1.2 is a matrix for a selection of sites. From the initial "full" dataset (file 1.1) we excluded sites that do not have information regarding the physiognomy of the vegetation or the substrate (canga or quartzite) in each site. We had a very small number of sites in limestone in file 1.1 and thus excluded then in file 1.2 for our analysis.<br>File 1.3 is the list of all species reported in File 1.2. This list was formated using PlantMiner script (www.plantminer.com) for Phylocom software.<br>Files 2.1 and 2.2 are the ages file and the megatree used in Phylocom to transform our list of species (file 1.3) in a dated phylogenetic tree using Phylocom. Gastauer and Meira Neto (2016 - Brazilian Journal of Biology - http://dx.doi.org/10.1590/1519-6984.20814) provided improved ages and megatrees for phylogenetic analyses, and we used the files provided by them and available here for download.<br>File 3 is our megatree of the Espinhaço Range already dated for phylogenetic analyses.<br>Files 4.1 and 4.2 are the output files from the 'nodesig' and 'nodesigl' algorith available in Phylocom software<br>File 5 is a table with the output data from the phylogenetic analyses made with 'Picante' package in R.<br>File 6 are the bibliographic references and geographic position of each site used in our analyses.
DOI: 10.6084/m9.figshare.5480539
title: Data of: Areas of endemism persist through time: a palaeoclimatic analysis in the Mexican Transition Zone

description: The files are the localities used to run the Maxent models, the maxent outputs (rasters and Maxent models in RDS files), and the files used to run the Parsimony Analysis of Endemicity.
DOI: 10.6084/m9.figshare.5480539.v1
title: Data of: Areas of endemism persist through time: a palaeoclimatic analysis in the Mexican Transition Zone

description: The files are the localities used to run the Maxent models, the maxent outputs (rasters and Maxent models in RDS files), and the files used to run the Parsimony Analysis of Endemicity.
DOI: 10.6084/m9.figshare.5480470
title: Metabolite BridgeDb ID Mapping Database (20171008)

description: BridgeDb ID mapping database for metabolites, using HMDB 3.6 (26 August 2017), ChEBI 156, and Wikidata (8 October 2017) as data sources. No significant changes but just updated data.<br>If you use this data in your research, please cite that data set, and the BridgeDb, ChEBI, and HMDB articles.
DOI: 10.6084/m9.figshare.5480470.v1
title: Metabolite BridgeDb ID Mapping Database (20171008)

description: BridgeDb ID mapping database for metabolites, using HMDB 3.6 (26 August 2017), ChEBI 156, and Wikidata (8 October 2017) as data sources. No significant changes but just updated data.<br>If you use this data in your research, please cite that data set, and the BridgeDb, ChEBI, and HMDB articles.
DOI: 10.6084/m9.figshare.5480443
title: Chi Square Tests

description: Chi Square test for the independence or dependence of the data, concretely between those users of OER who are participating or not in projects which require Open Educational Practices
DOI: 10.6084/m9.figshare.5480458
title: Managing Computational Gateway Resources with XDMoD

description: The U.S. National Science Foundation (NSF) has invested heavily in research computing, funding XSEDE to integrate supercomputers with science gateways and datasets for researchers in the U.S. and around the world. It is important to understand how these tools contribute to knowledge, plan wisely for future resource investments, and enable end users to make better use of these resources. Enter XDMoD (XD Metrics on Demand), a comprehensive tool that collects and presents detailed data about resource usage, for program managers, developers, support staff, and end users alike. As XSEDE adds non-traditional resources and diversifies its computational resources, the considerable capabilities offered by XDMoD must keep pace. In this short paper, we introduce XDMoD's current capabilities, describe the state of its support for gateway resources, and outline our plans to further enhance these offerings.
DOI: 10.6084/m9.figshare.5480428
title: Facility_Delivery_PONE-D-17-08125

description: We report the effect of an integrated demand- and supply-side intervention undertaken as part of an ongoing maternal and newborn health improvement study on facility delivery rates over a 24-month period in a rural population in Sylhet district, Bangladesh.
DOI: 10.6084/m9.figshare.5480416
title: Spectroscopic datasets used in the paper "Ordered Homogeneity Pursuit Lasso for Group Variable Selection with Applications to Spectroscopic Data"

description: The three real-world near infrared spectra datasets used in the method benchmark section of the paper "Ordered homogeneity pursuit lasso for group variable selection with applications to spectroscopic data" by Lin et al. (2017).<br>To cite the paper, please use:You-Wu Lin, Nan Xiao, Li-Li Wang, Chuan-Quan Li, and Qing-Song Xu (2017). Ordered homogeneity pursuit lasso for group variable selection with applications to spectroscopic data. <i>Chemometrics and Intelligent Laboratory Systems</i> 168, 62-71.<br>
DOI: 10.6084/m9.figshare.5480428.v1
title: Facility_Delivery_PONE-D-17-08125

description: We report the effect of an integrated demand- and supply-side intervention undertaken as part of an ongoing maternal and newborn health improvement study on facility delivery rates over a 24-month period in a rural population in Sylhet district, Bangladesh.
DOI: 10.6084/m9.figshare.5480458.v2
title: Managing Computational Gateway Resources with XDMoD

description: The U.S. National Science Foundation (NSF) has invested heavily in research computing, funding XSEDE to integrate supercomputers with science gateways and datasets for researchers in the U.S. and around the world. It is important to understand how these tools contribute to knowledge, plan wisely for future resource investments, and enable end users to make better use of these resources. Enter XDMoD (XD Metrics on Demand), a comprehensive tool that collects and presents detailed data about resource usage, for program managers, developers, support staff, and end users alike. As XSEDE adds non-traditional resources and diversifies its computational resources, the considerable capabilities offered by XDMoD must keep pace. In this short paper, we introduce XDMoD's current capabilities, describe the state of its support for gateway resources, and outline our plans to further enhance these offerings.
DOI: 10.6084/m9.figshare.5480389
title: raw data and information of human participants

description: clinical records, information and raw data of patients from The Third Xiang Ya Hospital of Central South University
DOI: 10.6084/m9.figshare.5480443.v1
title: Chi_quadrat

description: Chi Square test for the independence or dependence of the data, concretely between those users of OER who are participating or not in projects which require Open Educational Practices
DOI: 10.6084/m9.figshare.5480443.v3
title: Chi Square Tests

description: Chi Square test for the independence or dependence of the data, concretely between those users of OER who are participating or not in projects which require Open Educational Practices
DOI: 10.6084/m9.figshare.5480443.v2
title: Chi Square Tests

description: Chi Square test for the independence or dependence of the data, concretely between those users of OER who are participating or not in projects which require Open Educational Practices
DOI: 10.6084/m9.figshare.5480374
title: Shared Genes in MS & Cancers

description: Data
DOI: 10.6084/m9.figshare.5480374.v1
title: Shared Genes in MS & Cancers

description: Data
DOI: 10.6084/m9.figshare.5480326
title: Point Count Data

description: Point Count data. See Data_Description.txt for details.
DOI: 10.6084/m9.figshare.5480317
title: Both Point Count Data

description: Both Point Count data. See Data_Description.txt for details.
DOI: 10.6084/m9.figshare.5480323
title: Mist-net Data

description: Mist-net data. See Data_Description.txt for details.
DOI: 10.6084/m9.figshare.5480326.v1
title: Point Count Data

description: Point Count data. See Data_Description.txt for details.
DOI: 10.6084/m9.figshare.5480323.v1
title: Mist-net Data

description: Mist-net data. See Data_Description.txt for details.
DOI: 10.6084/m9.figshare.5480296
title: Data_Description.txt

description: Data description file
DOI: 10.6084/m9.figshare.5480308
title: Both Mist-net Data

description: Both Mist-net data. See Data_Description.txt for details.
DOI: 10.6084/m9.figshare.5480317.v1
title: Both Point Count Data

description: Both Point Count data. See Data_Description.txt for details.
DOI: 10.6084/m9.figshare.5480308.v1
title: Both Mist-net Data

description: Both Mist-net data. See Data_Description.txt for details.
DOI: 10.6084/m9.figshare.5480224
title: CVD risk assessment sample dataset

description: The sample dataset was selected from Isfahan Cardiovascular Research Center (ICRC). It was de-identified due to the restrictions on individual-level data (Personal Health Information Protection Act) based on [1,2]. They could be used to identify 10-year CVD incidence risk based on the model proposed in the corresponding publication [3]. The representative age category could be used in the model instead of the exact age that had been removed since it was potentially identifying as the recruitment period was short and was fully described [1]. Since the Hazard Ratio of age was 1.038, the estimated risks are comparable to what was obtained with the exact age. The categories of Systolic Blood Pressure (SBP) and Total Cholesterol (Tch) were used in the model, and thus here provided. High waist-to-hip ratio (WHR) was defined as WHR ≥ 0.80 in women and ≥ 0.95 in men. 1. Hrynaszkiewicz I, Norton ML, Vickers AJ, Altman DG. Preparing raw clinical data for publication: guidance for journal editors, authors, and peer reviewers. BMJ. 2010;340, http://www.bmj.com/content/340/bmj.c181.long .2. National Heart, Lung and Blood Institute. Guidelines for Preparing Clinical Study Data Sets for Submission to the NHLBI Data Repository. https://www.nhlbi.nih.gov/research/funding/human-subjects/set-preparation-guidelines . 3. Nizal Sarrafzadegan, Razieh Hassannejad, Hamid Reza Marateb, Mohammad Talaei, Masoumeh Sadeghi, Hamid Reza Roohafza, Farzad Masoudkabir, Shahram OveisGharan, Marjan Mansourian, Mohammad Reza Mohebian, Miquel Angel Mañanas, "PARS Risk Charts: A 10-year Study of Risk Assessment for Cardiovascular Diseases in Eastern Mediterranean Region", submitted to PLOS One. <br>
DOI: 10.6084/m9.figshare.5480173
title: Supporting-data.zip

description: Here is the uploaded files as supporting data which includes Fchks and stdout files (optimized geometries and Roby-Gould bond indices) for the paper titled ''Predicting the primary fragments in mass spectrometry using ab initio Roby-Gould bond indices"<br>Khidhir Alhameedi<br>
DOI: 10.6084/m9.figshare.5480155
title: Movie 3 - Infiltration assay

description: Infiltration to stroma assays of MDA231 with and without vimentin expression<br>
DOI: 10.6084/m9.figshare.5480173.v1
title: Supporting-data.zip

description: Here is the uploaded files as supporting data which includes Fchks and stdout files (optimized geometries and Roby-Gould bond indices) for the paper titled ''Predicting the primary fragments in mass spectrometry using ab initio Roby-Gould bond indices"<br>Khidhir Alhameedi<br>
DOI: 10.6084/m9.figshare.5480149
title: Supplementary movies: The role of vimentin in regulating cell-invasive migration in dense cultures of breast carcinoma cells

description: In these notes, we provide supplementary movies to the manuscript "The role of vimentin in regulating cell-invasive migration in dense cultures of breast carcinoma cells". See file "index.pdf" for captions of the movies.
DOI: 10.6084/m9.figshare.5480152
title: Movie 2 - Local-density and velocity correlations

description: Velocity and local density evolution over time for MDA231 cells, with and without vimentin expression. MDA231 cells expressing vimentin (but not vimentin knockdown cells) show positive correlation between the velocity and the local density.<br>
DOI: 10.6084/m9.figshare.5480149.v3
title: Supplementary movies

description: In these notes, we provide supplementary movies to the manuscript "The role of vimentin in regulating cell-invasive migration in dense cultures of breast carcinoma cells". See file "index.pdf" for captions of the movies.
DOI: 10.6084/m9.figshare.5480149.v4
title: Supplementary movies

description: In these notes, we provide supplementary movies to the manuscript "The role of vimentin in regulating cell-invasive migration in dense cultures of breast carcinoma cells". See file "index.pdf" for captions of the movies.
DOI: 10.6084/m9.figshare.5480149.v6
title: Supplementary movies: The role of vimentin in regulating cell-invasive migration in dense cultures of breast carcinoma cells

description: In these notes, we provide supplementary movies to the manuscript "The role of vimentin in regulating cell-invasive migration in dense cultures of breast carcinoma cells". See file "index.pdf" for captions of the movies.
DOI: 10.6084/m9.figshare.5480149.v5
title: Supplementary movies

description: In these notes, we provide supplementary movies to the manuscript "The role of vimentin in regulating cell-invasive migration in dense cultures of breast carcinoma cells". See file "index.pdf" for captions of the movies.