cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.8084960.v1
title: Physicochemical n-Grams Tool: A tool for protein physicochemical descriptor generation

description: Zip file of PnGT Installer.Positive & negative dataset for cyclin-dependent kinase inhibitor prediction (Machine Leaning Model): CDKI & Non-CDKI Protein Sequence in FASTA file format with &lt;90% sequence similarity.
DOI: 10.22023/mdx.8083274.v1
title: Zig zag design 7.jpg

description: This project is part of Ceres Artists in Residence at The Museum of Domestic Design & Architecture (MoDA). The aim of the residency was to use objects from MoDA's collection as a starting point for exploration of natural prints and dyes with the aim of raising the awareness of sustainability in design research.<br><br>Design inspired by 'A46 Zig zag design' by Enid Marx for R.D.I London Transport, 1945.<br>I started this design by carving it into a linoleum plate, then transferred it as a repeat pattern onto a film for screen printing, keeping the original mark makings from the linoleum.<br><br>The linen was dyed in carrot tops prior to printing, giving a pale yellow background colour.<br>The design was screen printed with dye pastes made from bio-waste and plant extracts. The first main layer was screen-printed with chlorophyll overprinted with soda ash, the zig zag with weld, the medium size squares with avocado stones and pomegranate skins, the small squares with buckhorn (yellow), cutch (beige/brown) and elderberries (grey).<br>The photo show the final printed repeat pattern design as well as the different printing stages before that. <br>After steaming and washing, the printed colours appear more vivid, especially the weld that turned bright yellow and the combination chlorophyll/ soda ash which reveal a minty colour. The small squares with cutch and soda ash are more visible whilst the medium squares printed with avocado and pomegranate remain pale.
DOI: 10.6084/m9.figshare.8083331.v1
title: Elevated CO2 effect on carotenoid concentrations in plants

description: Datasets on the effects of elevated CO2 on carotenoid levels in plantsDatasets are supporting materials for the following article: Loladze I, Nolan JM, Ziska LH, Knobbe AR (2019) Rising atmospheric CO2 lowers concentrations of plant carotenoids essential to human health: Meta-analysis, Molecular Nutrition and Food Research (accepted)One dataset provides the relative changes in carotenoid levels in plants exposed to elevated CO2: Each raw in the dataset (except the title raw) provides plant species name, common name, plant tissue, the type of experimental facility (e.g. greenhouse, FACE), ambient and elevated CO2 levels, number of observations, relative change in carotenoid levels, the log ratio of the relative change, reference to the original experimental study from which the data were extracted, and notes.The second dataset provides log2 fold change values in the expression of Arabidopsis thaliana genes involved in carotenoid biosynthesis.For any questions about the dataset, please, email Irakli Loladze at loladze@asu.edu
DOI: 10.6084/m9.figshare.8083040
title: Data from the article: Are Cecropia Trees Ecosystem Engineers? The Effect of Decomposing Cecropia Leaves on Arthropod Communities

description: We are making available all the data used in the analysis of the paper: “Are Cecropia trees ecosystem engineers? The effect of decomposing Cecropia leaves on arthropod communities”<br><br>
DOI: 10.22023/mdx.8083046
title: Zig zag design 8- different stages.jpg

description: This project is part of Ceres Artists in Residence at The Museum of Domestic Design & Architecture (MoDA). The aim of the residency was to use objects from MoDA's collection as a starting point for exploration of natural prints and dyes with the aim of raising the awareness of sustainability in design research.<br><br>Design inspired by 'A46 Zig zag design' by Enid Marx for R.D.I London Transport, 1945.<br>I started this design by carving it into a linoleum plate, then transferred it as a repeat pattern onto a film for screen printing, keeping the original mark makings from the linoleum.<br>The wool was dyed in red cabbage prior to printing, giving a blue/grey background colour.<br>The design was screen printed with dye pastes made from bio-waste and plant extracts. The first main layer was printed with iron and coreopsis, the zig zag with rhubarb and cutch, the medium size squares with red onions, the small squares with brazilwood and the rectangles with indigo and a touch of chlorophyll. <br>The photos show the final printed repeat pattern design as well as the different printing stages before that. In the final stage, after steaming and washing, the colour change is quite dramatic as the first layer is not as dominant. The zig zag pattern, at the contrary show more contrast and stand out more because of the iron and cutch overlay.
DOI: 10.6084/m9.figshare.8083025
title: S1 Table.pdf

description: Supplementary table of RT-qPCR primers
DOI: 10.22023/mdx.8083046.v1
title: Zig zag design 8- different stages.jpg

description: This project is part of Ceres Artists in Residence at The Museum of Domestic Design & Architecture (MoDA). The aim of the residency was to use objects from MoDA's collection as a starting point for exploration of natural prints and dyes with the aim of raising the awareness of sustainability in design research.<br><br>Design inspired by 'A46 Zig zag design' by Enid Marx for R.D.I London Transport, 1945.<br>I started this design by carving it into a linoleum plate, then transferred it as a repeat pattern onto a film for screen printing, keeping the original mark makings from the linoleum.<br>The wool was dyed in red cabbage prior to printing, giving a blue/grey background colour.<br>The design was screen printed with dye pastes made from bio-waste and plant extracts. The first main layer was printed with iron and coreopsis, the zig zag with rhubarb and cutch, the medium size squares with red onions, the small squares with brazilwood and the rectangles with indigo and a touch of chlorophyll. <br>The photos show the final printed repeat pattern design as well as the different printing stages before that. In the final stage, after steaming and washing, the colour change is quite dramatic as the first layer is not as dominant. The zig zag pattern, at the contrary show more contrast and stand out more because of the iron and cutch overlay.
DOI: 10.6084/m9.figshare.8083022
title: S2 Table.pdf

description: Antibodies used for immunolabeling
DOI: 10.6084/m9.figshare.8082929
title: "Lacustrine sediments petroleum deposits". Bibliometrics analysis of publications: 2014-2019 years

description: <b>Topic:</b> "Lacustrine sediments petroleum deposits". Bibliometrics analysis of publications: 2014-2019 years<b>Bibliographic Resources</b>: Web of Science Core Collection; Scopus; OnePetro<b>Main item: </b>Publication activities on topic "Lacustrine deposits and petroleum" on different Geologic Time<br><b>All-in-one-PDF: </b>https://ndownloader.figshare.com/files/15111074<br><b>Main tools:</b>VOSviewer - a software tool for constructing and visualizing bibliometric networks - http://www.vosviewer.com/Typora — a markdown editor - https://typora.io/Notepad++ - a free source code editor - https://notepad-plus-plus.org/SmoothCSV - a powerful CSV file editor - https://smoothcsv.com/2/
DOI: 10.6084/m9.figshare.8082992
title: pregnancy-associated glycoprotein assay and transabdominal ultrasonography data.xlsx

description: Dataset
DOI: 10.6084/m9.figshare.8083022.v1
title: S2 Table.pdf

description: Antibodies used for immunolabeling
DOI: 10.6084/m9.figshare.8082992.v1
title: pregnancy-associated glycoprotein assay and transabdominal ultrasonography data.xlsx

description: Dataset
DOI: 10.6084/m9.figshare.8083016
title: S1 Dataset.xlsx

description: Supplementary dataset for figures
DOI: 10.6084/m9.figshare.8082872
title: Regulatory-Associated Protein of TOR 1B (RAPTOR1B) regulates hormonal switches during seed germination in <i>Arabidopsis thaliana</i>

description: Target of Rapamycin (TOR) regulates multiple growth- and metabolic-related processes in <i>Arabidopsis thaliana</i> as in all other eukaryotes. While several of these processes have been investigated in diverse Arabidopsis growth stages, little is known about hormonal and metabolic regulation of TOR during seed germination. This is mainly due to the fact that Arabidopsis knockout lines of TOR are embryo lethal. Here, we utilized the knockout lines of TOR-interacting protein, <i>REGULATORY-ASSOCIATED PROTEIN OF TOR 1B</i> (<i>RAPTOR1B</i>), to perform comprehensive hormone profiling during seed germination. We previously reported that RAPTOR1B positively regulates seed germination by maintaining the nutritional and hormonal balance. In the current analysis, dry and imbibed seeds as well as germinated seeds were subjected to detailed hormone analysis. Accordingly, the abscisic acid content of dry and imbibed <i>raptor1b</i> seeds was higher than that of WT, while the amounts of gibberellins were comparable after stratification. Further analysis showed that <i>raptor1b</i> seeds maintained higher levels of indole-3-acetic acid and jasmonates, namely jasmonic acid (JA) and 12-oxo-phytodienoic acid, even after stratification. The combination of this hormonal perturbation seems to be the driving factor for the observed delayed germination phenotypes in <i>raptor1b</i> seeds.
DOI: 10.6084/m9.figshare.8082884
title: Dados oficiais animais doentes modificado tabela oficial.xlsx

description: Canine Monocytic Ehrlichiosis (CME) is a systemic disease prevalent in the entire world caused by the obligate intracellular bacteria <i>Ehrlichia canis</i>. The occurrence of myocarditis with a high prevalence of arrhythmias in dogs affected by this disease in the cytopenic phase has already been proven. This study aims to evaluate the concentrations of CK MB, cTnI and NT-proBNP in dogs affected by Ehrlichia canis in the chronic phase since the intense stimulation of the immune system can lead to myocarditis; to evaluate if the condition can lead to arrhythmic events and, if so, define their frequency and classification through conventional and ambulatory electrocardiogram tests (Holter method) for a period of 24 hours; to analyze heart rate variability in the time domain and whether the condition can lead to autonomic imbalance; and to determine the survival rate of affected dogs, identifying possible risk factors for mortality at this stage of the disease.
DOI: 10.6084/m9.figshare.8082929.v1
title: "Lacustrine sediments petroleum deposits". Bibliometrics analysis of publications: 2014-2019 years

description: <b>Topic:</b> "Lacustrine sediments petroleum deposits". Bibliometrics analysis of publications: 2014-2019 years<b>Bibliographic Resources</b>: Web of Science Core Collection; Scopus; OnePetro<b>Main item: </b>Publication activities on topic "Lacustrine deposits and petroleum" on different Geologic Time<br><b>All-in-one-PDF: </b>https://ndownloader.figshare.com/files/15111074<br><b>Main tools:</b>VOSviewer - a software tool for constructing and visualizing bibliometric networks - http://www.vosviewer.com/Typora — a markdown editor - https://typora.io/Notepad++ - a free source code editor - https://notepad-plus-plus.org/SmoothCSV - a powerful CSV file editor - https://smoothcsv.com/2/
DOI: 10.6084/m9.figshare.8083016.v1
title: S1 Dataset.xlsx

description: Supplementary dataset for figures
DOI: 10.6084/m9.figshare.8082869
title: cool

description: Introduction<br>wdefcewfwe<br><br>Methods<br>efewfewf<br><br>Results<br>ewfewfewf<br><br>Discussion<br>wcewcewc<br><br>
DOI: 10.6084/m9.figshare.8082869.v1
title: cool

description: Introduction<br>wdefcewfwe<br><br>Methods<br>efewfewf<br><br>Results<br>ewfewfewf<br><br>Discussion<br>wcewcewc<br><br>
DOI: 10.6084/m9.figshare.8082872.v1
title: Regulatory-Associated Protein of TOR 1B (RAPTOR1B) regulates hormonal switches during seed germination in <i>Arabidopsis thaliana</i>

description: Target of Rapamycin (TOR) regulates multiple growth- and metabolic-related processes in <i>Arabidopsis thaliana</i> as in all other eukaryotes. While several of these processes have been investigated in diverse Arabidopsis growth stages, little is known about hormonal and metabolic regulation of TOR during seed germination. This is mainly due to the fact that Arabidopsis knockout lines of TOR are embryo lethal. Here, we utilized the knockout lines of TOR-interacting protein, <i>REGULATORY-ASSOCIATED PROTEIN OF TOR 1B</i> (<i>RAPTOR1B</i>), to perform comprehensive hormone profiling during seed germination. We previously reported that RAPTOR1B positively regulates seed germination by maintaining the nutritional and hormonal balance. In the current analysis, dry and imbibed seeds as well as germinated seeds were subjected to detailed hormone analysis. Accordingly, the abscisic acid content of dry and imbibed <i>raptor1b</i> seeds was higher than that of WT, while the amounts of gibberellins were comparable after stratification. Further analysis showed that <i>raptor1b</i> seeds maintained higher levels of indole-3-acetic acid and jasmonates, namely jasmonic acid (JA) and 12-oxo-phytodienoic acid, even after stratification. The combination of this hormonal perturbation seems to be the driving factor for the observed delayed germination phenotypes in <i>raptor1b</i> seeds.
DOI: 10.6084/m9.figshare.8082665
title: Referees

description: If you use these data cite the following paper: <br><br>- Pappalardo et al., (2019) <b>A public data set of spatio-temporal match events in soccer competitions</b>, Nature Scientific Data 6:236, https://www.nature.com/articles/s41597-019-0247-7<br><br>The referees data set describes all referees in the national and international competitions we make available. It consists of the following fields:- <b>wyId</b>: the identifier of the referee, assigned by Wyscout.- <b>shortName</b>: the short name of the referee;- <b>firstName</b>: the first name of the referee;- <b>middleName</b>: the middle name (if any) of the referee;- <b>lastName</b>: the last name of the referee;- <b>birthDate</b>: the birth date of the referee, in the format "YYYY-MM-DD";- <b>birthArea</b>: geographic information about the referee's birth area;- <b>passportArea</b>: the geographic area associated with the referee's current passport;
DOI: 10.6084/m9.figshare.8082650
title: Coaches

description: If you use these data cite the following paper: <br><br>- Pappalardo et al., (2019) <b>A public data set of spatio-temporal match events in soccer competitions</b>, Nature Scientific Data 6:236, https://www.nature.com/articles/s41597-019-0247-7<br><br>The coaches data set describes all coaches of the clubs and the national teams of the seven competitions we make available. It consists of the following fields:- <b>wyId</b>: the identifier of the coach, assigned by Wyscout.- <b>shortName</b>: the short name of the coach;- <b>firstName</b>: the first name of the coach;- <b>middleName</b>: the middle name (if any) of the coach;- <b>lastName</b>: the last name of the coach;- <b>birthDate</b>: the birth date of the coach, in the format "YYYY-MM-DD";- <b>birthArea</b>: geographic information about the coach's birth area;- <b>passportArea</b>: the geographic area associated with the referee's current passport;- <b>currentTeamId</b>: the identifier of the coach's team. The identifier refers to the field "wyId" in a team document.
DOI: 10.6084/m9.figshare.8082644
title: Single FMT protocol

description: Fastq files used to generate all figures
DOI: 10.6084/m9.figshare.8082644.v3
title: Single FMT protocol

description: Fastq files used to generate all figures
DOI: 10.6084/m9.figshare.8082644.v2
title: Single vs Triple FMT protocol

description: Fastq files used to generate all figures
DOI: 10.6084/m9.figshare.8082455
title: amphipoda_dataset.xls

description: Dataset concerning the abundance of sampled amphipods in three <i>Posidonia oceanica</i> meadows from the central Tyrrhenian Sea (Mediterranean Sea), characterised by different habitat features. Alongside the abundance, the dataset contains a field named BS (body size, taken as the maximum body length measured from anterior margin of the head to the posterior end of the telson, in mm) representing the average maximum length between male and female specimens.
DOI: 10.6084/m9.figshare.8082455.v1
title: amphipoda_dataset.xls

description: Dataset concerning the abundance of sampled amphipods in three <i>Posidonia oceanica</i> meadows from the central Tyrrhenian Sea (Mediterranean Sea), characterised by different habitat features. Alongside the abundance, the dataset contains a field named BS (body size, taken as the maximum body length measured from anterior margin of the head to the posterior end of the telson, in mm) representing the average maximum length between male and female specimens.
DOI: 10.6084/m9.figshare.8082326
title: Investigation of Neutron Cross Section for Iron in the ENDF Library with Pulsed Sphere Measurements

description: This work investigates the quality of the ENDF <sup>56</sup>Fe cross-section libraries for describing the transport of fast neutrons in iron. We have used the D(d,n)<sup>3</sup>He reaction with a pulsed 7-MeV deuteron beam energy as a neutron source and analyzed the neutrons transmitted through two natural iron spheres of thicknesses 3 and 8 cm. The experimental neutron time-of-flight transmitted spectra for various angles are compared with MCNP simulations. Our result indicates the possibility of an underestimation of the nonelastic cross section and an overestimation of the elastic cross section for <sup>56</sup>Fe in the ENDF/B-VII.1 library for the neutron energy range of 7.2 to 10.2 MeV. Our result agrees qualitatively with the Ramsauer model and optical model calculations. This discrepancy in the library cross section might lead to an underestimation/overestimation of material damage in nuclear reactor calculations. A newer evaluation, ENDF/B-VIII.0, was released subsequent to the completion of the majority of this project. The new evaluation has a decreased elastic cross section and an increased inelastic cross section for <sup>56</sup>Fe in our energy range of interest, which agrees qualitatively with our result.
DOI: 10.6084/m9.figshare.8082326.v1
title: Investigation of Neutron Cross Section for Iron in the ENDF Library with Pulsed Sphere Measurements

description: This work investigates the quality of the ENDF <sup>56</sup>Fe cross-section libraries for describing the transport of fast neutrons in iron. We have used the D(d,n)<sup>3</sup>He reaction with a pulsed 7-MeV deuteron beam energy as a neutron source and analyzed the neutrons transmitted through two natural iron spheres of thicknesses 3 and 8 cm. The experimental neutron time-of-flight transmitted spectra for various angles are compared with MCNP simulations. Our result indicates the possibility of an underestimation of the nonelastic cross section and an overestimation of the elastic cross section for <sup>56</sup>Fe in the ENDF/B-VII.1 library for the neutron energy range of 7.2 to 10.2 MeV. Our result agrees qualitatively with the Ramsauer model and optical model calculations. This discrepancy in the library cross section might lead to an underestimation/overestimation of material damage in nuclear reactor calculations. A newer evaluation, ENDF/B-VIII.0, was released subsequent to the completion of the majority of this project. The new evaluation has a decreased elastic cross section and an increased inelastic cross section for <sup>56</sup>Fe in our energy range of interest, which agrees qualitatively with our result.
DOI: 10.6084/m9.figshare.8082245
title: Subcortical connectivity correlates selectively with attention's effects on spatial choice bias

description: This dataset contains two .tar.gz files - (i) <i>Sreenivasan - Data</i> and (ii) <i>Sreenivasan - Codes</i>.<br><b>Sreenivasan - Data</b> consist of 22 folders, each labelled as "SXX".<br>Each folder contains the following files and subfolders:<br><br>1. A structural image (average_t1.nii.gz).<br>2. A volume file for the superior colliculus (SuperiorColliculus.nii.gz).<br>3. A 3-D rendering of the superior colliculus in .vtk format (SuperiorColliculus_3D.vtk).<br>4. Two subfolders:<br> <br> (i) DK ROIs - that contains volume files (.nii.gz) of the 68 cortical regions from the Desikan-Killiany atlas along with the subcortical ROIs - left and right subthalamic nucleus (LSTN, RSTN), left and right substantia nigra (LSN, RSN) and the caudate nucleus (LeftCaudate, RightCaudate).<br> (ii) Tract files - that contains tracts that connect the superior colliculus to the 68 cortical and the subcortical regions. All tracts are all in Visualization Toolkit Format (.vtk). These can be readily visualized in ParaView.<br><br>All .nii.gz files can be converted to .vtk format using ITK-SNAP.<br><b>Sreenivasan - Codes</b> contains scripts for analysis and reproducing figures of the paper.<br>To compute robust correlations, please download and add to path the toolbox developed by Pernet et al (2013, <i>Frontiers in Psychology</i>).<br>Also included is a high-resolution version of Figure 3.<br>
DOI: 10.6084/m9.figshare.8082236
title: CellCycle Perez-Posada et al., 2019

description: Supporting information files S1-S19, and Video 1, for the manuscript Perez-Posada et al. 2020 entitled "'Cell cycle transcriptomics of <i>Capsaspora</i> provides insights into the evolution of cyclin-CDK machinery". We characterized the periodic transcriptional program of <i>Capsaspora</i> in two independent cultures (Video 1), retrieving around 800 periodic genes (Supporting files S4 and S5). This dataset was further analyzed by comparative genomics and phylogenies; Supporting file S6 are the significant GeneOntology enrichments of each cluster of periodic genes. Supporting files S12 and S13 are cell cycle regulators in human with known periodic orthologs in <i>Capsaspora</i>; Supporting file S14 is the gene age enrichment/depletion analysis of <i>Capsaspora</i> cell cycle gene clusters. Validation of expression of some genes with qPCR can be found in file S11. Supporting File S8 contains the list of species used in comparative analyses. File S2 contains the human and yeast sequences used as queries to retrieve MTOC orthologs in <i>Capsaspora</i> and other unicellular holozoans, and Figure S3 is the list of BLAST matches in <i>Capsapora</i> and other unicellular holozoans. File S7 contains the fasta sequences of cyclins and CDKS used in the pylogenetic trees, with the updated sequence of the re-annotated <i>Capsaspora</i> CDK1/2/3 also found in File S10. Files S15 describes the procedure used to retrieve gene identifiers for periodic genes of human, yeasts and plant datasets; as well as pipeline parameters to call for periodic genes in our reanalysis. Files S16 and S17 contain the metrics of shared periodic orthogroups between pairs of species. Files 18 and 19 show the GO enriched terms, for each species, of the genes conserved in the core set of periodic orthogroups, as well as the identity of the <i>Capsaspora</i> genes belonging to those orthogroups.
DOI: 10.6084/m9.figshare.8082188
title: Aquatic insect community structure revealed by eDNA metabarcoding derives indices for environmental assessment

description: Metabarcoding sequence data analyzed Japanese river water samples using universal primer set LCO1490 and HC02198 developed by Folmer et al (1994) using MiSeq v3.0.