cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5141915
title: 21-08-09_momcope_slc6a4_db

description: This database includes the raw data linked with the paper “Hidden pandemic: COVID‐19‐related stress, <em>SLC6A4 </em>methylation, and infants’ temperament at 3 months”, published on Scientific Reports, doi: <em>https://doi.org/10.1038/s41598-021-95053-z</em><em>. </em>This publication is part of the longitudinal and multi-centric “Measuring the outcomes of maternal COVID-19-related prenatal exposure (MOM-COPE)” research project. In this paper we report on (1) the effects of COVID-19-related prenatal stress on maternal and infants’ <em>SLC6A4 </em>methylation and (2) the association between infants’ <em>SLC6A4 </em>methylation and temperament assessed at 3 months of age. <strong>Procedures</strong> Maternal pandemic-related prenatal stress was assessed through the ad-hoc questionnaire attached (file name: 21-08-09_momcope_slc6a4_adhoc.pdf). Infant’s temperament at three months was assessed using the short form version of the Infant Behaviour Questionnaire-Revised, IBQ-R (Gartstein & Rothbart, 2003). The methylation status of the SLC6A4 gene’s region (chr17:28562750–28562958, 13 CpGs) was assessed by PCR amplification of bisulfite-treated DNA followed by Next Generation Sequencing. <strong>Analytical plan</strong> Bivariate Pearson’s correlation coefficients were computed to assess the association among COVID-19-related prenatal stress and both infants and mothers’ methylation status of <em>SLC6A4 </em>CpG sites. A principal component analysis (PCA) was used to reduce the number of methylation items. Linear general models were used to estimate: (1) the association between COVID-19-related prenatal stress and infants <em>SLC6A4 </em>PC1 methylation; and (2) the association between infants <em>SLC6A4 </em>PC1 methylation and 3-month surgency score. <strong>Findings in brief</strong> The findings are reported in full in the related paper (https://doi.org/10.1038/s41598-021-95053-z) and they revealed that greater COVID‐19‐related prenatal stress was significantly associated with higher infants’ SLC6A4 methylation in seven CpG sites. SLC6A4 methylation at these sites predicted infants’ surgency at 3 months.
description: Funding: Ministry of Health (5 x 1000, 2017); Roche Foundation for the independent research 2020
DOI: 10.25810/xrrc-vw08
title: FIRED URUGUAY

description: This is event- and daily-level polygons for the Fire event delineation (FIRED) product for Uruguay from November 2001 to May 2021. It is derived from the MODIS MCD64A1 burned area product (see https://lpdaac.usgs.gov/products/mcd64a1v006/ for more details). The MCD64A1 is a monthly raster grid of estimated burned dates. Firedpy (www.github.com/earthlab/firedpy) is an algorithm that converts these rasters into events by stacking the entire time series into a spatial-temporal data cube, then uses an algorithm to assign event identification numbers to pixels that fit into the same 3-dimensional spatial temporal window. This particular dataset was created using a spatial parameter of 1 pixel and 5 days. The primary benefit to this dataset over others is the ability to calculate fire spread rate. For each of these products (events and daily) the event identification numbers are the same, but the event-level product has only single polygons for each entire event, while the daily product has separate polygons for each date per event.
DOI: 10.5517/ccdc.csd.cc27gh18
title: CCDC 2069499: Experimental Crystal Structure Determination

description: Related Article: Jin Young Koo, Jongwon Oh, Gyeongeun Hyun, Hee Cheul Choi, Intek Song, Seok Min Yoon|2021|Inorg.Chem.|60|13262|doi:10.1021/acs.inorgchem.1c01618
DOI: 10.7298/63k2-dy26
title: Data From: Evidence-Based Message Strategies to Increase Public Support for State Investment in Early Childhood Education: Results from a Longitudinal Panel Experiment
DOI: 10.5281/zenodo.5163219
title: 20210804_erenumab_Headache_SB_01

description: Dataset refers to the evaluation of psychological predictors of the outcome of 12-month of treatment with Erenumab in Chronic Migraine patients: Responders (reduction ≥ 50% in migraine days) vs Non Responders (reduction &lt; 50% in migraine days). To this end, patients at baseline received a full psychological evaluation using The Structured Clinical Interview for DSM-5 Clinician Version (SCID-5-CV) to assess mood, anxiety, and personality disorders as well specific questionnaires to evaluate alexithymia traits, childhood traumas, and current life-event stressors. Results highlighted that the presence of current stressors, anxiety and Cluster C personality disorders represent negative predictors of treatment outcome.
description: Funding: Ricerca Corrente 2017-2019, Ministry of Health (Italy)
DOI: 10.5281/zenodo.5163218
title: 20210804_erenumab_Headache_SB_01

description: Dataset refers to the evaluation of psychological predictors of the outcome of 12-month of treatment with Erenumab in Chronic Migraine patients: Responders (reduction ≥ 50% in migraine days) vs Non Responders (reduction &lt; 50% in migraine days). To this end, patients at baseline received a full psychological evaluation using The Structured Clinical Interview for DSM-5 Clinician Version (SCID-5-CV) to assess mood, anxiety, and personality disorders as well specific questionnaires to evaluate alexithymia traits, childhood traumas, and current life-event stressors. Results highlighted that the presence of current stressors, anxiety and Cluster C personality disorders represent negative predictors of treatment outcome.
description: Funding: Ricerca Corrente 2017-2019, Ministry of Health (Italy)
DOI: 10.25345/c53552
title: MassIVE MSV000088083 - ATF4-Mediate Changes in Protein Turnover During Age-Related Skeletal Muscle Atrophy
title: Age-related skeletal muscle atrophy is a debilitating condition that has significant negative impacts on health and quality of life. Despite broad clinical impact, the molecular basis of age-related skeletal muscle atrophy is not well understood. Here, we determined protein turnover rates in skeletal muscle of 22-month-old control mice and 22-month-old muscle-specific ATF4 knockout (ATF4 mKO) mice, which are partially resistant to age-related muscle atrophy. All samples were analyzed by DDA TripleTOF 6600 mass spectrometer for downstream analysis of protein turnover. Quantitative MS1 peak areas were extracted from DDA raw files in the Skyline-Daily software platform. ProteinPilot search results were imported into the Skyline software to build a spectral library, followed by import of raw MS files for extraction of chromatographic peak areas. A custom skyline report containing all peptide and protein characteristics, annotations, and quantitative information including isotopologue peak areas was exported and used for downstream analysis and calculation of protein turnover rates in R using in-house R scripts (TurnoveR tool). Precursor-pool corrected protein turnover rates were calculated using the same approach employed in previous studies using the Topograph software platform. For calculation of protein abundance changes, DIA acquisitions from six samples (3 ATF4 KO and 3 WT samples) were quantitatively processed using Spectronaut v14. Analysis of protein turnover indicates that most proteins with altered turnover rates in ATF4 mKO muscles have decreased half-lives and are components of the mitochondrion. These proteins include subunits of the ATP Synthase (Atp5b, Atp5o), Ubiquinol-Cytochrome C Reductase (Uqcrc1, Uqcrh) and Cytochrome C Oxidase (Cox6b1) complexes, among others. These findings implicate increased rates of mitochondrial protein turnover as a mechanism that underlies, at least in part, the protection from age-induced muscle atrophy in ATF4 mKO mice.
DOI: 10.5281/zenodo.4446064
title: Data for: Rapid increase in snake dietary diversity and complexity following the end-Cretaceous mass extinction

description: Datasets and codes associated with the manuscript "Rapid increase in snake dietary diversity and complexity following the end-Cretaceous mass extinction"
DOI: 10.5281/zenodo.4446063
title: Data for: Rapid increase in snake dietary diversity and complexity following the end-Cretaceous mass extinction

description: Datasets and codes associated with the manuscript "Rapid increase in snake dietary diversity and complexity following the end-Cretaceous mass extinction"
DOI: 10.6084/m9.figshare.16602224
title: A global dataset of annual urban extents (1992-2020) from harmonized nighttime lights

description: This product provides the global annual urban extents (1992-2020) using the harmonized nighttime light observations, including :(1) Global time-series urban sequence map from 1992 to 2020 (i.e., "sQ_urbanMap_global_stackTS.tif")(2) Global annual urban extent maps from 1992 to 2020 (e.g., "annual_urbanMap_global_1992.tif", "annual_urbanMap_global_1993.tif")Any questions about this data can be corresponded to Prof. Yuyu Zhou (zhouyuyu@gmail.com)
DOI: 10.15482/usda.adc/1523106
title: 2019 Farm to School Census v2
DOI: 10.5281/zenodo.5498034
title: Relations from Italian Wikipedia using Unsupervised Information Extraction

description: This dataset contains relations extracted from the Italian Wikipedia by the WikiOIE framework.<br> WikiOIE is based on UDPipe and the Universal Dependencies project for text processing.<br> It easily allows customizing the information extraction (IE) approach to automatically extract triples (subject, predicate, object).<br> This dataset contains relations extracted by two unsupervised IE methods. The former (<strong>simple</strong>) is based only on PoS-tag patterns; the latter (<strong>simpledep</strong>) also uses syntactic dependencies. <br> The extraction process is provided in JSON format. More information and the Java code are available here https://github.com/pippokill/WikiOIE Pierluigi Cassotti, Lucia Siciliani, Pierpaolo Basile,Marco de Gemmis, and Pasquale Lops. 2021. Extracting relations from Italian Wikipedia using unsupervised information extraction. In Proceedings of the 11th Italian Information Retrieval Workshop 2021 (IIR 2021). CEUR-WS.
DOI: 10.5281/zenodo.5498033
title: Relations from Italian Wikipedia using Unsupervised Information Extraction

description: This dataset contains relations extracted from the Italian Wikipedia by the WikiOIE framework.<br> WikiOIE is based on UDPipe and the Universal Dependencies project for text processing.<br> It easily allows customizing the information extraction (IE) approach to automatically extract triples (subject, predicate, object).<br> This dataset contains relations extracted by two unsupervised IE methods. The former (<strong>simple</strong>) is based only on PoS-tag patterns; the latter (<strong>simpledep</strong>) also uses syntactic dependencies. <br> The extraction process is provided in JSON format. More information and the Java code are available here https://github.com/pippokill/WikiOIE Pierluigi Cassotti, Lucia Siciliani, Pierpaolo Basile,Marco de Gemmis, and Pasquale Lops. 2021. Extracting relations from Italian Wikipedia using unsupervised information extraction. In Proceedings of the 11th Italian Information Retrieval Workshop 2021 (IIR 2021). CEUR-WS.
DOI: 10.6084/m9.figshare.16602497
title: myositis.cys

description: Cytoscape session accompanying: Amici, D.R. <i>et al.</i> A network of core and subtype-specific gene expression programs in myositis. <i>Acta Neuropathol</i> (2021). https://doi.org/10.1007/s00401-021-02365-5
DOI: 10.6084/m9.figshare.16602497.v1
title: myositis.cys

description: Cytoscape session accompanying: Amici, D.R. <i>et al.</i> A network of core and subtype-specific gene expression programs in myositis. <i>Acta Neuropathol</i> (2021). https://doi.org/10.1007/s00401-021-02365-5
DOI: 10.6084/m9.figshare.14213519.v1
title: Global dust microbiome

description: Global dust microbiome
DOI: 10.5281/zenodo.4548435
title: US_Film_Trailers_Barcodes_Sample

description: <strong>Explore this data set for yourself via a Shiny app here: http://nickredfern.shinyapps.io/colour_palletes_US_trailers</strong> This data set contains the smoothed barcodes of 173 trailers nominated for a Golden Trailer award between 2016 and 2019 across nine genres: action, animation/family, comedy, documentary, drama, fantasy/adventure, horror, romance, and thriller. Trailers receiving multiple nominations are not included in the sample, ruling out three trailers nominated in more than one category (<em>Long Shot</em> – ‘This Guy’, <em>A Star is Born</em> – ‘Not Alone’, and <em>Us</em> – ‘International Trailer’). One trailer (<em>Adrift</em> – ‘Bon Voyage’) was nominated in the romance category in consecutive years and is included in the sample once only. All trailers were pre-processed to trim MPAA tag screens and YouTube channel promotional materials, and cropped to remove letterbox blanking. To generate representations of colours in each trailer in the sample, I produced the smoothed barcode of each trailer using Melvyn Laïly’s Movie Barcode Generator. This software takes an input video file and extracts 1000 individual frames which are then reduced to a single pixel’s width and stacked together, with each column representing a frame from the film. The Movie Barcode Generator generates unsmoothed and smoothed barcodes from a video file, with the bars in the latter the average colour of the bars in the original version. Only the smoothed versions are included in this data set. All barcodes are Portable Network Graphics (PNG) files. The sample is described in the file US_Film_Trailers_Barcodes_Sample_Summary.csv, which contains the title of the film promoted, the title of the trailer, the trailer production company, the genre, the URL for the trailer video (all URLs were correct as of 18 February 2021), and the filename of the barcode of the trailer.
DOI: 10.5281/zenodo.4548434
title: US_Film_Trailers_Barcodes_Sample

description: <strong>Explore this data set for yourself via a Shiny app here: http://nickredfern.shinyapps.io/colour_palletes_US_trailers</strong> This data set contains the smoothed barcodes of 173 trailers nominated for a Golden Trailer award between 2016 and 2019 across nine genres: action, animation/family, comedy, documentary, drama, fantasy/adventure, horror, romance, and thriller. Trailers receiving multiple nominations are not included in the sample, ruling out three trailers nominated in more than one category (<em>Long Shot</em> – ‘This Guy’, <em>A Star is Born</em> – ‘Not Alone’, and <em>Us</em> – ‘International Trailer’). One trailer (<em>Adrift</em> – ‘Bon Voyage’) was nominated in the romance category in consecutive years and is included in the sample once only. All trailers were pre-processed to trim MPAA tag screens and YouTube channel promotional materials, and cropped to remove letterbox blanking. To generate representations of colours in each trailer in the sample, I produced the smoothed barcode of each trailer using Melvyn Laïly’s Movie Barcode Generator. This software takes an input video file and extracts 1000 individual frames which are then reduced to a single pixel’s width and stacked together, with each column representing a frame from the film. The Movie Barcode Generator generates unsmoothed and smoothed barcodes from a video file, with the bars in the latter the average colour of the bars in the original version. Only the smoothed versions are included in this data set. All barcodes are Portable Network Graphics (PNG) files. The sample is described in the file US_Film_Trailers_Barcodes_Sample_Summary.csv, which contains the title of the film promoted, the title of the trailer, the trailer production company, the genre, the URL for the trailer video (all URLs were correct as of 18 February 2021), and the filename of the barcode of the trailer.
DOI: 10.5517/ccdc.csd.cc246wy6
title: CCDC 1972838: Experimental Crystal Structure Determination

description: Related Article: Yi Hu, Michael B. Thomas, Whitney A. Webre, Austen Moss, R. G. Waruna Jinadasa, Vladimir N. Nesterov, Francis D'Souza, Hong Wang|2020|Angew.Chem.,Int.Ed.|59|20075|doi:10.1002/anie.202008076
DOI: 10.5517/ccdc.csd.cc246wz7
title: CCDC 1972839: Experimental Crystal Structure Determination

description: Related Article: Yi Hu, Michael B. Thomas, Whitney A. Webre, Austen Moss, R. G. Waruna Jinadasa, Vladimir N. Nesterov, Francis D'Souza, Hong Wang|2020|Angew.Chem.,Int.Ed.|59|20075|doi:10.1002/anie.202008076
DOI: 10.5517/ccdc.csd.cc25kwd1
title: CCDC 2013183: Experimental Crystal Structure Determination

description: Related Article: Nadir Jori, Davide Toniolo, Bang C. Huynh, Rosario Scopelliti, Marinella Mazzanti|2020|Inorg.Chem.Front.|7|3598|doi:10.1039/D0QI00801J
DOI: 10.5517/ccdc.csd.cc25g22t
title: CCDC 2009515: Experimental Crystal Structure Determination

description: Related Article: Walker R. Marks, Douglas F. Baumgardner, Eric W. Reinheimer, John D. Gilbertson|2020|Chem.Commun.|56|11441|doi:10.1039/D0CC04115G
DOI: 10.5281/zenodo.1002287
title: IN00075 Sanchi Pillar Inscription of GE 131

description: IN00075 Fleet, John F., <em>Inscriptions of the Early Guptas </em>(Corpus Inscriptionum Indicarum, vol. 3) (Calcutta: Government of India, Central Publications Branch, 1888): 262.
DOI: 10.5281/zenodo.1002285
title: IN00075 Sanchi Pillar Inscription of GE 131

description: IN00075 Fleet, John F., <em>Inscriptions of the Early Guptas </em>(Corpus Inscriptionum Indicarum, vol. 3) (Calcutta: Government of India, Central Publications Branch, 1888): 262.
DOI: 10.6084/m9.figshare.16602527
title: supplementarydata5.xlsx

description: Supplementary Data 5: Gene ontology of leaf and root WD and ABA metabolite positively correlated gene modules. GO ID, Term, total genes annotated with a GO ID, number of genes that were significantly linked to a GO ID out of the top 500 most correlated genes selected for gene ontology for each gene module of interest, expected number of genes that would be linked to a GO ID, and Fisher statistic stated for each module of interest. Modules of interest are listed per tab with relevant organ and module color from Figs. 4 and 5 and Supplementary Data 4.
DOI: 10.6084/m9.figshare.16602515.v1
title: supplementarydata2.xlsx

description: Supplementary Data 2: WD vs. Control (Ctrl) differential expression analysis results per genotype per organ per week. Each tab contains the results from a single differential expression analysis contrast. Contrasts are listed alphabetically by genotype and organ and numerically by week. Leaves are abbreviated as L. Roots are abbreviated as R. Control is abbreviated at Ctrl. Other abbreviations are consistent with the text. ABA metabolism genes are at the top of each contrast. Significantly differentially expressed ABA metabolite genes are denoted in blue and paired with relevant gene symbol and metabolic process (biosynthesis, conjugation, catabolism, or transport). Preliminary annotation of ABA metabolite genes and alt assignment is in Supplementary Data 1.
DOI: 10.6084/m9.figshare.16602515
title: supplementarydata2.xlsx

description: Supplementary Data 2: WD vs. Control (Ctrl) differential expression analysis results per genotype per organ per week. Each tab contains the results from a single differential expression analysis contrast. Contrasts are listed alphabetically by genotype and organ and numerically by week. Leaves are abbreviated as L. Roots are abbreviated as R. Control is abbreviated at Ctrl. Other abbreviations are consistent with the text. ABA metabolism genes are at the top of each contrast. Significantly differentially expressed ABA metabolite genes are denoted in blue and paired with relevant gene symbol and metabolic process (biosynthesis, conjugation, catabolism, or transport). Preliminary annotation of ABA metabolite genes and alt assignment is in Supplementary Data 1.
DOI: 10.6084/m9.figshare.16602521
title: supplementarydata3.xlsx

description: Supplementary Data 3: RA WD vs. CS, RI, and SC WD differential expression analysis results per organ per week. Each tab contains the results from a single differential expression analysis contrast. Contrasts are listed alphabetically by genotype and organ and numerically by week. Leaves are abbreviated as L. Roots are abbreviated as R. Other abbreviations are consistent with the text. ABA metabolism genes are at the top of each contrast. Significantly differentially expressed ABA metabolite genes are denoted in blue and paired with relevant gene symbol and metabolic process (biosynthesis, conjugation, catabolism, or transport). Preliminary annotation of ABA metabolite genes and alt assignment is in Supplementary Data 1.
DOI: 10.6084/m9.figshare.16602524.v1
title: supplementarydata4.xlsx

description: Supplementary Data 4: Gene module Eigengene values for leaves and roots. For each gene (rows), the kME and p-values are presented for each module (columns). The second columns contains annotation information for each gene.
DOI: 10.6084/m9.figshare.16602524
title: supplementarydata4.xlsx

description: Supplementary Data 4: Gene module Eigengene values for leaves and roots. For each gene (rows), the kME and p-values are presented for each module (columns). The second columns contains annotation information for each gene.
DOI: 10.6084/m9.figshare.16602518
title: supplementarydata1.xlsx

description: Supplementary Data 1: ABA biosynthesis, conjugation, and catabolism genes. Cabernet Sauvignon (CS) clone 8 v1.0, PN40024 V2 genome V3 annotation, and PN40024 V2 genome V2 annotation IDs listed with corresponding gene symbol, alternative, ABA related metabolic process, gene description, and leaf and root WGCNA module with the highest Eigengene value. Annotation listed from ORCAE PN40024 orthologs. Green and blue correspond to Eigengene values ≥ 0.8 in the leaves and roots respectively. Alternative were assigned as "alt1" if only 1 paralog was identified based on V3 annotation. Alternatives were assigned as "alt1" and "alt2" when two paralogs were identified with "alt1" corresponding to the primary contig and "alt2" correspond to the haplotig denoted as "P" and "H" respectively in CS gene names. When multiple paralogs were identified corresponding to multiple V3 genes with the same annotation symbol, "alt1_1" and "alt2_1" were named to correspond to CS alleles with the same V3 gene name. Paralogs with only one allele with the same annotation symbol as other V3 genes are indicated as "alt1_2" and "alt1_3".
DOI: 10.6084/m9.figshare.16602518.v1
title: supplementarydata1.xlsx

description: Supplementary Data 1: ABA biosynthesis, conjugation, and catabolism genes. Cabernet Sauvignon (CS) clone 8 v1.0, PN40024 V2 genome V3 annotation, and PN40024 V2 genome V2 annotation IDs listed with corresponding gene symbol, alternative, ABA related metabolic process, gene description, and leaf and root WGCNA module with the highest Eigengene value. Annotation listed from ORCAE PN40024 orthologs. Green and blue correspond to Eigengene values ≥ 0.8 in the leaves and roots respectively. Alternative were assigned as "alt1" if only 1 paralog was identified based on V3 annotation. Alternatives were assigned as "alt1" and "alt2" when two paralogs were identified with "alt1" corresponding to the primary contig and "alt2" correspond to the haplotig denoted as "P" and "H" respectively in CS gene names. When multiple paralogs were identified corresponding to multiple V3 genes with the same annotation symbol, "alt1_1" and "alt2_1" were named to correspond to CS alleles with the same V3 gene name. Paralogs with only one allele with the same annotation symbol as other V3 genes are indicated as "alt1_2" and "alt1_3".
DOI: 10.15468/dl.at4fdr
title: Occurrence Download

description: A dataset containing 105 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nonea philistaea Boiss."
 ]
}

 The dataset includes 105 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060246-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.