cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25387/g3.14974596.v1
title: Supplemental Material for Wang, Cai, and Mao, 2021

description: Supplemental material for "The First Complete Genome Sequence of Species <i>Shewanella decolorationis</i>, from a Bioremediation Competent Strain Ni1-3".<br>
DOI: 10.6084/m9.figshare.15023571.v1
title: GLM data

description: GLM triangulation data <br>
DOI: 10.6084/m9.figshare.15023571
title: GLM data

description: GLM triangulation data <br>
DOI: 10.6084/m9.figshare.15023706
title: ELF data

description: Current moment and charge moment <br>
DOI: 10.6078/m7x34vk8
title: Community and Identity in the Roman Seventh Legion
DOI: 10.25345/c58z5j
title: MassIVE MSV000087857 - Newly synthesized extracellular matrix proteins from chondrocytes
title: Proteomic analysis of newly synthesized extracellular matrix secreted by chondrocytes in hydrogels.
DOI: 10.34810/data72/661
title: 02AC_1.MR.0009.0121.2013.03.10.09.04.41.296875.165175494.IMA
DOI: 10.34810/data72/662
title: 02AC_1.MR.0009.0235.2013.03.10.09.04.41.296875.165177553.IMA
DOI: 10.34810/data72/663
title: 02AC_1.MR.0009.0149.2013.03.10.09.04.41.296875.165175998.IMA
DOI: 10.34810/data72/664
title: 02AC_1.MR.0009.0128.2013.03.10.09.04.41.296875.165175620.IMA
DOI: 10.34810/data72/665
title: 02AC_1.MR.0009.0180.2013.03.10.09.04.41.296875.165176563.IMA
DOI: 10.13012/b2idb-4635945_v1
title: Dataset for Fifty Ways to Tag your Pubtypes: Multi-Tagger, a Set of Probabilistic Publication Type and Study Design Taggers to Support Biomedical Indexing and Evidence-Based Medicine

description: This dataset contains data from extreme-disagreement analysis described in paper “Aaron M. Cohen, Jodi Schneider, Yuanxi Fu, Marian S. McDonagh, Prerna Das, Arthur W. Holt, Neil R. Smalheiser, 2021, Fifty Ways to Tag your Pubtypes: Multi-Tagger, a Set of Probabilistic Publication Type and Study Design Taggers to Support Biomedical Indexing and Evidence-Based Medicine.” In this analysis, our team experts carried out an independent formal review and consensus process for extreme disagreements between MEDLINE indexing and model predictive scores. “Extreme disagreements” included two situations: (1) an abstract was MEDLINE indexed as a publication type but received low scores for this publication type, and (2) an abstract received high scores for a publication type but lacked the corresponding MEDLINE index term. “High predictive score” is defined as the top 100 high-scoring, and “low predictive score” is defined as the bottom 100 low-scoring. Three publication types were analyzed, which are CASE_CONTROL_STUDY, COHORT_STUDY, and CROSS_SECTIONAL_STUDY. Results were recorded in three Excel workbooks, named after the publication types: case_control_study.xlsx, cohort_study.xlsx, and cross_sectional_study.xlsx. The analysis shows that, when the tagger gave a high predictive score (&gt;0.9) on articles that lacked a corresponding MEDLINE indexing term, independent review suggested that the model assignment was correct in almost all cases (CROSS_SECTIONAL_STUDY (99%), CASE_CONTROL_STUDY (94.9%), and COHORT STUDY (92.2%)). Conversely, when articles received MEDLINE indexing but model predictive scores were very low (&lt;0.1), independent review suggested that the model assignment was correct in the majority of cases: CASE_CONTROL_STUDY (85.4%), COHORT STUDY (76.3%), and CROSS_SECTIONAL_STUDY (53.6%). Based on the extreme disagreement analysis, we identified a number of false-positives (FPs) and false-negatives (FNs). For case control study, there were 5 FPs and 14 FNs. For cohort study, there were 7 FPs and 22 FNs. For cross-sectional study, there were 1 FP and 45 FNs. We reviewed and grouped them based on patterns noticed, providing clues for further improving the models. This dataset reports the instances of FPs and FNs along with their categorizations.
DOI: 10.6084/m9.figshare.15024705
title: ABLUP Job File

description: This job file runs ABLUP. User will need to specify their own input folder and output folder. <br><br>Heritability is estimated and marginal breeding values are predicted.<br><br><br>
DOI: 10.6084/m9.figshare.15024540
title: GBLUP Pedigree

description: A file specifying the order of appearance for genotypes in the file G1.grm.csv<br><br>This file is required by ASReml to map the genotypes to their corresponding rows in G.
DOI: 10.6084/m9.figshare.15024540.v1
title: GBLUP Pedigree

description: A file specifying the order of appearance for genotypes in the file G1.grm.csv<br><br>This file is required by ASReml to map the genotypes to their corresponding rows in G.
DOI: 10.6084/m9.figshare.15024387
title: Genomic relationship matrix

description: Realized relationship matrix, sparse-format for ASREML
DOI: 10.6084/m9.figshare.15023358
title: Pedigree File

description: Pedigree file for use in ABLUP with the 'Phenotypes_for_ABLUP.csv' file.
DOI: 10.34810/data72/666
title: 02AC_1.MR.0009.0089.2013.03.10.09.04.41.296875.165174918.IMA
DOI: 10.6084/m9.figshare.15023355
title: Marker Matrix M1

description: 2514 loblolly pine genotypes are scored with 29135 SNP markers from the Pita50K Affymetrix chip.
DOI: 10.6084/m9.figshare.15023343
title: Phenotypic Data for ABLUP

description: Multi-environment trial dataset used in pedigree-based BLUP.
DOI: 10.6084/m9.figshare.15023343.v1
title: Phenotypic Data for ABLUP

description: Multi-environment trial dataset used in pedigree-based BLUP.
DOI: 10.6084/m9.figshare.15023334
title: Consensus Map

description: Consensus linkage map for genetic markers in matrices M1 and M2.
DOI: 10.6084/m9.figshare.15023316
title: Marker Matrix M2

description: Phased marker matrix, in 'A|G' format, for 2063 loblolly pine individuals.<br><br>The phasing was used to estimate LD using the 'pegas' R package. The same set of markers were used in GWAS. Genetic positions can be found in Consensus Map.
DOI: 10.5281/zenodo.4906299
title: Drosophila Miniature Neurotransmission and Ageing Dataset

description: Original microscopy images and electrophysiology datasets related to the study of miniature neurotransmission and the ageing of Drosophila synaptic terminals.
DOI: 10.5281/zenodo.4906298
title: Drosophila Miniature Neurotransmission and Ageing Dataset

description: Original microscopy images and electrophysiology datasets related to the study of miniature neurotransmission and the ageing of Drosophila synaptic terminals.
DOI: 10.34810/data72/667
title: 02AC_1.MR.0009.0143.2013.03.10.09.04.41.296875.165175890.IMA
DOI: 10.5281/zenodo.5117118
title: Sample points for constructing Bivariate Cut-HDMR and CCD metamodels

description: This supplemental file contains (1) the warpage values of 201 sample points that were used to construct the Bivariate Cut-HDMR metamodel; (2) the warpage values of 1,045 sample points that were used to construct the CCD metamodel; and (3) the Monte Carlo simulation sample points that used for validation.
DOI: 10.5281/zenodo.5117117
title: Sample points for constructing Bivariate Cut-HDMR and CCD metamodels

description: This supplemental file contains (1) the warpage values of 201 sample points that were used to construct the Bivariate Cut-HDMR metamodel; (2) the warpage values of 1,045 sample points that were used to construct the CCD metamodel; and (3) the Monte Carlo simulation sample points that used for validation.
DOI: 10.6084/m9.figshare.15025266
title: Height BLUE

description: Best linear unbiased estimates for height for 2063 pine clones estimated from MET analysis of 8 sites.
DOI: 10.34810/data72/668
title: 02AC_1.MR.0009.0166.2013.03.10.09.04.41.296875.165176311.IMA
DOI: 10.34810/data72/669
title: 02AC_1.MR.0009.0192.2013.03.10.09.04.41.296875.165176779.IMA
DOI: 10.15468/rfkrjp
title: Revision of Orthophytum (Bromeliaceae): the species with sessile inflorescences

description: This dataset contains the digitized treatments in Plazi based on the original journal article Louzada, Rafael Batista, Wanderley, Maria Das Graças Lapa (2010): Revision of Orthophytum (Bromeliaceae): the species with sessile inflorescences. Phytotaxa 13: 1-26, DOI: 10.11646/phytotaxa.13.1.1, URL: http://biotaxa.org/Phytotaxa/article/view/phytotaxa.13.1.1
DOI: 10.15468/q7mnsv
title: Two new Aprostocetus species (Hymenoptera: Eulophidae: Tetrastichinae), fortuitous parasitoids of invasive eulophid gall inducers (Tetrastichinae) on Eucalyptus and Erythrina

description: This dataset contains the digitized treatments in Plazi based on the original journal article Yang, Man-Miao, Lin, Yu-Che, Wu, Yaojun, Fisher, Nicole, Saimanee, Titiporn, Sangtongpraow, Benjakhun, Zhu, Chaodong, Chiu, William Chien-Hsien, Salle, John La (2014): Two new Aprostocetus species (Hymenoptera: Eulophidae: Tetrastichinae), fortuitous parasitoids of invasive eulophid gall inducers (Tetrastichinae) on Eucalyptus and Erythrina. Zootaxa 3846 (2): 261-272, DOI: 10.11646/zootaxa.3846.2.6
DOI: 10.15468/nf3zmr
title: The genus Nyctiophylax Brauer in China (Trichoptera, Polycentropodidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Zhong, Hua, Yang, Lian-Fang, Morse, John C. (2014): The genus Nyctiophylax Brauer in China (Trichoptera, Polycentropodidae). Zootaxa 3846 (2): 273-284, DOI: http://dx.doi.org/10.11646/zootaxa.3846.2.7
DOI: 10.15468/ds4y9z
title: Taxonomic utility of niche models in validating species concepts: A case study in Anthophora (Heliophila) (Hymenoptera: Apidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Orr, Michael C., Koch, Jonathan B., Griswold, Terry L., Pitts, James P. (2014): Taxonomic utility of niche models in validating species concepts: A case study in Anthophora (Heliophila) (Hymenoptera: Apidae). Zootaxa 3846 (3): 411-429, DOI: http://dx.doi.org/10.11646/zootaxa.3846.3.5
DOI: 10.7303/syn23651229
title: Cell-free DNA ultra-low-pass whole genome sequencing to distinguish malignant peripheral nerve sheath tumor (MPNST) from its benign precursor lesion: a cross-sectional study
DOI: 10.34810/data72/670
title: 02AC_1.MR.0009.0094.2013.03.10.09.04.41.296875.165175008.IMA
DOI: 10.6084/m9.figshare.14838390
title: Data from: Phylogenomic analyses clarify the pattern of evolution of Adephaga (Coleoptera) and highlight phylogenetic artefacts due to model misspecification and excessive data trimming

description: Supplementary data to the research article: <br> <b>Phylogenomic analyses clarify the pattern of evolution</b><b> of Adephaga (Coleoptera) and highlight phylogenetic artefacts due to model misspecification and excessive data trimming</b> <br> Authors: Alexandros Vasilikopoulos, Michael Balke, Sandra Kukowka, James M. Pflug, Sebastian Martin, Karen Meusemann, Lars Hendrich, Christoph Mayer, David R. Maddison, Oliver Niehuis, Rolf G. Beutel, Bernhard Misof <br> The following directories are included: <br> <b>01.Ortholog_set</b> Description: Ortholog set used for bait design in this study (the format is intended for use in the software package Orthograph) <br> <b>02.Bait_sequences</b> DescriptionThis folder includes (a) the file with the bait nucleotide sequences, (b) a dictionary of the gene IDs of <i>Tribolium castaneum</i> and corresponding OrthoDB IDs of genes used for target enrichment and (c) a file with the IDs of the targeted exons (based on annotation of <i>T. castaneum</i> v. 5.2 in the form GENEID_X_Y, where X: the number of exon targeted and Y: the total number of exons for that gene) <br> <b>03.Clean_assemblies_hybrid_enrichment_data</b> Description: Assemblies of the hybrid-enrichment genomic data after removal of putative cross-contaminations <br> <b>04.Alignments_before_Aliscore</b> Description: Amino-acid and nucleotide alignments before trimming with Aliscore <br> <b>05.Supermatrices</b> Description: All inferred and analyzed supermatrices <br> <b>06.Treefiles_supermatrices</b> Description: All phylogenetic trees inferred from analyses of supermatrices (best trees for maximum likelihood analyses) <br> <b>07.Filtered_datasets_coalescent_analyses</b> Description: All analyzed amino-acid alignments used in summary coalescent phylogenetic analyses (filtered alignments) <br> <b>08.Gene trees_non-collapsed</b> Description: All inferred gene trees used as input in summary coalescent analyses (before collapsing weakly supported nodes) <br> <b>09.Treefiles_coalescent_analyses</b> Description: All inferred species trees resulted from summary coalescent phylogenetic analyses <br> <b>10.Custom_scripts</b> Description: Custom scripts used in the study<br><br>
DOI: 10.5281/zenodo.5113133
title: Submission to Special Issue of Quantitative Science Studies "Scientific Knowledge Graphs and Research Impact Assessment"

description: To be added
DOI: 10.5281/zenodo.4563290
title: Submission to Special Issue of Quantitative Science Studies "Scientific Knowledge Graphs and Research Impact Assessment"

description: To be added
DOI: 10.34810/data72/671
title: 02AC_1.MR.0009.0185.2013.03.10.09.04.41.296875.165176653.IMA
DOI: 10.5281/zenodo.5115909
title: Dataset for "Rapidly expanding lake heatwaves under climate change"

description: Dataset for "Rapidly expanding lake heatwaves under climate change", and example code for calculating spatiotemporally connected lake heatwaves (fig2_zenodo.m). Each data file contains a binary 3d array (longitude vs latitude vs time) of heatwave occurrence (0 = no heatwave and 1 == heatwave), as well as the temperature anomaly at each time step. The files are separated per lake and per year.
DOI: 10.5281/zenodo.5115908
title: Dataset for "Rapidly expanding lake heatwaves under climate change"

description: Dataset for "Rapidly expanding lake heatwaves under climate change", and example code for calculating spatiotemporally connected lake heatwaves (fig2_zenodo.m). Each data file contains a binary 3d array (longitude vs latitude vs time) of heatwave occurrence (0 = no heatwave and 1 == heatwave), as well as the temperature anomaly at each time step. The files are separated per lake and per year.
DOI: 10.5281/zenodo.5102936
title: ChannelSet: a composite dataset of diverse acoustic environments

description: We introduce ChannelSet, a dataset which provides a launchpad for exploring the extraneous acoustic information typically suppressed or ignored in audio tasks such as automatic speech recognition. We combined components of existing publicly available datasets to encompass broad variability in recording equipment, microphone position, room or surrounding acoustics, event density (i.e., how many audio events are present), and proportion of foreground and background sounds. Source datasets include: the CHiME-3 background dataset, CHiME-5 evaluation dataset, AMI meeting corpus, Freefield1010, and Vystadial2016. ChannelSet includes 13 classes spanning various acoustic environments: Indoor_Commercial_Bus, Indoor_Commercial_Cafe, Indoor_Domestic, Indoor_Meeting_Room1, Indoor_Meeting_Room2, Indoor_Meeting_Room3, Outdoor_City_Pedestrian, Outdoor_City_Traffic, Outdoor_Nature_Birds, Outdoor_Nature_Water, Outdoor_Nature_Weather, Telephony_CZ, and Telephony_EN. Each sample is between 1 and 10 seconds in duration. Each class contains 100 minutes of audio, for a total of 21.6 hours, split into separate test (20%) and train (80%) partitions. Download includes scripts, metadata, and instructions for producing ChannelSet from source datasets.<br>
DOI: 10.5281/zenodo.5117366
title: ChannelSet: a composite dataset of diverse acoustic environments

description: We introduce ChannelSet, a dataset which provides a launchpad for exploring the extraneous acoustic information typically suppressed or ignored in audio tasks such as automatic speech recognition. We combined components of existing publicly available datasets to encompass broad variability in recording equipment, microphone position, room or surrounding acoustics, event density (i.e., how many audio events are present), and proportion of foreground and background sounds. Source datasets include: the CHiME-3 background dataset, CHiME-5 evaluation dataset, AMI meeting corpus, Freefield1010, and Vystadial2016. ChannelSet includes 13 classes spanning various acoustic environments: Indoor_Commercial_Bus, Indoor_Commercial_Cafe, Indoor_Domestic, Indoor_Meeting_Room1, Indoor_Meeting_Room2, Indoor_Meeting_Room3, Outdoor_City_Pedestrian, Outdoor_City_Traffic, Outdoor_Nature_Birds, Outdoor_Nature_Water, Outdoor_Nature_Weather, Telephony_CZ, and Telephony_EN. Each sample is between 1 and 10 seconds in duration. Each class contains 100 minutes of audio, for a total of 21.6 hours, split into separate test (20%) and train (80%) partitions. Download includes scripts, metadata, and instructions for producing ChannelSet from source datasets.<br>
DOI: 10.5281/zenodo.5102935
title: ChannelSet: a composite dataset of diverse acoustic environments

description: We introduce ChannelSet, a dataset which provides a launchpad for exploring the extraneous acoustic information typically suppressed or ignored in audio tasks such as automatic speech recognition. We combined components of existing publicly available datasets to encompass broad variability in recording equipment, microphone position, room or surrounding acoustics, event density (i.e., how many audio events are present), and proportion of foreground and background sounds. Source datasets include: the CHiME-3 background dataset, CHiME-5 evaluation dataset, AMI meeting corpus, Freefield1010, and Vystadial2016. ChannelSet includes 13 classes spanning various acoustic environments: Indoor_Commercial_Bus, Indoor_Commercial_Cafe, Indoor_Domestic, Indoor_Meeting_Room1, Indoor_Meeting_Room2, Indoor_Meeting_Room3, Outdoor_City_Pedestrian, Outdoor_City_Traffic, Outdoor_Nature_Birds, Outdoor_Nature_Water, Outdoor_Nature_Weather, Telephony_CZ, and Telephony_EN. Each sample is between 1 and 10 seconds in duration. Each class contains 100 minutes of audio, for a total of 21.6 hours, split into separate test (20%) and train (80%) partitions. Download includes scripts, metadata, and instructions for producing ChannelSet from source datasets.<br>
DOI: 10.21227/v1z6-9z84
title: University of Toronto Foot-Mounted Inertial Navigation Dataset

description: This dataset consists of measurements from a foot-mounted inertial measurement unit (IMU). In total, we provide data from five different test subjects travelling over more than 7.6 km. The data are combined with various forms of ground truth positioning information that can be used to evaluate the accuracy of a zero-velocity-aided, foot-mounted inertial navigation system (INS). In contrast to other similar datasets, our data incorporate several non-walking motions, such as running, crawling, and stair-climbing, as well as mixed-motion trials in which the test subjects alternated between walking and running. In addition to the dataset itself, we also provide an open source foot-mounted INS, with several zero-velocity detector implementations already coded up. The Python-based INS (called PyShoe), along with a suite of data processing tools, is available in the provided Github repository.
DOI: 10.34810/data72/672
title: 02AC_1.MR.0009.0190.2013.03.10.09.04.41.296875.165176743.IMA
DOI: 10.6084/m9.figshare.15025365.v1
title: Fig2_EDFig4a-e_EDFig5_extent_of_river_fragmentation_in_Europe.zip

description: Corrected dataset without some duplicates 20/07/2021
DOI: 10.6084/m9.figshare.15025365
title: Fig2_EDFig4a-e_EDFig5_extent_of_river_fragmentation_in_Europe.zip

description: Corrected dataset without some duplicates 20/07/2021
DOI: 10.6084/m9.figshare.15022503.v1
title: Supporting data and R script for: Predictors of COVID-19 epidemics in countries of the World Health Organisation African Region

description: Raw data: raw data for COVID-19 cases and deaths, and a set of predictors from the data source (Supplementary table 1).<br>R data: cleaned version of data sets based on the raw data.<br>R script: R codes used to clean data, fit models, and generate figures and tables in the study.<br><br>
DOI: 10.34810/data72/673
title: 02AC_1.MR.0009.0215.2013.03.10.09.04.41.296875.165177193.IMA
DOI: 10.15468/py8pyc
title: Grammoplites vittatus (Valenciennes), (Scorpaeniformes, Platycephalidae), removed from synonymy with Grammoplites scaber (Linnaeus)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Knapp, Leslie W., Imamura, Hisashi (2014): Grammoplites vittatus (Valenciennes), (Scorpaeniformes, Platycephalidae), removed from synonymy with Grammoplites scaber (Linnaeus). Zootaxa 3846 (3): 447-450, DOI: http://dx.doi.org/10.11646/zootaxa.3846.3.8
DOI: 10.15468/ygnhps
title: The genus Mytilina in China, with description of a new species (Rotifera: Monogononta: Mytilinidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Luo, Yongting, Segers, Hendrik (2014): The genus Mytilina in China, with description of a new species (Rotifera: Monogononta: Mytilinidae). Zootaxa 3846 (4): 561-568, DOI: http://dx.doi.org/10.11646/zootaxa.3846.4.4
DOI: 10.34810/data72/674
title: 02AC_1.MR.0009.0022.2013.03.10.09.04.41.296875.165173712.IMA
DOI: 10.34810/data72/675
title: 02AC_1.MR.0009.0012.2013.03.10.09.04.41.296875.165173532.IMA
DOI: 10.6073/pasta/3bcceb8c3efb664de3142f73bcf3e98b
title: Assessing the use of bison for savanna restoration at Cedar Creek Ecosystem Science Reserve: Oak sapling growth

description: Oak savanna is the most threatened ecosystem in Minnesota and fire, alone, is not restoring and preserving it. Our savanna restoration research started more than a half century ago in what had once been native savanna at Cedar Creek. It has shown that burning about 4 to 7 times per decade eliminates shrubs and non-savanna tree species and restores prairie grassland species. However, our 50 years of research is also showing that these frequent and intense fires are preventing oaks from regenerating. Bison are now known to be a keystone species for restoring and preserving grasslands, but their roles in savanna ecosystems remain unknown. In grasslands, bison preferentially graze the dominant warm season grasses that would otherwise outcompete wildflowers, thereby promoting plant coexistence and enhancing plant diversity. Here we propose to test whether bison grazing might promote the growth and survivorship of oak seedlings in burned savannas by reducing grass fuel for fires and by knocking back dominant grass competitors. We will maintain the existing fire frequencies and the design of the long-term burning experiment, while adding bison grazing as an additional factor in part of several burn units on the southeast side of the property. Bison will graze during the summer and early fall seasons. Grazing exclosures will be established, and oak seedlings will be planted, to test effects of bison grazing on early oak growth and survivorship. The outcomes we plan to achieve are to: (1) discover better restoration and preservation practices for savanna ecosystems; (2) determine how these practices impact savanna biodiversity; and (3) educate Minnesotans about the ecological heritage of their state, including the roles that bison, fire and biodiversity play in the functioning of savannas and other Minnesota ecosystems. We will achieve these goals and outcomes by: (1) restoring bison grazing to 200 acres of oak savanna; (2) experimentally testing whether bison grazing promotes savanna biodiversity; and (3) disseminating results to K-12 students and visitors.
DOI: 10.15139/s3/1c3htk
title: SaniPath Deployments

description: The "SaniPath Deployments" Dataverse contains data from 13 previous deployments of the SaniPath Exposure Assessment Tool. The "Unidoc_Master" file provides key information about previous deployments and helps orient users on how to navigate the various data files. The "meta_" and "question_" files are documents that provide keys for the questions asked during surveys (community, household, and school) and various answer options. It also contains information about deployment partners, neighborhoods, codes for various kinds of produce and street food, sample type codes, behavioral frequency denominators, and more. For more information on SaniPath and how data is collected for deployments of the SaniPath Exposure Assessment Tool, please visit: https://www.sanipath.org/