cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5123348
title: Code and Data to reproduce figures in -&gt; Relationship of bacterial phylotype with specialized metabolite production in the culturable microbiome of two freshwater sponges

description: To reproduce the figures/analyses from this work, download the entire Zenodo code/data release (warning- this is a few GB large) Due to a requirement of the mass spectrometry conversion software, data was first converted on a Windows machine to an IDBac database using the script `R/convert_from_bruker.R`. ProteoWizard must be installed before running this script.<br> <br> The resulting SQLite database is available within the Zenodo code/data release To reproduce the figures/analyses you will need to download the Zenodo code/data release and have Docker installed To build the Docker image from scratch open a terminal at `sponge_analysis` and run the following command (warning: this is not fast):<br> <pre><code class="language-bash">docker build -f dockerfile --tag chasemc2/sponge_manuscript .</code></pre> The image has also been archived within the Zenodo code/data release as "docker_image.tar.gz" To build the notebooks/create the figures open a terminal at the top directory of the downloaded Zenodo code/data release and run the following three commands : <br> <pre><code class="language-bash"> docker run --user `id -u` --rm -ti -v${PWD}:/top -w/top/analyses chasemc2/sponge_manuscript Rscript -e 'rmarkdown::render("analysis.Rmd", params = list(conditions = "all") , output_file = "all_isolates.html")' docker run --user `id -u` --rm -ti -v${PWD}:/top -w/top/analyses chasemc2/sponge_manuscript Rscript -e 'rmarkdown::render("analysis.Rmd", params = list(conditions = "matched"), output_file = "matched_isolates.html")' docker run --user `id -u` --rm -ti -v${PWD}:/top -w/top/analyses chasemc2/sponge_manuscript Rscript -e 'rmarkdown::render("16s_analysis.Rmd")'</code></pre>
DOI: 10.5281/zenodo.5123347
title: Code and Data to reproduce figures in -&gt; Relationship of bacterial phylotype with specialized metabolite production in the culturable microbiome of two freshwater sponges

description: To reproduce the figures/analyses from this work, download the entire Zenodo code/data release (warning- this is a few GB large) Due to a requirement of the mass spectrometry conversion software, data was first converted on a Windows machine to an IDBac database using the script `R/convert_from_bruker.R`. ProteoWizard must be installed before running this script.<br> <br> The resulting SQLite database is available within the Zenodo code/data release To reproduce the figures/analyses you will need to download the Zenodo code/data release and have Docker installed To build the Docker image from scratch open a terminal at `sponge_analysis` and run the following command (warning: this is not fast):<br> <pre><code class="language-bash">docker build -f dockerfile --tag chasemc2/sponge_manuscript .</code></pre> The image has also been archived within the Zenodo code/data release as "docker_image.tar.gz" To build the notebooks/create the figures open a terminal at the top directory of the downloaded Zenodo code/data release and run the following three commands : <br> <pre><code class="language-bash"> docker run --user `id -u` --rm -ti -v${PWD}:/top -w/top/analyses chasemc2/sponge_manuscript Rscript -e 'rmarkdown::render("analysis.Rmd", params = list(conditions = "all") , output_file = "all_isolates.html")' docker run --user `id -u` --rm -ti -v${PWD}:/top -w/top/analyses chasemc2/sponge_manuscript Rscript -e 'rmarkdown::render("analysis.Rmd", params = list(conditions = "matched"), output_file = "matched_isolates.html")' docker run --user `id -u` --rm -ti -v${PWD}:/top -w/top/analyses chasemc2/sponge_manuscript Rscript -e 'rmarkdown::render("16s_analysis.Rmd")'</code></pre>
DOI: 10.34810/data72/1123
title: 01AC_1.MR.0004.0212.2013.03.10.14.06.27.296875.165387163.IMA
DOI: 10.6084/m9.figshare.14482917.v1
title: Annotated Android App Descriptions

description: Annotated Android App Descriptions 'Enhancing Fidelity of Description in Android Apps with Category-based Common Permissions'.<br>- <b>common_permission.json</b>: It contains a set of common permissions for each category in Play Store.- <b>clean_annotated_dataset.csv</b>: original annotated dataset covers 26 permissions in 10 groups.<br>- <b>augmented_dataset.csv</b>: We augmented the annotated dataset by Thesaurus and backtranslation techniques.- <b>API_mappings.csv</b>: The mappings between Android permissions and corresponding APIs for 26 permissions (API level 16-28).<br>Please check the paper to get more information.<br><br><br><br>
DOI: 10.6084/m9.figshare.14482917
title: Annotated Android App Descriptions

description: Annotated Android App Descriptions 'Enhancing Fidelity of Description in Android Apps with Category-based Common Permissions'.<br>- <b>common_permission.json</b>: It contains a set of common permissions for each category in Play Store.- <b>clean_annotated_dataset.csv</b>: original annotated dataset covers 26 permissions in 10 groups.<br>- <b>augmented_dataset.csv</b>: We augmented the annotated dataset by Thesaurus and backtranslation techniques.- <b>API_mappings.csv</b>: The mappings between Android permissions and corresponding APIs for 26 permissions (API level 16-28).<br>Please check the paper to get more information.<br><br><br><br>
DOI: 10.34810/data72/1124
title: 01AC_1.MR.0004.0206.2013.03.10.14.06.27.296875.165387055.IMA
DOI: 10.34810/data72/1125
title: 01AC_1.MR.0004.0039.2013.03.10.14.06.27.296875.165384042.IMA
DOI: 10.34810/data72/696
title: 01AC_1.MR.0004.0026.2013.03.10.14.06.27.296875.165383808.IMA
DOI: 10.5281/zenodo.5124710
title: Data set for 'Remote control of neural function by X-ray-induced scintillation'

description: Data set for: Matsubara T, Yanagida T, Kawaguchi N, Nakano T, Yoshimoto J, Sezaki M, Takizawa H, Tsunoda SP, Horigane S, Ueda S, Takemoto-Kimura S, Kandori H, Yamanaka A, Yamashita T (2021) Remote control of neural function by X-ray-induced scintillation. Nature Communications 12: 4478, doi 10.1038/s41467-021-24717-1 There are 2 files in this upload: 1. The file named "Matsubara_data.zip" (~18 GB) is a zipped version of a folder "Dataset" (~27 GB), which contains images, movies, and other data analyzed in the study. When unzipped, the folder contains subfolders categorized based on experiment types. A 'read me' text file is associated with each small dataset. 2. The file named "Matsubara_published.zip" (~5 MB) contains the Open Access pdf of the paper, the Supplementary Information file, and the Source Data file.
DOI: 10.5281/zenodo.4964866
title: Data set for 'Remote control of neural function by X-ray-induced scintillation'

description: Data set for: Matsubara T, Yanagida T, Kawaguchi N, Nakano T, Yoshimoto J, Sezaki M, Takizawa H, Tsunoda SP, Horigane S, Ueda S, Takemoto-Kimura S, Kandori H, Yamanaka A, Yamashita T (2021) Remote control of neural function by X-ray-induced scintillation. Nature Communications 12: 4478, doi 10.1038/s41467-021-24717-1 There are 2 files in this upload: 1. The file named "Matsubara_data.zip" (~18 GB) is a zipped version of a folder "Dataset" (~27 GB), which contains images, movies, and other data analyzed in the study. When unzipped, the folder contains subfolders categorized based on experiment types. A 'read me' text file is associated with each small dataset. 2. The file named "Matsubara_published.zip" (~5 MB) contains the Open Access pdf of the paper, the Supplementary Information file, and the Source Data file.
DOI: 10.34810/data72/1126
title: 01AC_1.MR.0004.0171.2013.03.10.14.06.27.296875.165386425.IMA
DOI: 10.6084/m9.figshare.15040722
title: Large-Scale Field Occurrence and Human Risk of the Organophosphorus Flame Retardants (OPFRs) Along the Yangtze River, China

description: A large-scale field investigation on the organophosphorus flame retardants (OPFRs) was first conducted in water and atmosphere samples along the mainstream Yangtze River (YR), China. 30 water samples and 16 atmospheric samples were collected along the YR in the early summer of 2019. The detailed sampling information and OPFRs' levels were present in the dataset.
DOI: 10.6084/m9.figshare.15040722.v1
title: Large-Scale Field Occurrence and Human Risk of the Organophosphorus Flame Retardants (OPFRs) Along the Yangtze River, China

description: A large-scale field investigation on the organophosphorus flame retardants (OPFRs) was first conducted in water and atmosphere samples along the mainstream Yangtze River (YR), China. 30 water samples and 16 atmospheric samples were collected along the YR in the early summer of 2019. The detailed sampling information and OPFRs' levels were present in the dataset.
DOI: 10.34810/data72/1127
title: 01AC_1.MR.0004.0149.2013.03.10.14.06.27.296875.165386029.IMA
DOI: 10.5281/zenodo.5091113
title: Indicative distribution map for Ecosystem Functional Group MT2.1 Coastal shrublands and grasslands

description: This archive contains indicative distribution maps and profiles for <strong>MT2.1 Coastal shrublands and grasslands</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.
DOI: 10.5281/zenodo.5091112
title: Indicative distribution map for Ecosystem Functional Group MT2.1 Coastal shrublands and grasslands

description: This archive contains indicative distribution maps and profiles for <strong>MT2.1 Coastal shrublands and grasslands</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.
DOI: 10.5281/zenodo.5091095
title: Indicative distribution map for Ecosystem Functional Group MT1.4 Boulder and cobble shores

description: This archive contains indicative distribution maps and profiles for <strong>MT1.4 Boulder and cobble shores</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.
DOI: 10.5281/zenodo.5091094
title: Indicative distribution map for Ecosystem Functional Group MT1.4 Boulder and cobble shores

description: This archive contains indicative distribution maps and profiles for <strong>MT1.4 Boulder and cobble shores</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.
DOI: 10.5281/zenodo.5091083
title: Indicative distribution map for Ecosystem Functional Group T7.3 Plantations

description: This archive contains indicative distribution maps and profiles for <strong>T7.3 Plantations</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.
DOI: 10.5281/zenodo.5091082
title: Indicative distribution map for Ecosystem Functional Group T7.3 Plantations

description: This archive contains indicative distribution maps and profiles for <strong>T7.3 Plantations</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.
DOI: 10.5281/zenodo.5091087
title: Indicative distribution map for Ecosystem Functional Group T7.5 Derived semi-natural pastures and old fields

description: This archive contains indicative distribution maps and profiles for <strong>T7.5 Derived semi-natural pastures and old fields</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.
DOI: 10.5281/zenodo.5091086
title: Indicative distribution map for Ecosystem Functional Group T7.5 Derived semi-natural pastures and old fields

description: This archive contains indicative distribution maps and profiles for <strong>T7.5 Derived semi-natural pastures and old fields</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.
DOI: 10.5281/zenodo.5091043
title: Indicative distribution map for Ecosystem Functional Group SF1.1 Underground streams and pools

description: This archive contains indicative distribution maps and profiles for <strong>SF1.1 Underground streams and pools</strong>, a ecosystem functional group (EFG, level 3) of the IUCN Global Ecosystem Typology (v2.0). Please refer to Keith <em>et al.</em> (2020) for details. The descriptive profiles provide brief summaries of key ecological traits and processes, maps are indicative of global distribution patterns, and are not intended to represent fine-scale patterns. The maps show areas of the world containing major (value of 1, coloured red) or minor occurrences (value of 2, coloured yellow) of each ecosystem functional group. Minor occurrences are areas where an ecosystem functional group is scattered in patches within matrices of other ecosystem functional groups or where they occur in substantial areas, but only within a segment of a larger region. Given bounds of resolution and accuracy of source data, the maps should be used to query which EFG are likely to occur within areas, rather than which occur at particular point locations. Detailed methods and references for the maps are included in the profile (xml format).
description: This dataset is part of the publication: Keith DA, Ferrer-Paris JR, Nicholson E, Kingsford RT (Eds.) (2020) 'The IUCN Global Ecosystem Typology v2.0: Descriptive profiles for Biomes and Ecosystem Functional Groups'. The International Union for the Conservation of Nature (IUCN), Gland. DOI:10.2305/IUCN.CH.2020.13.en. DAK, & JRFP were supported by ARC Linkage Grants LP170101143 and LP180100159 and the MAVA Foundation.