cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3519742
title: Most popular scholarly works in the English Wikipedia and their transition to open access

description: Following the release of "The future of OA" by Piwowar, Priem, Orr (2019), interest has grown on how to accelerate the share of scholarly works consultations which meet an open access record. Based on download patterns for over 23 million DOIs in 2017, released by Elbakyan (2018), we found that the 1 million most downloaded DOIs accounted for over 30 % of the total downloads. Of these 1 million DOIs, over 50 thousands (5 %) were previously identified as cited on the English Wikipedia and not open access (Leva 2018). Of these, 2440 DOIs are now open access according to the Unpaywall API as of 2019-10-25: a list of the corresponding OA URL and host type is enclosed, showing that 34 % became OA at the publisher while 66 % were made OA by a repository. The newly OA works were hosted at over 400 domains of which over 300 repositories, but the top 10 repositories accounted for a large portion of the works, with the top 3 repositories accounting for over 40 % of the newly found green open access DOIs. Part of the newly OA works were just false negatives in Unpaywall in 2018, but a small manual sample shows that most are truly new deposits. Works from 2017 can be expected to be over-represented in the sample given that they were probably the most popular downloads of 2017 and could have been under embargo in 2018 when the previous measure of open access status was made.
description: {"references": ["Elbakyan (2018). Sci-Hub 2017 downloads. Zenodo. https://doi.org/10.5281/zenodo.1248838", "Leva (2017). DOIs linked by the English Wikipedia which could be made available in green Open Access. Zenodo. https://doi.org/10.5281/zenodo.997222", "Piwowar, Priem, Orr (2019) The Future of OA: A large-scale analysis projecting Open Access publication and readership. bioRxiv: https://doi.org/10.1101/795310", "Piwowar, Priem et al (2018). The state of OA: a large-scale analysis of the prevalence and impact of Open Access articles. PeerJ 6:e4375 https://doi.org/10.7717/peerj.4375", "Redi and Taraborelli (2018). Accessibility and topics of citations with identifiers in Wikipedia. Figshare. https://doi.org/10.6084/m9.figshare.6819710.v1"]}
DOI: 10.5281/zenodo.997222
title: DOIs linked by the English Wikipedia which could be made available in green Open Access

description: List of citations from the English Wikipedia articles extracted from the enwiki-20170720-pages-articles XML dump via https://pypi.org/project/mwcites/ , DOIs cleaned with custom regular expressions. The list of scholarly publications identified by the DOIs has been filtered to exclude those which are already available in Open Access and those which may not be depositable according to SHERPA/RoMEO policy summaries, first via the Dissemin API and then by the oaDOI API, with the attached Python script (https://github.com/nemobis/bots/blob/master/doi-doai-openaccess.py ). This produced a list of 194913 DOIs available in open access and 430230 DOIs unavailable and depositable (as of 2017-08-22 data, which for oaDOI was partly v1 and partly v2).
description: This dataset repackages data offered by others. For attribution and their own sources, see the respective web pages: * https://dumps.wikimedia.org/ * https://pypi.python.org/pypi/mwcites * http://dev.dissem.in/api.html * https://oadoi.org/api The dataset is a partial update of: * Federico Leva, . (2016). DOI linked by Wikipedia and available in green Open Access [Data set]. Zenodo. http://doi.org/10.5281/zenodo.54799 * https://dx.doi.org/10.6084/M9.FIGSHARE.1299540
description: {"references": ["Piwowar H, Priem J, Larivi\u00e8re V, Alperin JP, Matthias L, Norlander B, Farley A, West J, Haustein S. 2018. The state of OA: a large-scale analysis of the prevalence and impact of Open Access articles. PeerJ 6:e4375 https://doi.org/10.7717/peerj.4375"]}
DOI: 10.5281/zenodo.997221
title: DOIs linked by the English Wikipedia which could be made available in green Open Access

description: List of citations from the English Wikipedia articles extracted from the enwiki-20170720-pages-articles XML dump via https://pypi.org/project/mwcites/ , DOIs cleaned with custom regular expressions. The list of scholarly publications identified by the DOIs has been filtered to exclude those which are already available in Open Access and those which may not be depositable according to SHERPA/RoMEO policy summaries, first via the Dissemin API and then by the oaDOI API, with the attached Python script (https://github.com/nemobis/bots/blob/master/doi-doai-openaccess.py ). This produced a list of 194913 DOIs available in open access and 430230 DOIs unavailable and depositable (as of 2017-08-22 data, which for oaDOI was partly v1 and partly v2).
description: This dataset repackages data offered by others. For attribution and their own sources, see the respective web pages: * https://dumps.wikimedia.org/ * https://pypi.python.org/pypi/mwcites * http://dev.dissem.in/api.html * https://oadoi.org/api The dataset is a partial update of: * Federico Leva, . (2016). DOI linked by Wikipedia and available in green Open Access [Data set]. Zenodo. http://doi.org/10.5281/zenodo.54799 * https://dx.doi.org/10.6084/M9.FIGSHARE.1299540
description: {"references": ["Piwowar H, Priem J, Larivi\u00e8re V, Alperin JP, Matthias L, Norlander B, Farley A, West J, Haustein S. 2018. The state of OA: a large-scale analysis of the prevalence and impact of Open Access articles. PeerJ 6:e4375 https://doi.org/10.7717/peerj.4375"]}
DOI: 10.5281/zenodo.54799
title: DOI linked by Wikipedia and available in green Open Access

description: List of 399684 digital object identifiers (185790 unique) linked from the pages of Wikipedia in all languages (the 140 most visited subdomains according to stats.wikimedia.org, one file for each) and available on DOAI.io as redirect to an URL other than dx.doi.org. Those DOIs represent a cross section of research publications which are significant to the larger community of citizens and are available to them thanks to the green Open Access repositories. The script used to produce the dataset is also attached.
DOI: 10.5281/zenodo.3739553
title: Magnetosheath Jets MMS (5/2015 - 6/2019)

description: This dataset contains the jets and their classes that are used and analyzed in the paper: https://agupubs.onlinelibrary.wiley.com/doi/full/10.1029/2019JA027754 The list has been generated using MMS1 satellite with data from 5/2015 to 6/2019. More information can be found in the manuscript and its supplementary material.
DOI: 10.5281/zenodo.3739552
title: Magnetosheath Jets MMS (5/2015 - 6/2019)

description: This dataset contains the jets and their classes that are used and analyzed in the paper: https://agupubs.onlinelibrary.wiley.com/doi/full/10.1029/2019JA027754 The list has been generated using MMS1 satellite with data from 5/2015 to 6/2019. More information can be found in the manuscript and its supplementary material.
DOI: 10.6084/m9.figshare.13089554
title: Metadata record for: QM-symex, update of the QM-sym database with excited state information for 173 kilo molecules

description: This dataset contains key characteristics about the data described in the Data Descriptor QM-symex, update of the QM-sym database with excited state information for 173 kilo molecules. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.5284/1083484
title: Archaeological mitigation on land at Rockingham Forest Park, Wansford Road, King's Cliffe, Northamptonshire (OASIS ID: molanort1-361720)

description: MOLA (Museum of London Archaeology) Northampton undertook excavation of a series of areas on land at Rockingham Forest Park, King's Cliffe. The excavation uncovered part of a possible pit alignment, posthole structure, enclosures, quarrying and pits, all dating to the Iron Age, and a series of trackway and boundary ditches dating to the post-medieval period. A number of other undated features are also likely to relate to the post-medieval and/or modern use of the site.
DOI: 10.6084/m9.figshare.13162052
title: Metadata record for: A dataset of plant and microbial community structure after long-term grazing and mowing in a semiarid steppe

description: This dataset contains key characteristics about the data described in the Data Descriptor A dataset of plant and microbial community structure after long-term grazing and mowing in a semiarid steppe. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.13162052.v1
title: Metadata record for: A dataset of plant and microbial community structure after long-term grazing and mowing in a semiarid steppe

description: This dataset contains key characteristics about the data described in the Data Descriptor A dataset of plant and microbial community structure after long-term grazing and mowing in a semiarid steppe. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.5281/zenodo.4061694
title: Dataset for "Validation of the Astro dataset clustering solutions with external data"

description: <strong>Validation data for the <em>Astro</em> scientific publication clustering benchmark dataset</strong> This is the dataset used in the publication Donner, P. "Validation of the Astro dataset clustering solutions with external data", Scientometrics, DOI 10.1007/s11192-020-03780-3 Certain data included herein are derived from Clarivate Web of Science. © Copyright Clarivate 2020. All rights reserved. Published with permission from Clarivate. The original <em>Astro</em> dataset is not contained in this data. It can be obtained from http://topic-challenge.info/ and requires permission from Clarivate Analytics for use. This dataset collection consists of four files. Each file contains an independent dataset that relates to the Astro dataset via Web of Science (WoS) record identifiers. These identifiers are called UTs. All files are tabular data in CSV format. In each, at least one column contains UT data. This should be used to link to the <em>Astro </em>dataset or other WoS data. The datasets are discussed in detail in the journal publication.
DOI: 10.5281/zenodo.4061693
title: Dataset for "Validation of the Astro dataset clustering solutions with external data"

description: <strong>Validation data for the <em>Astro</em> scientific publication clustering benchmark dataset</strong> This is the dataset used in the publication Donner, P. "Validation of the Astro dataset clustering solutions with external data", Scientometrics, DOI 10.1007/s11192-020-03780-3 Certain data included herein are derived from Clarivate Web of Science. © Copyright Clarivate 2020. All rights reserved. Published with permission from Clarivate. The original <em>Astro</em> dataset is not contained in this data. It can be obtained from http://topic-challenge.info/ and requires permission from Clarivate Analytics for use. This dataset collection consists of four files. Each file contains an independent dataset that relates to the Astro dataset via Web of Science (WoS) record identifiers. These identifiers are called UTs. All files are tabular data in CSV format. In each, at least one column contains UT data. This should be used to link to the <em>Astro </em>dataset or other WoS data. The datasets are discussed in detail in the journal publication.
DOI: 10.6084/m9.figshare.13125419
title: Metadata record for: The landscape of childhood vaccine exemptions in the United States

description: This dataset contains key characteristics about the data described in the Data Descriptor The landscape of childhood vaccine exemptions in the United States. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.13125419.v1
title: Metadata record for: The landscape of childhood vaccine exemptions in the United States

description: This dataset contains key characteristics about the data described in the Data Descriptor The landscape of childhood vaccine exemptions in the United States. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.13070546
title: Metadata record for: Diffraction data from aerosolized Coliphage PR772 virus particles imaged with the Linac Coherent Light Source

description: This dataset contains key characteristics about the data described in the Data Descriptor Diffraction data from aerosolized Coliphage PR772 virus particles imaged with the Linac Coherent Light Source. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.13070546.v1
title: Metadata record for: Diffraction data from aerosolized Coliphage PR772 virus particles imaged with the Linac Coherent Light Source

description: This dataset contains key characteristics about the data described in the Data Descriptor Diffraction data from aerosolized Coliphage PR772 virus particles imaged with the Linac Coherent Light Source. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.5517/ccdc.csd.cc1p4zvn
title: CCDC 1553932: Experimental Crystal Structure Determination

description: Related Article: Perry M. Scheetz, Sarah T. Chachula, Russell P. Hughes, David S. Glueck, Curtis E. Moore, Milan Gembicky, Arnold L. Rheingold|2020|Organometallics|39|3802|doi:10.1021/acs.organomet.0c00516
DOI: 10.5517/ccdc.csd.cc1p4zwp
title: CCDC 1553933: Experimental Crystal Structure Determination

description: Related Article: Perry M. Scheetz, Sarah T. Chachula, Russell P. Hughes, David S. Glueck, Curtis E. Moore, Milan Gembicky, Arnold L. Rheingold|2020|Organometallics|39|3802|doi:10.1021/acs.organomet.0c00516
DOI: 10.5517/ccdc.csd.cc1p500w
title: CCDC 1553937: Experimental Crystal Structure Determination

description: Related Article: Perry M. Scheetz, Sarah T. Chachula, Russell P. Hughes, David S. Glueck, Curtis E. Moore, Milan Gembicky, Arnold L. Rheingold|2020|Organometallics|39|3802|doi:10.1021/acs.organomet.0c00516
description: Related Article: Perry Scheetz, David Glueck, Curtis Moore, Arnold Rheingold|2018|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc1p502y
title: CCDC 1553939: Experimental Crystal Structure Determination

description: Related Article: Perry M. Scheetz, Sarah T. Chachula, Russell P. Hughes, David S. Glueck, Curtis E. Moore, Milan Gembicky, Arnold L. Rheingold|2020|Organometallics|39|3802|doi:10.1021/acs.organomet.0c00516
DOI: 10.5517/ccdc.csd.cc1p503z
title: CCDC 1553940: Experimental Crystal Structure Determination

description: Related Article: Perry M. Scheetz, Sarah T. Chachula, Russell P. Hughes, David S. Glueck, Curtis E. Moore, Milan Gembicky, Arnold L. Rheingold|2020|Organometallics|39|3802|doi:10.1021/acs.organomet.0c00516
DOI: 10.5517/ccdc.csd.cc23vbjv
title: CCDC 1961727: Experimental Crystal Structure Determination

description: Related Article: Lin-Lin Yang, A-Ling Tang, Pei-Yi Wang, Song Yang|2020|Org.Lett.|22|8234|doi:10.1021/acs.orglett.0c02814
DOI: 10.6084/m9.figshare.13135046
title: Metadata record for: Gen-FS coordinated proficiency test data for genomic foodborne pathogen surveillance, 2017 and 2018 exercises

description: This dataset contains key characteristics about the data described in the Data Descriptor Gen-FS coordinated proficiency test data for genomic foodborne pathogen surveillance, 2017 and 2018 exercises. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.13135046.v1
title: Metadata record for: Gen-FS coordinated proficiency test data for genomic foodborne pathogen surveillance, 2017 and 2018 exercises

description: This dataset contains key characteristics about the data described in the Data Descriptor Gen-FS coordinated proficiency test data for genomic foodborne pathogen surveillance, 2017 and 2018 exercises. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.15131/shef.data.13217636
title: Data Package for "Understanding surface modifications induced via Argon Plasma treatment through Secondary Electron Hyperspectral Imaging"

description: Data Package for "Understanding surface modifications induced via Argon Plasma treatment through Secondary Electron Hyperspectral Imaging" Adv Sci - 10.1002/advs.202003762. This data package includes all published results within the manuscript. Including, Secondary Electron Spectra (SES), Contact Angle, Cell Metabolic Assays and Nanoindentation. The author wishes to monitor data access. Please contact nfarr1@sheffield.ac.uk for access to datasets.
DOI: 10.15131/shef.data.13217636.v1
title: Data Package for "Understanding surface modifications induced via Argon Plasma treatment through Secondary Electron Hyperspectral Imaging"

description: Data Package for "Understanding surface modifications induced via Argon Plasma treatment through Secondary Electron Hyperspectral Imaging" Adv Sci - 10.1002/advs.202003762. This data package includes all published results within the manuscript. Including, Secondary Electron Spectra (SES), Contact Angle, Cell Metabolic Assays and Nanoindentation. The author wishes to monitor data access. Please contact nfarr1@sheffield.ac.uk for access to datasets.
DOI: 10.6084/m9.figshare.11590494
title: The deep terrestrial virosphere

description: Network analyses of all viral Äspö HRL contigs were conducted using<br> vConTACT2 (version 0.9.2 (Bolduc et al. 2017;<br> https://dx.doi.org/10.7717/peerj.3243)) within the Cyverse Discovery Environment, following procedures available at protocols.io (https://dx.doi.org/10.17504/protocols.io.wigfcbw,<br> https://dx.doi.org/10.17504/protocols.io.wijfccn). Here, the amino acid sequences of the predicted proteins were compared to isolated, genome-sequenced bacterial and archaeal viruses (NCBI Bacterial and Archaeal Viral RefSeq V85) using Diamond (Buchfink et al. 2015;<br> https://dx.doi.org/10.1038/nmeth.3176) with e-value cut-off of 0.001 and default vConTACT2 settings. To visualize the network, the produced c1.ntw file was imported into Cytoscape (v3.7.2 (Shannon 2003;<br> https://dx.doi.org/10.1101/gr.1239303)) following the procedure on protocols.io where column 1 was selected as Source Node, column 2 as Target Node, and column 3 as Edge Attribute and duplicate edges were removed. The Äspö HRL contig names in the Cytoscape file are defined as MM-171.3 = MM,<br> MM-415.2 = UM, and TM-448.2 = OS. Node sizes for Äspö HRL viral contigs are based on bp reads recruited divided by the contig size in kb and the metagenome size in Mb (smallest circle &lt;50, medium circle 50 – 100, and largest circle &gt;100 bp mapped/kb of contig/Mb of metagenome).<br> Black nodes represent isolated bacterial and archaeal viruses obtained from NCBI RefSeq.<br>Files can be opened with Cytoscape v. 3.x (https://cytoscape.org).<br>Fig. S2, MM-171.3_MM-415.2_TM-448.2_network.groundwater_detected.cys: Nodes coloured according to groundwater that the viral contigs were detected in.<br>Fig. S5, MMMM-171.3_MM-415.2_TM-448.2_network.groundwater_originated.cys: Nodes coloured according to groundwater that the viral contig originated from.<br>Fig. S6,MM-171.3_MM-415.2_TM-448.2_network.host_prediction.cys : Nodes coloured according to predicted microbial hosts based upon kmer analysis.<br>
DOI: 10.6084/m9.figshare.11590494.v2
title: The deep terrestrial virosphere

description: Network analyses of all viral Äspö HRL contigs were conducted using<br> vConTACT2 (version 0.9.2 (Bolduc et al. 2017;<br> https://dx.doi.org/10.7717/peerj.3243)) within the Cyverse Discovery Environment, following procedures available at protocols.io (https://dx.doi.org/10.17504/protocols.io.wigfcbw,<br> https://dx.doi.org/10.17504/protocols.io.wijfccn). Here, the amino acid sequences of the predicted proteins were compared to isolated, genome-sequenced bacterial and archaeal viruses (NCBI Bacterial and Archaeal Viral RefSeq V85) using Diamond (Buchfink et al. 2015;<br> https://dx.doi.org/10.1038/nmeth.3176) with e-value cut-off of 0.001 and default vConTACT2 settings. To visualize the network, the produced c1.ntw file was imported into Cytoscape (v3.7.2 (Shannon 2003;<br> https://dx.doi.org/10.1101/gr.1239303)) following the procedure on protocols.io where column 1 was selected as Source Node, column 2 as Target Node, and column 3 as Edge Attribute and duplicate edges were removed. The Äspö HRL contig names in the Cytoscape file are defined as MM-171.3 = MM,<br> MM-415.2 = UM, and TM-448.2 = OS. Node sizes for Äspö HRL viral contigs are based on bp reads recruited divided by the contig size in kb and the metagenome size in Mb (smallest circle &lt;50, medium circle 50 – 100, and largest circle &gt;100 bp mapped/kb of contig/Mb of metagenome).<br> Black nodes represent isolated bacterial and archaeal viruses obtained from NCBI RefSeq.<br>Files can be opened with Cytoscape v. 3.x (https://cytoscape.org).<br>Fig. S2, MM-171.3_MM-415.2_TM-448.2_network.groundwater_detected.cys: Nodes coloured according to groundwater that the viral contigs were detected in.<br>Fig. S5, MMMM-171.3_MM-415.2_TM-448.2_network.groundwater_originated.cys: Nodes coloured according to groundwater that the viral contig originated from.<br>Fig. S6,MM-171.3_MM-415.2_TM-448.2_network.host_prediction.cys : Nodes coloured according to predicted microbial hosts based upon kmer analysis.<br>
DOI: 10.6084/m9.figshare.11590494.v1
title: The deep terrestrial virosphere

description: Network analyses of all viral Äspö HRL contigs were conducted using<br> vConTACT2 (version 0.9.2 (Bolduc et al. 2017;<br> https://dx.doi.org/10.7717/peerj.3243)) within the Cyverse Discovery Environment, following procedures available at protocols.io (https://dx.doi.org/10.17504/protocols.io.wigfcbw,<br> https://dx.doi.org/10.17504/protocols.io.wijfccn). Here, the amino acid sequences of the predicted proteins were compared to isolated, genome-sequenced bacterial and archaeal viruses (NCBI Bacterial and Archaeal Viral RefSeq V85) using Diamond (Buchfink et al. 2015;<br> https://dx.doi.org/10.1038/nmeth.3176) with e-value cut-off of 0.001 and default vConTACT2 settings. To visualize the network, the produced c1.ntw file was imported into Cytoscape (v3.7.2 (Shannon 2003;<br> https://dx.doi.org/10.1101/gr.1239303)) following the procedure on protocols.io where column 1 was selected as Source Node, column 2 as Target Node, and column 3 as Edge Attribute and duplicate edges were removed. The Äspö HRL contig names in the Cytoscape file are defined as MM-171.3 = MM,<br> MM-415.2 = UM, and TM-448.2 = OS. Node sizes for Äspö HRL viral contigs are based on bp reads recruited divided by the contig size in kb and the metagenome size in Mb (smallest circle &lt;50, medium circle 50 – 100, and largest circle &gt;100 bp mapped/kb of contig/Mb of metagenome).<br> Black nodes represent isolated bacterial and archaeal viruses obtained from NCBI RefSeq.<br>Files can be opened with Cytoscape v. 3.x (https://cytoscape.org).<br>MM-171.3_MM-415.2_TM-448.2_network.S2.cys: Nodes coloured according to groundwater.<br>MM-171.3_MM-415.2_TM-448.2_network_with_host_prediction.S4.cys: Nodes coloured according to predicted microbial hosts based upon kmer analysis.<br>
DOI: 10.5519/qd.18ztbr60
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)