cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3777532
title: My old ESFFSE

description: <strong>PAPER ABSTRACT</strong> Software vulnerabilities have a large negative impact on the software systems that we depend on daily. Reports on software vulnerabilities always paint a grim picture, with some reports showing that 83% of organizations depend on vulnerable software. However, our experience leads us to believe that, in the grand scheme of things, these software vulnerabilities may have less impact than what is reported. Therefore, we perform a study to better understand the threat of npm vulnerable packages used in the Node.js applications. We define three threat levels for vulnerabilities in packages, based on their lifetime, where a package vulnerability is assigned a low threat level if it was hidden or still unknown at the time it was used in the dependent application (t), medium threat level if the vulnerability was reported but not yet published at t, and high if it was publicly announced at t. Then, we perform an empirical study involving 6,673 real-world, active, and mature open source Node.js applications. Our findings show that although 67.93% of the examined applications depend on at least one vulnerable package, 94.91% of the vulnerable packages in those affected applications are classified as having low threat. Moreover, we find that in the case of vulnerable packages classified as having high threat, it is the application's lack of updating that makes them vulnerable, i.e., it is not the existence of the vulnerability that is the real problem. Furthermore, we verify our findings at different stages of the application's lifetime and find that our findings still hold. Our study argues that when it comes to software vulnerabilities, things may not be as bad as they seem and that considering vulnerability threat is key. <strong>THE PUBLISHED DATASET CONTAINS THE FOLLOWING:</strong> The data of the studied Node.js applications. The data of the npm vulnerable packages (advisories). The data of version releases for the npm vulnerable packages. The scripts used for analyzing the data.
DOI: 10.5281/zenodo.3777752
title: Chap 1 - Appendix 1 - Tables

description: Supplementary Tables from Mayer et al. submitted "<strong>Adding to the Lepidoptera phylogeny: Capturing hundreds of nuclear genes from old museum specimens</strong>" (Chapter 1) <strong><em>Table S1.</em></strong> Sample information for the samples included in this study. The percentage of gaps and ambiguities are based on the filtered 1109 loci NT12 dataset. <strong><em>Table S2</em></strong>. Information on published transcriptome and genome data included in this study. <strong><em>Table S3.</em></strong> Accession numbers for COI sequences taken from Genbank. <strong><em>Table S4.</em></strong> Presence/Absence Matrix of taxa in the final alignments. Target-Enrichment taxa are highlighted in yellow. In the first column is the name of the alignment, which is composed of ‘EOG-number’.’Danaus gene name’_’Exon number’_’total number of exons per gene’_’Alignment software combination’. The columns are sorted by the total number of alignments per taxon and the rows are sorted by the total number of species.
DOI: 10.5281/zenodo.3777751
title: Chap 1 - Appendix 1 - Tables

description: Supplementary Tables from Mayer et al. submitted "<strong>Adding to the Lepidoptera phylogeny: Capturing hundreds of nuclear genes from old museum specimens</strong>" (Chapter 1) <strong><em>Table S1.</em></strong> Sample information for the samples included in this study. The percentage of gaps and ambiguities are based on the filtered 1109 loci NT12 dataset. <strong><em>Table S2</em></strong>. Information on published transcriptome and genome data included in this study. <strong><em>Table S3.</em></strong> Accession numbers for COI sequences taken from Genbank. <strong><em>Table S4.</em></strong> Presence/Absence Matrix of taxa in the final alignments. Target-Enrichment taxa are highlighted in yellow. In the first column is the name of the alignment, which is composed of ‘EOG-number’.’Danaus gene name’_’Exon number’_’total number of exons per gene’_’Alignment software combination’. The columns are sorted by the total number of alignments per taxon and the rows are sorted by the total number of species.
DOI: 10.15468/afrqy5
title: Review of the species of Aclees described by Kȏno (Coleoptera: Curculionidae: Molytinae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Meregalli, Massimo, Boriani, Marco, Bollino, Maurizio, Hsu, Chen-Fu (2020): Review of the species of Aclees described by Kȏno (Coleoptera: Curculionidae: Molytinae). Zootaxa 4768 (1): 146-150, DOI: 10.11646/zootaxa.4768.1.10
DOI: 10.15468/ch8enj
title: The parasitic barnacle Peltogaster reticulata Shiino, 1943 (Rhizocephala, Peltogastridae) fromRussian watersof the Sea of Japan: morphological description molecular identification and complete larval development

description: This dataset contains the digitized treatments in Plazi based on the original journal article Korn, Olga M., Golubinskaya, Darya D., Sharina, Svetlana N. (2020): The parasitic barnacle Peltogaster reticulata Shiino, 1943 (Rhizocephala, Peltogastridae) fromRussian watersof the Sea of Japan: morphological description molecular identification and complete larval development. Zootaxa 4768 (1): 6-24, DOI: 10.11646/zootaxa.4768.1.2
DOI: 10.5281/zenodo.3777756
title: An Analysis of the OASIS OSLC Integration Standard - A Survey

description: OASIS OSLC is a standard that targets the integration of engineering software applications. Its approach promotes loose coupling, in which each application autonomously manages its own product data, while providing RESTful web services through which other applications can interact. To achieve this, a review of the current state of the OASIS OSLC integration standard is provided in terms of its market penetration in commercial applications, its capabilities, and the architectural qualities of OSLC-based solutions. This review is based on a survey of commercial software applications that provide some support for OSLC capabilities.
DOI: 10.5281/zenodo.3777755
title: An Analysis of the OASIS OSLC Integration Standard - A Survey

description: OASIS OSLC is a standard that targets the integration of engineering software applications. Its approach promotes loose coupling, in which each application autonomously manages its own product data, while providing RESTful web services through which other applications can interact. To achieve this, a review of the current state of the OASIS OSLC integration standard is provided in terms of its market penetration in commercial applications, its capabilities, and the architectural qualities of OSLC-based solutions. This review is based on a survey of commercial software applications that provide some support for OSLC capabilities.
DOI: 10.15468/m5r84u
title: Description of three new water mite species of Hygrobates Koch, 1837 (Lurchibates Goldschmidt & Fu, 2011) (Acari, Hydrachnidia, Hygrobatidae), parasitic in newts of the genera Paramesotriton and Pachytriton (Amphibia, Caudata, Salamandridae) from China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Goldschmidt, Tom, Nishikawa, Kanto, Hiruta, Shimpei F., Shimano, Satoshi (2020): Description of three new water mite species of Hygrobates Koch, 1837 (Lurchibates Goldschmidt & Fu, 2011) (Acari, Hydrachnidia, Hygrobatidae), parasitic in newts of the genera Paramesotriton and Pachytriton (Amphibia, Caudata, Salamandridae) from China. Zootaxa 4768 (1): 25-42, DOI: 10.11646/zootaxa.4768.1.3
DOI: 10.15468/5cv4ej
title: Notes on slender species of the long-jawed spider genus Tetragnatha (Araneae Tetragnathidae) with description of three new species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Castanheira, Pedro De Souza, Baptista, Renner Luiz Cerqueira (2020): Notes on slender species of the long-jawed spider genus Tetragnatha (Araneae Tetragnathidae) with description of three new species. Zootaxa 4768 (1): 43-75, DOI: 10.11646/zootaxa.4768.1.4
DOI: 10.15468/rash3d
title: Chinese species of Nomia (Gnathonomia) Pauly, 2005 (Hymenoptera: Apoidea Halictidae: Nomiinae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Zhang, Dan, Niu, Ze-Qing, Orr, Michael C., Ascher, John S., Zhu, Chao-Dong (2020): Chinese species of Nomia (Gnathonomia) Pauly, 2005 (Hymenoptera: Apoidea Halictidae: Nomiinae). Zootaxa 4768 (1): 76-94, DOI: 10.11646/zootaxa.4768.1.5
DOI: 10.5281/zenodo.3777778
title: Multi-Electrode Array with a Planar Surface for Cell Patterning by Microprinting_experimental dataset

description: This file contains the raw unprocessed experimental data for the results published in Slavík et al., Multi-Electrode Array with a Planar Surface for Cell Patterning by Microprinting, Sensors 2019, 19(24), 5379.
description: The work was supported by the project CEITEC Nano Research Infrastructure (ID LM2015041, MEYS CR, 2016−2019) and SIX Research Center in the Czech Republic (the financial support of the grant LO1401 INWITE is gratefully acknowledged); CEITEC Nano RI, MEYS CR, 2016–2019. Horizon 2020 Research and Innovation Programme under the Grant Agreement No 81062.
DOI: 10.5281/zenodo.3777777
title: Multi-Electrode Array with a Planar Surface for Cell Patterning by Microprinting_experimental dataset

description: This file contains the raw unprocessed experimental data for the results published in Slavík et al., Multi-Electrode Array with a Planar Surface for Cell Patterning by Microprinting, Sensors 2019, 19(24), 5379.
description: The work was supported by the project CEITEC Nano Research Infrastructure (ID LM2015041, MEYS CR, 2016−2019) and SIX Research Center in the Czech Republic (the financial support of the grant LO1401 INWITE is gratefully acknowledged); CEITEC Nano RI, MEYS CR, 2016–2019. Horizon 2020 Research and Innovation Programme under the Grant Agreement No 81062.
DOI: 10.15468/7ex446
title: Four new genera of Schizopteridae (Hemiptera: Heteroptera) from theAfrotropical and Neotropical regions

description: This dataset contains the digitized treatments in Plazi based on the original journal article Weirauch, Christiane, Knyshov, Alexander, Hoey-Chamberlain, Rochelle (2020): Four new genera of Schizopteridae (Hemiptera: Heteroptera) from theAfrotropical and Neotropical regions. Zootaxa 4768 (1): 95-111, DOI: 10.11646/zootaxa.4768.1.6
DOI: 10.15468/svtns6
title: A new pit viper of the genus Trimeresurus (Lacépède, 1804) (Squamata: Viperidae) from Southwest China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Chen, Zening, Yu, Jianping, Vogel, Gernot, Shi, Shengchao, Song, Zhaobin, Tang, Yezhong, Yang, Jia, Ding, Li, Chen, Cangsong (2020): A new pit viper of the genus Trimeresurus (Lacépède, 1804) (Squamata: Viperidae) from Southwest China. Zootaxa 4768 (1): 112-128, DOI: 10.11646/zootaxa.4768.1.7
DOI: 10.15468/ke2puf
title: A new, peculiar genus of Cossoninae (Coleoptera, Curculionidae) from Oman with description of a new species, larva and notes on biology

description: This dataset contains the digitized treatments in Plazi based on the original journal article Hlaváč, Peter, Skuhrovec, Jiří, Pelikán, Jan (2020): A new, peculiar genus of Cossoninae (Coleoptera, Curculionidae) from Oman with description of a new species, larva and notes on biology. Zootaxa 4768 (1): 129-142, DOI: 10.11646/zootaxa.4768.1.8
DOI: 10.5281/zenodo.3777753
title: Nonylphenol in soil-celery system simulating long-term reclaimed water irrigation: occurrence, migration, and health risk assessment

description: The data uploaded were the biomass of celery tissues and the concentraion of nonylphenol in soil and celery tissues after harvest.
DOI: 10.5281/zenodo.3777754
title: Nonylphenol in soil-celery system simulating long-term reclaimed water irrigation: occurrence, migration, and health risk assessment

description: The data uploaded were the biomass of celery tissues and the concentraion of nonylphenol in soil and celery tissues after harvest.
DOI: 10.5281/zenodo.3777986
title: Using ontologies to extract disease--phenotype associations from literature

description: This dataset contains disease-phenotype associations. We developed and used a text-mining system which utilizes semantic relations in the phenotype ontologies and statistical methods to extract disease-phenotype associations from the literature.
DOI: 10.21227/80x0-yd54
title: Mask-RCNN detection of COVID-19 pneumonia symptoms by employing Stacked Autoencoders in deep unsupervised learning on Low-Dose High Resolution CT

description: This paper applies AI (artificial intelligence) technology to analyze low-dose HRCT (High-resolution chest radiography) data in an attempt to detect COVID-19 pneumonia symptoms. A new model structure is proposed with segmentation of anatomical structures on DNNs-based (deep learning neural network) methods, relying on an abundance of labeled data for proper training. The model improves the existing techniques used for low-dose HRCT image inspection through an application of Stacked Autoencoders (SAEs) structures using the segmentation function for the area object detection model on Mask-RCNN. As a result, the proposed approach can quickly analyze X-ray images in detecting abnormalities in patients with lab-confirmed coronavirus even before clinical symptoms appear. In addition to detecting early abnormalities, area object detection model reveals a finding not seen in the latest cases of COVID-19. Most noteworthy, the study has shown that all COVID-19 patients exhibit an associated bilateral pleural effusion. The features are augmented to the model for the improvement of detection quality improvement and the shorten of the examination period.
DOI: 10.18112/openneuro.ds002768.v1.0.0
title: Brain mechanisms underlying episodic future thinking of sustainable behaviors
DOI: 10.25405/data.ncl.12066114.v2
title: Grassmillees Land Register

description: The draft land register for the Grassmillees Small Landholding scheme.
DOI: 10.5519/qd.ep0x7n7z
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.15156/bio/sh120723.07fu
title: SH120723.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh120724.07fu
title: SH120724.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh120725.07fu
title: SH120725.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh120726.07fu
title: SH120726.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh120727.07fu
title: SH120727.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh120728.07fu
title: SH120728.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh120729.07fu
title: SH120729.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh120730.07fu
title: SH120730.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.