cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4624095
title: Data from: Politics overwhelms science in the Covid-19 pandemic: evidence from the whole coverage of the Italian quality newspapers

description: "SARS-CoV-2 general corpus" includes Italian newspaper articles published in the timespan between January 1, 2020 and June 15, 2020, containing at least one of the following terms: [covid, corona virus, OR coronavirus]. Sources: Corriere della Sera, La Repubblica, Il Sole – 24 Ore, La Stampa, Avvenire, Il Giornale, Il Mattino di Napoli, Il Messaggero.
DOI: 10.5523/bris.1557rzkyzst5b2jagjuz9li5er
title: Data from Rücklin et al. 2021. Acanthodian dental development and the origin of gnathostome dentitions. Nature Ecology & Evolution

description: This dataset contains three dimensional X-Ray tomographic datasets and computed tomographic models of fossilized jawbones from acanthondians (extinct stem-chondrichthyans) The data accompanies the following paper: Martin Rücklin, Benedict King, John A. Cunningham, Zerina Johanson, Federica Marone, Philip C. J. Donoghue. 2021. Acanthodian dental development and the origin of gnathostome dentitions. Nature Ecology & Evolution
DOI: 10.5281/zenodo.4551242
title: 2019 burned area map for Indonesia using Sentinel-2 data

description: The dataset '<em>2019_burnedarea_indonesia' </em>contains an Indonesia-wide map of burned areas for 2019 derived based on an analysis of time-series Sentinel-2 imagery at spatial resolution: 20 m x 20 m. The reference dataset '<em>Reference_dataset'</em> contains 1298 randomly-distributed reference sites used to validate the burned area dataset (SENTINEL) and two other burned area products: 1) the 2019 Landsat-8 Official estimate from the Indonesian Ministry of Environment and Forestry, and 2) the 2019 MODIS burned area product (MCD64A1). Each reference site includes attribute ‘REFERENCE’ to describe the values obtained by visual interpretation: either ‘NO’ unburned or ‘YES’ burned. Each reference point has three attributes: ‘C_SENTINEL’, ‘C_OFFICIAL’ and ‘C_MCD64A1’ to describe the values of the classification of each burned area product: either ‘NO’ unburned or ‘YES’ burned. Finally, each reference point has three additional attributes: ‘SENTINEL’, ‘OFFICIAL’, and MCD64A1’ to describe which burned area product this reference point validates. The values are either 0: not validate or 1: validate.
DOI: 10.6084/m9.figshare.13503081
title: 41 Genomic islands that are identified from genomes of Salmonella HC20_373

description: Pan-genome construction. A pan-genome of genes of over 300 bp in length was calculated s from all HC20_373 genomes using PEPPAN [39] with the parameters ‘—min_cds 300’. Genes of &lt;300 bp were excluded because they are particular prone to assembly errors. Compatibility of the pan-genome with the reference sequences in the Salmonella whole genome MLST scheme was ensured by also specifying the ‘-g’ parameter. The resulting pan genome contains 4627 orthologous groups, of which 4351 were already present in the wgMLST scheme and 276 were novel. One continuous segment of DNA encoding 19 genes in SAL_HC8788AA_AS was scored as contaminating DNA because it was almost identical to a sequence from Veillonella parvula, as was a second segment of 5 genes carried by 23 genomes which was identical to sequences in PhiX prophage (Table S4B). These two segments were excluded from further analysis. The final pan-genome consists of 4603 genes (Table S4A).<br>Assignments of genes to genomic islands. We reconstructed the presence or absence of all genes in the pan genome for each internal node of a core genome maximum-likelihood phylogeny that had been constructed with TreeTime [40]. The most recent common ancestor (MRCA) of HC20_373 contained 4107 genes which were interpreted as “ancestral”. Deletions of at least five continuous genes in any internal node were scored as large deletions of genomic islands. 496 genes were acquired at internal nodes, and these assigned as the acquisition of genomic islands as previously described [41]. In brief, a directed graph of all orthologous genes was drawn for pairs of orthologous genes that were co-located on a single contig or on pairs of contigs that were linked by read-pairs that straddled both of them. The most likely gene order of the pan genome was identified with Concorde [42] as consisting of the shortest possible path that visited all the genes in the graph, and subsequently manually revised to break and re-join links to duplicated genes and collapsed repeats. All genomic islands are listed in Supplementary Table S4D, summarized in Supplementary Table S5, and illustrated in Supplementary Figure S1.
DOI: 10.6084/m9.figshare.13503081.v1
title: 41 Genomic islands that are identified from genomes of Salmonella HC20_373

description: Pan-genome construction. A pan-genome of genes of over 300 bp in length was calculated s from all HC20_373 genomes using PEPPAN [39] with the parameters ‘—min_cds 300’. Genes of &lt;300 bp were excluded because they are particular prone to assembly errors. Compatibility of the pan-genome with the reference sequences in the Salmonella whole genome MLST scheme was ensured by also specifying the ‘-g’ parameter. The resulting pan genome contains 4627 orthologous groups, of which 4351 were already present in the wgMLST scheme and 276 were novel. One continuous segment of DNA encoding 19 genes in SAL_HC8788AA_AS was scored as contaminating DNA because it was almost identical to a sequence from Veillonella parvula, as was a second segment of 5 genes carried by 23 genomes which was identical to sequences in PhiX prophage (Table S4B). These two segments were excluded from further analysis. The final pan-genome consists of 4603 genes (Table S4A).<br>Assignments of genes to genomic islands. We reconstructed the presence or absence of all genes in the pan genome for each internal node of a core genome maximum-likelihood phylogeny that had been constructed with TreeTime [40]. The most recent common ancestor (MRCA) of HC20_373 contained 4107 genes which were interpreted as “ancestral”. Deletions of at least five continuous genes in any internal node were scored as large deletions of genomic islands. 496 genes were acquired at internal nodes, and these assigned as the acquisition of genomic islands as previously described [41]. In brief, a directed graph of all orthologous genes was drawn for pairs of orthologous genes that were co-located on a single contig or on pairs of contigs that were linked by read-pairs that straddled both of them. The most likely gene order of the pan genome was identified with Concorde [42] as consisting of the shortest possible path that visited all the genes in the graph, and subsequently manually revised to break and re-join links to duplicated genes and collapsed repeats. All genomic islands are listed in Supplementary Table S4D, summarized in Supplementary Table S5, and illustrated in Supplementary Figure S1.
DOI: 10.5517/ccdc.csd.cc2505x9
title: CCDC 1996180: Experimental Crystal Structure Determination

description: Related Article: Zhidao Huang, Yulei Wang, Xuebing Leng, Zheng Huang|2021|J.Am.Chem.Soc.|143|4824|doi:10.1021/jacs.1c01472
DOI: 10.5517/ccdc.csd.cc2506xb
title: CCDC 1996211: Experimental Crystal Structure Determination

description: Related Article: Zhidao Huang, Yulei Wang, Xuebing Leng, Zheng Huang|2021|J.Am.Chem.Soc.|143|4824|doi:10.1021/jacs.1c01472
DOI: 10.5517/ccdc.csd.cc2507l1
title: CCDC 1996232: Experimental Crystal Structure Determination

description: Related Article: Zhidao Huang, Yulei Wang, Xuebing Leng, Zheng Huang|2021|J.Am.Chem.Soc.|143|4824|doi:10.1021/jacs.1c01472
DOI: 10.5517/ccdc.csd.cc25xrql
title: CCDC 2023640: Experimental Crystal Structure Determination

description: Related Article: Chun-Mei Chen, Wei-Hao Chen, Xiao-Yan Pang, Sheng-Rong Liao, Jun-Feng Wang, Xiu-Ping Lin, Bin Yang, Xue-Feng Zhou, Xiao-Wei Luo, Yong-Hong Liu|2021|Phytochemistry|186|112730|doi:10.1016/j.phytochem.2021.112730
DOI: 10.5517/ccdc.csd.cc25xrsn
title: CCDC 2023642: Experimental Crystal Structure Determination

description: Related Article: Chun-Mei Chen, Wei-Hao Chen, Xiao-Yan Pang, Sheng-Rong Liao, Jun-Feng Wang, Xiu-Ping Lin, Bin Yang, Xue-Feng Zhou, Xiao-Wei Luo, Yong-Hong Liu|2021|Phytochemistry|186|112730|doi:10.1016/j.phytochem.2021.112730
DOI: 10.5517/ccdc.csd.cc25xrtp
title: CCDC 2023643: Experimental Crystal Structure Determination

description: Related Article: Chun-Mei Chen, Wei-Hao Chen, Xiao-Yan Pang, Sheng-Rong Liao, Jun-Feng Wang, Xiu-Ping Lin, Bin Yang, Xue-Feng Zhou, Xiao-Wei Luo, Yong-Hong Liu|2021|Phytochemistry|186|112730|doi:10.1016/j.phytochem.2021.112730
DOI: 10.5517/ccdc.csd.cc25xrvq
title: CCDC 2023644: Experimental Crystal Structure Determination

description: Related Article: Chun-Mei Chen, Wei-Hao Chen, Xiao-Yan Pang, Sheng-Rong Liao, Jun-Feng Wang, Xiu-Ping Lin, Bin Yang, Xue-Feng Zhou, Xiao-Wei Luo, Yong-Hong Liu|2021|Phytochemistry|186|112730|doi:10.1016/j.phytochem.2021.112730
DOI: 10.5517/ccdc.csd.cc25xrwr
title: CCDC 2023645: Experimental Crystal Structure Determination

description: Related Article: Chun-Mei Chen, Wei-Hao Chen, Xiao-Yan Pang, Sheng-Rong Liao, Jun-Feng Wang, Xiu-Ping Lin, Bin Yang, Xue-Feng Zhou, Xiao-Wei Luo, Yong-Hong Liu|2021|Phytochemistry|186|112730|doi:10.1016/j.phytochem.2021.112730
DOI: 10.5517/ccdc.csd.cc269cnk
title: CCDC 2034798: Experimental Crystal Structure Determination

description: Related Article: Poh Wei Cheah, Mok Piew Heng, Hazwani Mat Saad, Kae Shin Sim, Kong Wai Tan|2021|Opt.Mater.|114|110990|doi:10.1016/j.optmat.2021.110990
DOI: 10.5517/ccdc.csd.cc265v9k
title: CCDC 2031408: Experimental Crystal Structure Determination

description: Related Article: Kang Wang, Xiao-Li Hu, Xiao Li, Zhong-Min Su, En-Long Zhou|2021|J.Solid State Chem.|298|122128|doi:10.1016/j.jssc.2021.122128
DOI: 10.5517/ccdc.csd.cc265vbl
title: CCDC 2031409: Experimental Crystal Structure Determination

description: Related Article: Kang Wang, Xiao-Li Hu, Xiao Li, Zhong-Min Su, En-Long Zhou|2021|J.Solid State Chem.|298|122128|doi:10.1016/j.jssc.2021.122128
DOI: 10.5281/zenodo.4652015
title: AR-Onto-Covid -- Supporting Material

description: This data set contains three BERT-based models, data necessary for Natural Language Processing in the bio-medical domain based on CORD19 data, also contains patent data relevant to the bio-medical domain. With this data models can extract ontological relations from a data set.
DOI: 10.5281/zenodo.4652014
title: AR-Onto-Covid -- Supporting Material

description: This data set contains three BERT-based models, data necessary for Natural Language Processing in the bio-medical domain based on CORD19 data, also contains patent data relevant to the bio-medical domain. With this data models can extract ontological relations from a data set.
DOI: 10.6084/m9.figshare.5540359.v4
title: National Gallery (London), Exhibitions, 1999 to 2019

description: This dataset temporary exhibitions hosted at the National Gallery, London from 1999 to 31st March 2019<br>It includes details of artistic period, space, sponsors, visitor numbers, dates and other information taken from the National Gallery website and published reports.<br>Full documentation is available in the accompanying pdf file.
DOI: 10.5281/zenodo.4655473
title: oxDNA simulation setup files

description: The package includes information to model thermodynamics, kinetic and mechanical properties of DNA with the oxDNA package.<br>
DOI: 10.5281/zenodo.4655940
title: Molecular model of the mouse TMEM16A in its open-state

description: Molecular Model of mTMEM16A based primarily on PDB ID 5OYB, with the fourth transmembrane helix based on TMEM16K (PDB ID: 5OC9). Model created using a combination of Modeller and Swiss-Model.
DOI: 10.5281/zenodo.4654057
title: Molecular model of the mouse TMEM16A in its open-state

description: Molecular Model of mTMEM16A based primarily on PDB ID 5OYB, with the fourth transmembrane helix based on TMEM16K (PDB ID: 5OC9). Model created using a combination of Modeller and Swiss-Model.
DOI: 10.34808/85eg-eq08
title: Data from terrestrial laser scanning: The Forge in the district of Gdańsk Orunia

description: Within the frames of the use of terrestrial laser scanning we find numerous examples of registration of building facilities, including also historical and valuable in their culture. Data were acquired using a Leica Geosystems C10 laser scanner. Data embrace blacksmith forges a historic building located in Gdańsk Orunia, 10 Goscinna Street. Scanning date: before rebuild, December 2011.
The facility dating from the early nineteenth century was intended to repair involving the complete demolition and rebuilt in the historical form but with the use of new materials. Only selected elements were to be retained, creating a kind of architectural artefacts and handicrafts. Implementation of the laser scanning was carried out in a conventional manner, though in difficult field conditions. The obtained data have become good material to carry out analyses concerning construction and surveying.
DOI: 10.25375/uct.14297708
title: Clinically contextualised ECG interpretation

description: <b>Background</b>: ECGs are often taught without clinical context. However, in the clinical setting, ECGs are rarely interpreted without knowing the clinical presentation. <b>Methods</b>: We aimed to determine whether ECG diagnostic accuracy was influenced by knowledge of the clinical context and/or prior clinical exposure to the ECG diagnosis. Fourth- (junior) and sixth-year (senior) medical students as well as medical residents were invited to complete two multiple-choice question (MCQ) tests and a survey on the same day. Test 1 comprised 25 ECGs without case vignettes. Test 2, completed immediately after Test 1, comprised the same 25 ECGs and MCQs, but with case vignettes for each ECG. Subsequently, participants indicated in the survey when last, during prior clinical clerkships, they have seen each of the 25 conditions tested in Test 1 and 2. <b>Results</b>: This study comprised 176 participants, of which 67 (38.1%) were junior students, 55 (31.3%) were senior students and 54 (30.7%) were medical residents. Prior ECG exposure depended on their level of training, i.e., junior students were exposed to 52% of the conditions tested, senior students 63.4% and residents 96.9%. Overall, all groups showed a marginal improvement in accuracy of ECG interpretation when the clinical context was known to them (Cohen’s <i>d</i>=0.35, <i>p</i>&lt;0.001). The gains in accuracy were more pronounced amongst residents (Cohen’s <i>d</i>=0.59, <i>p</i>&lt;0.001), than amongst senior (Cohen’s <i>d</i>=0.38, <i>p</i>&lt;0.001) or junior students (Cohen’s <i>d</i>=0.29, <i>p</i>&lt;0.001). All participants were more likely to make a correct ECG diagnosis if they reported having seen the condition during prior clinical training, whether they were provided with a case vignette (odds ratio [OR] 1.46, 95% confidence interval [CI] 1.24–1.71) or not (OR 1.58, 95% CI 1.35–1.84). <b>Conclusion</b>: ECG interpretation using clinical vignettes devoid of real patient experiences does not appear to have as great an impact on ECG diagnostic accuracy as prior exposure during clinical training. However, exposure to ECGs during clinical training is largely opportunistic and haphazard. ECG training should therefore not rely on experiential learning alone for teaching electrocardiography, but instead be supplemented by other formal methods of instruction.
DOI: 10.15161/oar.it/73620
title: CovidStat project data

description: This record contains the daily updated data of the CovidStat project. CovidStat is a project carried out by the CovidStat Working Group at INFN, whose creation was promoted within the Italian National Institute of Nuclear Physics with the aim of making a statistical analysis of the data provided daily by the Civil Protection on the spread of the pandemic in Italy. CovidStat data can interactively be browsed at https://covid19.infn.it.
description: The software to process this Root TTree is in the related identifier. Be sure to use the right corresponding version, based on the data in which Root TTree was generated.
DOI: 10.5281/zenodo.4655962
title: Azotea Dataset

description: Latest monthly AZOTEA reduced CSV files
DOI: 10.5281/zenodo.4655959
title: Whole-genome analyses of 286 Magnaporthe oryzae genomes suggest that an independent introduction of a global pandemic lineage is at the origin of the Zambia wheat blast outbreak

description: The emergence of agricultural pests is a severe threat to global food security. The recent wheat blast outbreak in Bangladesh had devastating consequences for the country. More recently, a wheat blast outbreak in Zambia was assigned to the same tight group of genotypes originally introduced from South America into Bangladesh. Here, I analyzed publicly available whole-genome sequencing datasets shared by the OpenWheatBlast initiative. The aim is to contrast the Zambian outbreak strains with genome-wide differentiation of <em>Magnaporte oryzae </em>infecting different hosts. The genome-wide SNP analyses show that the Zambian outbreak strains are indeed highly similar to the strains responsible for the outbreak in Bangladesh as recently reported. The genomic data suggest that the Zambian outbreak may have originated from South America rather than a secondary introduction from the South Asian gene pool. The genome analyses confirm that wheat blast has emerged in recent years as a pandemic lineage across three continents. I provide the analyses as an open science contribution to the OpenWheatBlast initiative.
description: This new version includes a table summarizing all NCBI SRA accession numbers.
DOI: 10.5281/zenodo.4650214
title: Whole-genome analyses of 286 Magnaporthe oryzae genomes suggest that an independent introduction of a global pandemic lineage is at the origin of the Zambia wheat blast outbreak

description: The emergence of agricultural pests is a severe threat to global food security. The recent wheat blast outbreak in Bangladesh had devastating consequences for the country. More recently, a wheat blast outbreak in Zambia was assigned to the same tight group of genotypes originally introduced from South America into Bangladesh. Here, I analyzed publicly available whole-genome sequencing datasets shared by the OpenWheatBlast initiative. The aim is to contrast the Zambian outbreak strains with genome-wide differentiation of <em>Magnaporte oryzae </em>infecting different hosts. The genome-wide SNP analyses show that the Zambian outbreak strains are indeed highly similar to the strains responsible for the outbreak in Bangladesh as recently reported. The genomic data suggest that the Zambian outbreak may have originated from South America rather than a secondary introduction from the South Asian gene pool. The genome analyses confirm that wheat blast has emerged in recent years as a pandemic lineage across three continents. I provide the analyses as an open science contribution to the OpenWheatBlast initiative.
description: This new version includes a table summarizing all NCBI SRA accession numbers.
DOI: 10.5281/zenodo.4655998
title: SciExpeM - 10.5281/zenodo.4655998

description: Mati, K., Ristori, A., Pengloan, G., & Dagaut, P. (2007). Oxidation of 1-methylnaphthalene at 1–13 atm: experimental study in a JSR and detailed chemical kinetic modeling. Combustion science and technology, 179(7), 1261-1285.
DOI: 10.5281/zenodo.4655997
title: SciExpeM - 10.5281/zenodo.4655998

description: Mati, K., Ristori, A., Pengloan, G., & Dagaut, P. (2007). Oxidation of 1-methylnaphthalene at 1–13 atm: experimental study in a JSR and detailed chemical kinetic modeling. Combustion science and technology, 179(7), 1261-1285.
DOI: 10.5281/zenodo.4655996
title: Dataset related to article "Cluster headache not responsive to sumatriptan: A retrospective study "

description: Anonymized raw data from clinical records of 206 cluster headache patients who had tried Subcutaneous sumatriptan: age at last observation,sex, age at onset, disease duration, episodic or chronic CH form, site of pain and in particular whether restricted to trigeminal territories or not, average duration of untreated attacks, average attack frequency, presence of autonomic phenomena, presence of restlessness or agitation, headache side, side shift.
description: STUDY SUPPORTED BY ITALIAN MINISTRY OF HEALTH - RF-2016-02364909
DOI: 10.5281/zenodo.4655995
title: Dataset related to article "Cluster headache not responsive to sumatriptan: A retrospective study "

description: Anonymized raw data from clinical records of 206 cluster headache patients who had tried Subcutaneous sumatriptan: age at last observation,sex, age at onset, disease duration, episodic or chronic CH form, site of pain and in particular whether restricted to trigeminal territories or not, average duration of untreated attacks, average attack frequency, presence of autonomic phenomena, presence of restlessness or agitation, headache side, side shift.
description: STUDY SUPPORTED BY ITALIAN MINISTRY OF HEALTH - RF-2016-02364909
DOI: 10.5525/gla.researchdata.1131
title: Handgrip strength as a surrogate marker of lean mass and risk of malnutrition in paediatric patients
DOI: 10.6084/m9.figshare.14352842.v1
title: Buyers, Maybe Moving Second Is Not that Bad After All: Low-power, Anxiety, and the Disadvantage of First Offers

description: Raw data for study titled: <br>"Buyers, Maybe Moving Second Is Not that Bad After All: Low-power, Anxiety, and the Disadvantage of First Offers"<br>
DOI: 10.6084/m9.figshare.14352842
title: Buyers, Maybe Moving Second Is Not that Bad After All: Low-power, Anxiety, and the Disadvantage of First Offers

description: Raw data for study titled: <br>"Buyers, Maybe Moving Second Is Not that Bad After All: Low-power, Anxiety, and the Disadvantage of First Offers"<br>
DOI: 10.34894/gzsbvp
title: Dynamin controls neuropeptide secretion by organizing dense-core vesicle fusion sites.

description: Synaptic vesicles (SVs) release neurotransmitters at specialized active zones, but release sites and organizing principles for the other major secretory pathway, neuropeptide/neuromodulator release from dense-core vesicles (DCVs), remain elusive. Here, we identify dynamins, yeast Vps1 orthologs, as important DCV fusion site organizers in mammalian CNS neurons. Genetic or pharmacological inactivation of all three dynamins strongly impaired DCV exocytosis, while SV exocytosis remained unaffected. Wildtype dynamin restored normal exocytosis, but not GTPase-deficient or membrane-binding mutants that cause neurodevelopmental syndromes. During prolonged stimulation, repeated use of the same DCV fusion location was impaired in dynamin 1-3 triple knockout neurons. The syntaxin-1 staining efficiency, but not its expression level, was reduced. αSNAP expression restored this. We conclude that mammalian dynamins organize DCV fusion sites, downstream of αSNAP-mediated cis-SNARE disassembly, by regulating the equilibrium between fusogenic and non-fusogenic syntaxin-1 and promoting its availability to form trans-SNARE complexes that drive DCV exocytosis.
DOI: 10.5281/zenodo.4656009
title: COVID-19 Deaths Dataset

description: This dataset contains 266 daily time series that represent the COVID-19 deaths in a set of countries and states from 22/01/2020 to 20/08/2020. It was extracted from the Johns Hopkins repository.
description: {"references": ["COVID-19 Data Repository by the Center for Systems Science and Engineering (CSSE) at Johns Hopkins University. URL https://github.com/CSSEGISandData/COVID-19", "Dong, E., Du., H., Gardner, L., 2020. An interactive web-based dashboard to track COVID-19 in real time. Lancet Inf Dis. 20(5):533-534. doi: 10.1016/S1473-3099(20)30120-1"]}