cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7964615.v1
title: Hydrothermal temperatures in Germany

description: File contains achievable hydrothermal temperatures in Germany in 8.5 km² resolution
DOI: 10.6084/m9.figshare.7964603
title: Amplitude cancellation influences the association between frequency components in the neural drive to muscle and the rectified EMG signal

description: Simulated data (Matlab) for the study, Dideriksen & Farina 2019 "Amplitude cancellation influences the association between frequency components in the neural drive to muscle and the rectified EMG signal" Plos Computational Biology
DOI: 10.6084/m9.figshare.7964588
title: Comprehensive proteomic analysis of exoproteins expressed by ERIC I, II, III and IV <i>Paenibacillus larvae</i> genotypes reveals a wide range of virulence factors

description: American foulbrood is a quarantine disease of the honeybee <i>Apis mellifera</i> L. in many countries and contributes greatly to colony losses. We performed a label-free proteomics study of exoprotein fractions produced <i>in vitro</i> by <i>Paenibacillus larvae</i> reference strains of the ERIC I–IV genotypes. A quantitative comparison was performed of previous studied protein-based virulence factors and many newly identified putative virulence factors. Among the multiple proteases identified, key virulence factors included the microbial collagenase ColA and immune inhibitor A (InhA, an analog of the <i>Bacillus thuringiensis</i> protein InhA). Both of these virulence factors were detected in ERICs II–IV but were absent from ERIC I. Furthermore, the different S-layer proteins and polysaccharide deacetylases prevailed in ERICs II–IV. Thus, the expression patterns of these virulence factors corresponded with the different speeds at which honeybee larvae are known to be killed by ERICs II–IV compared to ERIC I. In addition, putative novel toxin-like proteins were identified, including vegetative insecticidal protein Vip1, a mosquitocidal toxin, and epsilon-toxin type B, which exhibit similarity to homologs present in <i>Bacillus thuringiensis</i> or <i>Lysinibacillus sphaericus</i>. Furthermore, a putative bacteriocin similar to Lactococcin 972 was identified in all assayed genotypes. It appears that <i>P. larvae</i> shares virulence factors similar to those of the <i>Bacillus cereus</i> group. Overall, the results provide novel information regarding <i>P. larvae</i> virulence potential, and a comprehensive exoprotein comparison of all four ERICs was performed for the first time. The identification of novel virulence factors can explain differences in the virulence of isolates.
DOI: 10.6084/m9.figshare.7964609.v1
title: German Municipality Data

description: This Data includes a compilation of 40 indicators for all 11,131 German municipalities. In addition to census data such as population density, mobility data such as the number of vehicles and data on the potential of renewable energies such as wind energy potential are included. Apart from the self-assessed data, most of the data set contains public data, the allocation of which to municipalities is very time consuming.
DOI: 10.6084/m9.figshare.7964588.v1
title: Comprehensive proteomic analysis of exoproteins expressed by ERIC I, II, III and IV <i>Paenibacillus larvae</i> genotypes reveals a wide range of virulence factors

description: American foulbrood is a quarantine disease of the honeybee <i>Apis mellifera</i> L. in many countries and contributes greatly to colony losses. We performed a label-free proteomics study of exoprotein fractions produced <i>in vitro</i> by <i>Paenibacillus larvae</i> reference strains of the ERIC I–IV genotypes. A quantitative comparison was performed of previous studied protein-based virulence factors and many newly identified putative virulence factors. Among the multiple proteases identified, key virulence factors included the microbial collagenase ColA and immune inhibitor A (InhA, an analog of the <i>Bacillus thuringiensis</i> protein InhA). Both of these virulence factors were detected in ERICs II–IV but were absent from ERIC I. Furthermore, the different S-layer proteins and polysaccharide deacetylases prevailed in ERICs II–IV. Thus, the expression patterns of these virulence factors corresponded with the different speeds at which honeybee larvae are known to be killed by ERICs II–IV compared to ERIC I. In addition, putative novel toxin-like proteins were identified, including vegetative insecticidal protein Vip1, a mosquitocidal toxin, and epsilon-toxin type B, which exhibit similarity to homologs present in <i>Bacillus thuringiensis</i> or <i>Lysinibacillus sphaericus</i>. Furthermore, a putative bacteriocin similar to Lactococcin 972 was identified in all assayed genotypes. It appears that <i>P. larvae</i> shares virulence factors similar to those of the <i>Bacillus cereus</i> group. Overall, the results provide novel information regarding <i>P. larvae</i> virulence potential, and a comprehensive exoprotein comparison of all four ERICs was performed for the first time. The identification of novel virulence factors can explain differences in the virulence of isolates.
DOI: 10.6084/m9.figshare.7964582
title: Can we improve the non-intrusive characterization of high-velocity air–water flows? Application of LIDAR technology to stepped spillways

description: The characterization of high-velocity air–water flows is crucial for the design of hydraulic structures including stepped spillways. Recent experimental advances have shown that LIDAR technology can provide free-surface features in fully aerated flows at high spatial and temporal resolution. This manuscript presents the application of LIDAR to the aerated flows down a laboratory stepped spillway. While the LIDAR was not applicable in the clear water flow and the rapidly varied flow region, the results provided the most detailed spatial description of air–water surface features within the fully aerated flow towards the downstream end of the spillway. Good agreement was observed with characteristic air–water flow elevations and internal flow parameters. Integral time scales were obtained by means of correlation analyses and compared favourably with previous measurements. The present study highlighted the suitability of LIDAR in high-velocity air–water flows and the potential for future applications to hydraulic phenomena at prototype scale.
DOI: 10.6084/m9.figshare.7964582.v1
title: Can we improve the non-intrusive characterization of high-velocity air–water flows? Application of LIDAR technology to stepped spillways

description: The characterization of high-velocity air–water flows is crucial for the design of hydraulic structures including stepped spillways. Recent experimental advances have shown that LIDAR technology can provide free-surface features in fully aerated flows at high spatial and temporal resolution. This manuscript presents the application of LIDAR to the aerated flows down a laboratory stepped spillway. While the LIDAR was not applicable in the clear water flow and the rapidly varied flow region, the results provided the most detailed spatial description of air–water surface features within the fully aerated flow towards the downstream end of the spillway. Good agreement was observed with characteristic air–water flow elevations and internal flow parameters. Integral time scales were obtained by means of correlation analyses and compared favourably with previous measurements. The present study highlighted the suitability of LIDAR in high-velocity air–water flows and the potential for future applications to hydraulic phenomena at prototype scale.
DOI: 10.6084/m9.figshare.7964609.v2
title: German Municipality Data

description: This Data includes a compilation of 40 indicators for all 11,131 German municipalities. In addition to census data such as population density, mobility data such as the number of vehicles and data on the potential of renewable energies such as wind energy potential are included. Apart from the self-assessed data, most of the data set contains public data, the allocation of which to municipalities is very time consuming.<br>Another file contains achievable hydrothermal temperatures in Germany in 8.5 km² resolution<br>
DOI: 10.6084/m9.figshare.7964609.v3
title: Spatially high-resolution socio-energetic data for municipal energy system analyses

description: This Data includes a compilation of 40 indicators for all 11,131 German municipalities. In addition to census data such as population density, mobility data such as the number of vehicles and data on the potential of renewable energies such as wind energy potential are included. Apart from the self-assessed data, most of the data set contains public data, the allocation of which to municipalities is very time consuming.<br>Another file contains achievable hydrothermal temperatures in Germany in 8.5 km² resolution<br>
DOI: 10.6084/m9.figshare.7964540
title: FBI Experiments 1 and 2 raw data

description: <b>Experiment 1 and Experiment 2 Raw Data in Excel</b><br><br><b>Taken from:</b>Deakin, AG, Buckley, J, AlZu'bi, HS, Cossins, AR, Spencer, JW, Al'Nuaimy, W, Young, IS, Thomson, JS & Sneddon, LU. 2019. Automated monitoring of behaviour in zebrafish after invasive procedures.<i> Scientific Reports DOI:10.1038/s41598-019-45464-w</i><br>
DOI: 10.6084/m9.figshare.7964609.v4
title: Spatial high-resolution socio-energetic data for municipal energy system analyses

description: This Data includes a compilation of 40 indicators for all 11,131 German municipalities. In addition to census data such as population density, mobility data such as the number of vehicles and data on the potential of renewable energies such as wind energy potential are included. Apart from the self-assessed data, most of the data set contains public data, the allocation of which to municipalities is very time consuming.<br>Another file contains achievable hydrothermal temperatures in Germany in 8.5 km² resolution<br>
DOI: 10.6084/m9.figshare.7964558.v1
title: Semantic Hadith RDF

description: The Semantic Hadith Ontology is designed with the goal to describe and relate core concepts from Hadith. It's an effort towards making the available knowledge, both human and machine readable. <br>This ontology can be used to express notions such as the participation of particular people in the events mentioned in a Hadith in addition to the core structure of Hadith. It can potentially be used as a vocabulary to annotate the different Islamic resources to allow semantic search supporting scholars or students in creating, evolving and consulting a digital representation of Islamic Knowledge.
DOI: 10.1285/i22390359v36p233
title: The practice and the training of text simplification in Italy

description: This paper reports on a subset of survey data to illustrate the status, the educational and the professional background of the Italian experts in the production of Easy-to-Understand (E2U) content. It opens with a definition of E2U in relation to the established terms Easy-to-Read Language and Plain Language, which are discussed and exemplified through examples in English, and it illustrates the European project EASIT on the implementation of E2U in the audiovisual context. After that, the paper focuses on the Italian situation regarding E2U training and practice as emerged from the answers to a survey of 19 experts. Results show that the Italian situation does not differ substantially from the general European situation as far as the (solid and varied) educational and professional background of the experts is concerned, as well as the still scant training opportunities that are offered and the limited involvement of academia in training. On the other hand, some specificities of the Italian situation do emerge, such as the dominance of theory over practice both in training and on the job, and an unbalanced implementation of E2U content which abounds in the area of education and overlooks other crucial areas of communication. The results of the Italian survey point to the need for more consistent and systematic training as well as to the need for more awareness-rising as far as communicative integration and inclusion through content simplification are concerned.
DOI: 10.6084/m9.figshare.7964540.v1
title: FBI Experiments 1 and 2 raw data

description: <b>Experiment 1 and Experiment 2 Raw Data in Excel</b><br><br><b>Taken from:</b>Deakin, AG, Buckley, J, AlZu'bi, HS, Cossins, AR, Spencer, JW, Al'Nuaimy, W, Young, IS, Thomson, JS & Sneddon, LU. 2019. Automated monitoring of behaviour in zebrafish after invasive procedures.<i> Scientific Reports DOI:10.1038/s41598-019-45464-w</i><br>
DOI: 10.6084/m9.figshare.7964558.v2
title: Semantic Hadith RDF

description: The Semantic Hadith Ontology is designed with the goal to describe and relate core concepts from Hadith. It's an effort towards making the available knowledge, both human and machine readable. <br>This ontology can be used to express notions such as the participation of particular people in the events mentioned in a Hadith in addition to the core structure of Hadith. It can potentially be used as a vocabulary to annotate the different Islamic resources to allow semantic search supporting scholars or students in creating, evolving and consulting a digital representation of Islamic Knowledge.
DOI: 10.6084/m9.figshare.7964483
title: Biology-Computational (Biokomputasi)

description: This course dominated by the techniques that commonly used by a Biologist particularly in research data management and analysis, such as statistical, Geo-spatial, Biology field methods, Image-analysis, Molecular data harvesting, data capture, data cleaning and data publishing on Biodiversity. <br>
DOI: 10.6084/m9.figshare.7964483.v1
title: Biology-Computational (Biokomputasi)

description: This course dominated by the techniques that commonly used by a Biologist particularly in research data management and analysis, such as statistical, Geo-spatial, Biology field methods, Image-analysis, Molecular data harvesting, data capture, data cleaning and data publishing on Biodiversity. <br>
DOI: 10.6084/m9.figshare.12877144.v3
title: Additional file of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen
DOI: 10.6084/m9.figshare.7964423
title: The raw data of Psoralea corylifolia

description: The raw data of <i>Psoralea corylifolia</i><br>
DOI: 10.6084/m9.figshare.7964405
title: EPO Receptor Gain-of-Function Causes Hereditary Polycythemia, Alters CD34+ Cell Differentiation and Increases Circulating Endothelial Precursors: fcs, slide data

description: fcs file, slide, statistical analysis
DOI: 10.6084/m9.figshare.7964420
title: Supplementary material for the article: Genomic ecology of Marine Group II, the most common marine planktonic Archaea across the surface ocean by Olivier Pereira, Corentin Hochart, Jean Christophe Auguet, Didier Debroas, Pierre E. Galand (Microbiology Open)

description: Fasta file containing sequences from the kmer analysis.Excel file showing the supplementary Table S1-S6.<br>
DOI: 10.6084/m9.figshare.12877144.v6
title: Additional file of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen
DOI: 10.6084/m9.figshare.7964363
title: Transcatheter aortic valve replacement: clinical safety and performance data.

description: We reviewed transcatheter aortic valve replacement (TAVR) outcomes of 16 products, focussing on all articles reporting clinical and performance outcomes until June 2017. An overview of in the literature identified clinical endpoints and valve performance outcomes are depicted in the tables. One table for 30 day follow-up and 1 table with longer follow-up.
DOI: 10.6084/m9.figshare.7964405.v1
title: EPO Receptor Gain-of-Function Causes Hereditary Polycythemia, Alters CD34+ Cell Differentiation and Increases Circulating Endothelial Precursors: fcs, slide data

description: fcs file, slide, statistical analysis
DOI: 10.6084/m9.figshare.12877144.v5
title: Additional file of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen
DOI: 10.6084/m9.figshare.7964357
title: Phenotypic data rice biomass and root morphology and anatomy in response to water deficit

description: This data set corresponds to traits measured for 274 <em>indica</em> genotypes grown under water-deficit conditions during vegetative growth. Phenotypes consisted of 35 traits, mostly related to root morphology and anatomy. Further details about this data can be found in the original publication:<br>Niteen N. Kadam, Anandhan Tamilselvan, Lovely M.F. Lawas, Cherryl Quinones, Rajeev N. Bahuguna, Michael J. Thomson, Michael Dingkuhn, Raveendran Muthurajan, Paul C. Struik, Xinyou Yin, S.V. Krishna Jagadish (2017). Genetic control of plasticity in root morphology and anatomy of rice in response to water deficit. <i>Plant physiology</i>, <i>174</i>(4), 2302-2315.
DOI: 10.6084/m9.figshare.7964420.v1
title: Supplementary material for the article: Genomic ecology of Marine Group II, the most common marine planktonic Archaea across the surface ocean by Olivier Pereira, Corentin Hochart, Jean Christophe Auguet, Didier Debroas, Pierre E. Galand (Microbiology Open)

description: Fasta file containing sequences from the kmer analysis.Excel file showing the supplementary Table S1-S6.<br>
DOI: 10.6084/m9.figshare.12877159
title: Additional file 3 of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file 3: Table indicating the genes determined to be significantly regulated by 1 nM estrogen in parental and ERβ expressing MCF7 cells. (XLS 168 KB)
DOI: 10.6084/m9.figshare.12877159.v1
title: Additional file 3 of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file 3: Table indicating the genes determined to be significantly regulated by 1 nM estrogen in parental and ERβ expressing MCF7 cells. (XLS 168 KB)
DOI: 10.6084/m9.figshare.12877162
title: Additional file 4 of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file 4: Table indicating the genes determined to be significantly regulated by 1 nM estrogen + 40 nM Endoxifen in parental and ERβ expressing MCF7 cells. (XLS 30 KB)
DOI: 10.6084/m9.figshare.12877153
title: Additional file 1 of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file 1: Table indicating the sequences of primers used throughout this manuscript. (XLS 18 KB)
DOI: 10.6084/m9.figshare.12877153.v1
title: Additional file 1 of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file 1: Table indicating the sequences of primers used throughout this manuscript. (XLS 18 KB)
DOI: 10.6084/m9.figshare.12877162.v1
title: Additional file 4 of Estrogen receptor-beta sensitizes breast cancer cells to the anti-estrogenic actions of endoxifen

description: Additional file 4: Table indicating the genes determined to be significantly regulated by 1 nM estrogen + 40 nM Endoxifen in parental and ERβ expressing MCF7 cells. (XLS 30 KB)
DOI: 10.6084/m9.figshare.7964279
title: Origin of prehistoric cattle excavated from four archaeological sites in central and northeastern Thailand

description: Cattle have been domesticated in Southeast Asia, including Thailand, for thousands of years, but the history of cattle domestication in the region remains unclear. To date, only genetic studies of modern Thai cattle DNA have been reported. To gain some insight into cattle domestication in the country, a total of 56 cattle remains excavated from four archaeological sites (dated to between 3550 and 1700 years before present (YBP)) in northeastern and central Thailand were analysed in this study. Of 56, the 157-bp D-loop fragment was successfully generated from 26 samples, all of which belonged to <i>Bos taurus</i> in haplogroup T/T3. One haplotype contained 19 members from all four archaeological sites and clustered with the ancient <i>B. taurus</i> from Iran, Turkey and China. Other haplotypes have not shared haplotype with <i>B. taurus</i> from other countries but they showed close relationship to those from China. This represents the first genetic evidence that <i>B.</i> <i>taurus</i> was domesticated in Thailand between 3550 and 1700 YBP. In addition, the close relationship among ancient Thai, Iranian and Chinese taurines suggests that cattle from the Near East were introduced into North China, and were subsequently brought into Thailand thousands of years ago.
DOI: 10.6084/m9.figshare.7964276
title: The <i>PARK10</i> gene <i>USP24</i> is a negative regulator of autophagy and ULK1 protein stability

description: Recent studies indicate a causative relationship between defects in autophagy and dopaminergic neuron degeneration in Parkinson disease (PD). However, it is not fully understood how autophagy is regulated in the context of PD. Here we identify <i>USP24</i> (ubiquitin specific peptidase 24), a gene located in the <i>PARK10</i> (Parkinson disease 10 [susceptibility]) locus associated with late onset PD, as a novel negative regulator of autophagy. Our data indicate that USP24 regulates autophagy by affecting ubiquitination and stability of the ULK1 protein. Knockdown of <i>USP24</i> in cell lines and in human induced-pluripotent stem cells (iPSC) differentiated into dopaminergic neurons resulted in elevated ULK1 protein levels and increased autophagy flux in a manner independent of MTORC1 but dependent on the class III phosphatidylinositol 3-kinase (PtdIns3K) activity. Surprisingly, <i>USP24</i> knockdown also improved neurite extension and/or maintenance in aged iPSC-derived dopaminergic neurons. Furthermore, we observed elevated levels of USP24 in the <i>substantia nigra</i> of a subpopulation of idiopathic PD patients, suggesting that USP24 may negatively regulate autophagy in PD. <b>Abbreviations</b>: Bafilomycin/BafA: bafilomycin A<sub>1</sub>; DUB: deubiquitinating enzyme; iPSC: induced pluripotent stem cells; MTOR: mechanistic target of rapamycin kinase; MTORC1: MTOR complex 1; nt: non-targeting; PD: Parkinson disease; p-ATG13: phospho-ATG13; PtdIns3P: phosphatidylinositol 3-phosphate; RPS6: ribosomal protein S6; SNPs: single nucleotide polymorphisms; TH: tyrosine hydroxylase; USP24: ubiquitin specific peptidase 24