cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5402110.v1
title: Mapping the history of botanical collectors: spatial patterns, diversity, and uniqueness through time

description: This study examines changing spatial patterns of botanical collections over a 400 year time frame, focussing on the collections at the Natural History Museum (BM) in comparison with global patterns. The Plant Collector Resource Database, which contains 68,000 collector records was used to generate 250,667 unique collector × country × date records. We observe an exponential increase in the number of collectors over time. The activities of collectors were investigated in 50-year time-slices from 1650–2000. We specifically considered the geographic scope of collections (i.e., countries in which collections were made), the depth of collections (i.e., the number of collectors per country) and the uniqueness of collections (i.e., the proportion not duplicated in other herbaria). Uniqueness was highest for the earliest time-slice. Collector activity is shown to be strongly influenced by extrinsic factors such as the development of trade and empire, which allowed for collections to expand in scope and depth, and conflicts, which reduced collecting activity. A striking finding concerns the uniqueness of collections through time. The considerable unique element of the collections in herbaria highlighted by this study provides a strong motivation for digitization efforts to ensure that collections are accessible to address key questions in systematics, biogeography, and ecology.
DOI: 10.6084/m9.figshare.5402293.v1
title: The t<sup>6</sup>A modification acts as a positive determinant for the anticodon nuclease PrrC, and is distinctively nonessential in <i>Streptococcus mutans</i>

description: Endoribonuclease toxins (ribotoxins) are produced by bacteria and fungi to respond to stress, eliminate non-self competitor species, or interdict virus infection. PrrC is a bacterial ribotoxin that targets and cleaves tRNA<sup>Lys</sup> <sub>UUU</sub> in the anticodon loop. <i>In vitro</i> studies suggested that the post-transcriptional modification threonylcarbamoyl adenosine (t<sup>6</sup>A) is required for PrrC activity but this prediction had never been validated <i>in vivo</i>. Here, by using t<sup>6</sup>A-deficient yeast derivatives, it is shown that t<sup>6</sup>A is a positive determinant for PrrC proteins from various bacterial species. <i>Streptococcus mutans</i> is one of the few bacteria where the t<sup>6</sup>A synthesis gene <i>tsaE</i> (<i>brpB</i>) is dispensable and its genome encodes a PrrC toxin. We had previously shown using an HPLC-based assay that the <i>S. mutans tsaE</i> mutant was devoid of t<sup>6</sup>A. However, we describe here a novel and a more sensitive hybridization-based t<sup>6</sup>A detection method (compared to HPLC) that showed t<sup>6</sup>A was still present in the <i>S. mutans</i> Δ<i>tsaE</i>, albeit at greatly reduced levels (93% reduced compared with WT). Moreover, mutants in 2 other <i>S. mutans</i> t<sup>6</sup>A synthesis genes (<i>tsaB</i> and <i>tsaC</i>) were shown to be totally devoid of the modification thus confirming its dispensability in this organism. Furthermore, analysis of t<sup>6</sup>A modification ratios and of t<sup>6</sup>A synthesis genes mRNA levels in <i>S. mutans</i> suggest they may be regulated by growth phase.
DOI: 10.6084/m9.figshare.5402329.v2
title: BTV spread in Europe and predictors - SpatialData

description: Rasters used to compute resistance distances for the manuscript: Jacquot, M. , Nomikou, K., Palmarini, M. , Mertens, P. and Biek, R.(2017) Bluetongue virus spread in Europe is a consequence of climatic, landscape and vertebrate host factors as revealed by phylogeographic inference. <i>Proceedings of the Royal Society of London Series B: Biological Sciences</i>, (Accepted for Publication) <br> Climate data are all averages over 15 years (from January 1998 to December 2012) of monthly averages from: European Centre for Medium-range Weather Forecasts http://apps.ecmwf.int/datasets/data/interim-full-mnth/ <br> Mean and standard deviation of elevation were obtained from: Global Multi-resolution Terrain Elevation Data (GMTED 2010) from the United States Geological Survey http://eros.usgs.gov/#Find_Data/Products_and_Data_Available/GMTED2010 <br> Low- Mid and High-elevations rasters were derived from the mean elevation one. <br> Livestock densities were obtained from Food and Agriculture Organisation http://www.fao.org/ag/AGAInfo/resources/en/glw/GLW_dens.html <br> The cattle density raster was used to generate the terrestrial habitat/land cover (Habitat vs non habitat areas).
DOI: 10.6084/m9.figshare.5402044
title: Anemia data, hemodialysis patients

description: CSV files contain information on gender, height and weight of the patients, measured pre- and post-dialysis hemoglobins (measured with CritLine III monitors) and simulated hemoglobin values using a physiological based mathematical model for erythropoiesis and erythropoietin doses.<br>Further, there are several python files that show a basic implementation of the parameter identification approach used to estimate individual model parameters from the patient data. This also includes an approximation, based on semigroups, of the system of partial differential equations describing the physiological model. The .docx file explains in a nutshell how to use the parameter identification code.
DOI: 10.6084/m9.figshare.5402035
title: Supplementary Material for: Injury Resistance in the Setting of Liver Fibrosis Is Accompanied by the Inhibition of High-Mobility Group Box-1 Translocation and Release

description: <b><i>Background:</i></b> Injury resistance occurring in the setting of liver fibrosis is an interesting phenomenon not yet well characterized. In the present study, we investigated dynamically the injury resistance against acute challenge using animal models of hepatic fibrosis and spontaneous resolution, and focused on high-mobility group box-1 (HMGB1), an important proinflammatory mediator. <b><i>Methods:</i></b> The hepatic damage of control, fibrosis (CCl<sub>4</sub>, 6 weeks), and regressive mice with or without CCl<sub>4</sub> challenge was dynamically observed and compared. The translocation and release of HMGB1 were assessed by immunohistochemical staining and enzyme-linked immunosorbent assay, respectively. The gene expression of proinflammatory mediators was detected by real-time PCR. <b><i>Results:</i></b> Our data showed that the fibrotic mice were invulnerable to acute CCl<sub>4</sub> insult. The injury resistance diminished along with the resolution of liver fibrosis. Acute insult triggered the translocation and release of HMGB1 in control mice, which were remarkably inhibited in fibrotic mice, even under acute challenge. Nevertheless, regressive mice exhibited obvious translocation upon insult, especially for R12d mice. HMGB1-related proinflammatory immune responses were suppressed in fibrotic mice; however, they were restored in regressive mice upon insult. <b><i>Conclusion:</i></b> The injury resistance in the setting of liver fibrosis is accompanied by the inhibition of HMGB1 translocation and release as well as the suppression of HMGB1-related proinflammatory immune responses.
DOI: 10.6084/m9.figshare.5401894
title: Marry Who You Love: Intergroup Contact with Gay People and Another Stigmatized Group Is Related to Voting on Gay Rights through Perception of Threat

description: This dataset and syntax were used for a study that examined factors associated with discrimination against gay people in a public referendum aimed at the restriction of gay rights.
DOI: 10.6084/m9.figshare.5401936
title: NTU Dataset Sample

description: The dataset provides a sample of direct crossing scenarios used in the paper - "Context Based Pedestrian Intention Prediction using Factored Latent Dynamic Conditional Random Fields" to appear in IEEE SSCI-2017
DOI: 10.6084/m9.figshare.5401879
title: Taphonomy of modern communal burrow systems of the Plains vizcacha (<i>Lagostomus maximus</i>, Chinchillidae) in the Pampas region of Argentina: implications for the fossil record

description: The Plains vizcacha (<i>Lagostomus maximus</i>) is one of the largest rodents in South America. They live in communal burrow systems (vizcacheras) shaped by complex subterranean galleries which produce a strong impact on the local landscape. This paper presents the results of an actualistic study conducted with abandoned vizcacheras from the Pampas region of Argentina. The main objective is to evaluate the role of this rodent in the formation of the fossil record. Results indicate that the Plains vizcacha is responsible for the mixing, accumulation, and transport of materials; such as sticks, caliche, dung, feces, and abundant bone remains. Their burrowing activity and the accumulating habits, modifies the landscape, creating environments conducive to the buildup of objects and the reuse by different animals. These characteristics result in very complex associations of materials of different origins; making this rodent an important taphonomic agent with the potential to significantly impact the fossil record.
DOI: 10.6084/m9.figshare.5401879.v1
title: Taphonomy of modern communal burrow systems of the Plains vizcacha (<i>Lagostomus maximus</i>, Chinchillidae) in the Pampas region of Argentina: implications for the fossil record

description: The Plains vizcacha (<i>Lagostomus maximus</i>) is one of the largest rodents in South America. They live in communal burrow systems (vizcacheras) shaped by complex subterranean galleries which produce a strong impact on the local landscape. This paper presents the results of an actualistic study conducted with abandoned vizcacheras from the Pampas region of Argentina. The main objective is to evaluate the role of this rodent in the formation of the fossil record. Results indicate that the Plains vizcacha is responsible for the mixing, accumulation, and transport of materials; such as sticks, caliche, dung, feces, and abundant bone remains. Their burrowing activity and the accumulating habits, modifies the landscape, creating environments conducive to the buildup of objects and the reuse by different animals. These characteristics result in very complex associations of materials of different origins; making this rodent an important taphonomic agent with the potential to significantly impact the fossil record.
DOI: 10.6084/m9.figshare.5401894.v1
title: Marry Who You Love: Intergroup Contact with Gay People and Another Stigmatized Group Is Related to Voting on Gay Rights through Perception of Threat

description: This dataset and syntax were used for a study that examined factors associated with discrimination against gay people in a public referendum aimed at the restriction of gay rights.
DOI: 10.6084/m9.figshare.5401837
title: ALARM NMR data - HAT inhibitors

description: Representative [<sup>1</sup>H-<sup>13</sup>C]-HMQC ALARM NMR spectra for reported histone acetyltransferase inhibitors. ALARM NMR is a protein-based NMR counter-screen for flagging potentially promiscuous and/or assay interference compounds in drug and chemical probe discovery.<br><br>Human La antigen (50 uM final concentration) was incubated with reported HAT inhibitors (400 uM final concentration) in 25 mM sodium phosphate, pH 7.0, 10% D<sub>2</sub>O, in the presence or absence of DTT (0 or 25 mM final concentration).<br><br>Data was obtained on a 700 MHz Bruker Avance NMR spectrometer equipped with TCI Cryoprobe. Compressed files (.zip) are in standard Bruker format and were analyzed in TopSpin 3.5.<br><br>Controls: DMSO (vehicle), CPM (thiol-reactive control compound), fluconazole (negative control compound).<br><br>Files are listed according to compound tested (number in accompanying manuscript) and DTT status (DTT, NoDTT).<br>
DOI: 10.6084/m9.figshare.5401828
title: Supplementary Material for: ERAP1 and PDE8A Are Downregulated in Cattle Protected against Bovine Tuberculosis

description: Bovine tuberculosis (bTB) is a zoonotic disease caused by <i>Mycobacterium bovis</i> that is responsible for significant economic losses worldwide. In spite of its relevance, the limited knowledge about the host immune responses that provide effective protection against the disease has long hampered the development of an effective vaccine. The identification of host proteins with an expression that correlates with protection against bTB would contribute to the understanding of the cattle defence mechanisms against <i>M. bovis</i> infection. In this study, we found that <i>ERAP1</i> and <i>PDE8A</i> were downregulated in vaccinated cattle that were protected from experimental <i>M. bovis</i> challenge. Remarkably, both genes encode proteins that have been negatively associated with immune protection against bTB.
DOI: 10.6084/m9.figshare.5401822
title: CORPORATE NETWORKS OF INTERNATIONAL INVESTMENT AND TRADE

description: This thesis consists of three distinct papers, that each address the globalisation of industries in past decades, specifically the reorganisation of the production process. The structure of production has changed in recent decades; goods are no longer produced completely in one country, rather production is fragmented into several geographically segmented business functions. This thesis argues the need for both alternative methods and data to better explain complex trade and investment, (and therefore production patterns), in the modern global economy.
DOI: 10.6084/m9.figshare.5401894.v3
title: Marry Who You Love: Intergroup Contact with Gay People and Another Stigmatized Group Is Related to Voting on Gay Rights through Perception of Threat

description: This dataset and syntax were used for a study that examined factors associated with discrimination against gay people in a public referendum aimed at the restriction of gay rights.
DOI: 10.6084/m9.figshare.5401777
title: Supporting Information S3 from Bioelectric gene and reaction networks: computational modelling of genetic, biochemical and bioelectrical dynamics in pattern regulation

description: The configuration file that can be used with BETSE to run the emergent Vmem patterns network.
DOI: 10.6084/m9.figshare.5401768
title: Supplementary Table 1 from Offspring genes indirectly influence sibling and maternal behavioural strategies over resource share

description: The table shows Pearson's correlation coefficient r and associated p-value between all measured traits.
DOI: 10.6084/m9.figshare.5401768.v1
title: Supplementary Table 1 from Offspring genes indirectly influence sibling and maternal behavioural strategies over resource share

description: The table shows Pearson's correlation coefficient r and associated p-value between all measured traits.
DOI: 10.6084/m9.figshare.5401756
title: Supporting Information S2 from Bioelectric gene and reaction networks: computational modelling of genetic, biochemical and bioelectrical dynamics in pattern regulation

description: The configuration file that can be used with BETSE to run the anterior-posterior polarity control network.
DOI: 10.6084/m9.figshare.5401759
title: Supplementary Table 2 from Offspring genes indirectly influence sibling and maternal behavioural strategies over resource share

description: The table shows the position of the start of the genes (megabase pairs), and if they contain non-synonymous SNPs (nsSNPS), or insertions or deletions (indels).
DOI: 10.6084/m9.figshare.5401756.v1
title: Supporting Information S2 from Bioelectric gene and reaction networks: computational modelling of genetic, biochemical and bioelectrical dynamics in pattern regulation

description: The configuration file that can be used with BETSE to run the anterior-posterior polarity control network.
DOI: 10.6084/m9.figshare.5401747
title: Power and lift; Wake visualisations from The power–speed relationship is U-shaped in two free-flying Hawkmoths (<i>Manduca</i> <i>sexta</i>)

description: Power and lift data for all wingbeats used in the analysis.; Wake visualisations of M2 flying at 1 and 3.8 ms<sup>-1</sup> and M1 flying at 2 and 2.8 ms<sup>-1</sup>. Arrows indicate flight direction. The figure shows iso-surfaces of constant Q-value (Q=150000 at 1 and 2 ms<sup>-1</sup>, 120000 at 2.8 ms<sup>-1</sup> and 100000 at 3.8 ms<sup>-1</sup>). The wakes are coloured by vorticity in <i>x</i>-direction.
DOI: 10.6084/m9.figshare.5401759.v1
title: Supplementary Table 2 from Offspring genes indirectly influence sibling and maternal behavioural strategies over resource share

description: The table shows the position of the start of the genes (megabase pairs), and if they contain non-synonymous SNPs (nsSNPS), or insertions or deletions (indels).
DOI: 10.6084/m9.figshare.5401747.v1
title: Power and lift; Wake visualisations from The power–speed relationship is U-shaped in two free-flying Hawkmoths (<i>Manduca</i> <i>sexta</i>)

description: Power and lift data for all wingbeats used in the analysis.; Wake visualisations of M2 flying at 1 and 3.8 ms<sup>-1</sup> and M1 flying at 2 and 2.8 ms<sup>-1</sup>. Arrows indicate flight direction. The figure shows iso-surfaces of constant Q-value (Q=150000 at 1 and 2 ms<sup>-1</sup>, 120000 at 2.8 ms<sup>-1</sup> and 100000 at 3.8 ms<sup>-1</sup>). The wakes are coloured by vorticity in <i>x</i>-direction.
DOI: 10.15131/shef.data.5401642
title: #mozsprint Library Carpentry 2017

description: Every year, the Mozilla Foundation runs a two-day Global Sprint, giving people around the world 50 hours to work on projects supporting and promoting open culture and tech. The Library Carpentry project, a worldwide initiative to teach data and software skills to librarians, used this year's event (1/2 June 2017) to further develop lesson material. This chart shows the contributions to our GitHub repositories over the two days. Event data from the GitHub API is also available in JSON format.
DOI: 10.6084/m9.figshare.5401729
title: Change coupling data set

description: Logical coupling data describing the co-change of .java files from various commits of open-source software projects.
DOI: 10.15131/shef.data.5401642.v1
title: #mozsprint Library Carpentry 2017

description: Every year, the Mozilla Foundation runs a two-day Global Sprint, giving people around the world 50 hours to work on projects supporting and promoting open culture and tech. The Library Carpentry project, a worldwide initiative to teach data and software skills to librarians, used this year's event (1/2 June 2017) to further develop lesson material. This chart shows the contributions to our GitHub repositories over the two days. Event data from the GitHub API is also available in JSON format.
DOI: 10.6084/m9.figshare.5401633
title: McClung and Reicher 'Representing Other Minds' data

description: Data on mental state reference in pairs' conversations and written descriptions of each other <br>
DOI: 10.6084/m9.figshare.5401618
title: Overlap integral and R0 values, and A/D ratios

description: This Excel spreadsheet, includes the results of calculation of overlap integral and R0 values for all possible combinations of TA and NTD labeled strands (using the data from steady-state fluorescence spectra of all possible singly-labeled dsDNA constructs. See figure S1 and Table S1 for information for relevant doubly-labeled dsDNA constructs.
DOI: 10.6084/m9.figshare.5401615
title: Geochemical characteristics of ophiolitic rocks from the southern margin of the Sivas basin and their implications for the Inner Tauride Ocean, Central-Eastern Turkey

description: Number of dismembered ophiolite bodies crop out between Sivas and Malatya on the top of the Eastern Tauride platform in the central-eastern Turkey. One of which at the southern margin of the Sivas basin in the Tecer Mountain area comprises melange and the lower part of an oceanic lithospheric section on top of the Tauride platform. The mantle tectonites are characterized by variably serpentinized harzburgites and dunites, and are intruded by numerous isolated dykes. The gabbroic cumulates consist of olivine gabbro, gabbro and gabbronorite. The major and trace element geochemistry of the mafic cumulate rocks suggests that the primary magma was compositionally similar to those observed in modern island-arc tholeiitic sequences. The isolated dykes are exclusively basaltic in composition and display geochemically two distinct subgroups: Group I is represented by high TiO<sub>2</sub> (.87–1.47 wt.%) and other incompatible elements, whereas Group II is characterized by low TiO<sub>2</sub> (.36–.66 wt.%) and other incompatible elements. The Group I isolated diabase dykes have flat to slightly LREE-depleted profiles (La/Yb<sub>N</sub> = .32–.79), whereas the Group II isolated diabase dykes are more depleted in general and have a LREE-depleted character (La/Yb<sub>N</sub> = .19–.49). This suggests that the isolated dykes were derived from an island arc tholeiitic magma (Nb/Y = .02–.05) with different degrees of partial melting (Group II &gt; Group I) and relatively high oxygen fugacity in intra-oceanic subduction zone. The ophiolitic rocks in the study area may well be compared with the Divriği ophiolite to the southeast. All the evidence suggests that the isolated dykes in the Tecer Mountain area differ from the alkaline isolated dykes cutting the Divriği ophiolite. Since the late stage dykes (~76 Ma) in the Divriği area are alkaline, the tholeiitic isolated dykes in the present study should have been emplaced prior to the alkaline dykes during Late Cretaceous SSZ-spreading (~90 Ma) within the Inner Tauride Ocean.
DOI: 10.6084/m9.figshare.5401615.v1
title: Geochemical characteristics of ophiolitic rocks from the southern margin of the Sivas basin and their implications for the Inner Tauride Ocean, Central-Eastern Turkey

description: Number of dismembered ophiolite bodies crop out between Sivas and Malatya on the top of the Eastern Tauride platform in the central-eastern Turkey. One of which at the southern margin of the Sivas basin in the Tecer Mountain area comprises melange and the lower part of an oceanic lithospheric section on top of the Tauride platform. The mantle tectonites are characterized by variably serpentinized harzburgites and dunites, and are intruded by numerous isolated dykes. The gabbroic cumulates consist of olivine gabbro, gabbro and gabbronorite. The major and trace element geochemistry of the mafic cumulate rocks suggests that the primary magma was compositionally similar to those observed in modern island-arc tholeiitic sequences. The isolated dykes are exclusively basaltic in composition and display geochemically two distinct subgroups: Group I is represented by high TiO<sub>2</sub> (.87–1.47 wt.%) and other incompatible elements, whereas Group II is characterized by low TiO<sub>2</sub> (.36–.66 wt.%) and other incompatible elements. The Group I isolated diabase dykes have flat to slightly LREE-depleted profiles (La/Yb<sub>N</sub> = .32–.79), whereas the Group II isolated diabase dykes are more depleted in general and have a LREE-depleted character (La/Yb<sub>N</sub> = .19–.49). This suggests that the isolated dykes were derived from an island arc tholeiitic magma (Nb/Y = .02–.05) with different degrees of partial melting (Group II &gt; Group I) and relatively high oxygen fugacity in intra-oceanic subduction zone. The ophiolitic rocks in the study area may well be compared with the Divriği ophiolite to the southeast. All the evidence suggests that the isolated dykes in the Tecer Mountain area differ from the alkaline isolated dykes cutting the Divriği ophiolite. Since the late stage dykes (~76 Ma) in the Divriği area are alkaline, the tholeiitic isolated dykes in the present study should have been emplaced prior to the alkaline dykes during Late Cretaceous SSZ-spreading (~90 Ma) within the Inner Tauride Ocean.