cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6450095.v1
title: Christchurch Vessels in Exchequer Port Books of Southampton, 1670-1720

description: Merchandise carried by vessels based at Christchurch, Hampshire (now Dorset), as recorded in the Exchequer Port Books of the Customs Port of Southampton, 1670-1720.
DOI: 10.6084/m9.figshare.6450077
title: Supplementary Material for: Corticosteroid for IgA Nephropathy: Are They Really Therapeutic?

description: <b><i>Background:</i></b> IgA nephropathy (IgAN) is a common chronic glomerular disease that, in most patients, slowly progresses to end-stage kidney disease. The therapy with corticosteroid in IgAN is still a worldwide problem that is confusing the clinicians. <b><i>Methods:</i></b> MEDLINE, EMBASE, the Cochrane Library, and article reference lists were searched for randomized controlled trials (RCTs) that compared corticosteroids with placebo and any other non-immunosuppressive agents in treating IgAN. Twelve RCTs involving 1,057 patients were included. <b><i>Results:</i></b> Overall, we found that steroids had statistically significant effects in preventing the decline in renal function (relative risk 0.42, 95% CI 0.25–0.71, <i>p</i> &lt; 0.001) and reducing proteinuria (SMD: –0.58 g/day, 95% CI –0.80 to –0.36 g/day) in patients with IgAN. The association between glucocorticoid and risk of kidney outcome was not modified by steroids’ type (prednisone or methylprednisone), dose (≤30 or &gt; 30 mg/day), duration (≤8 or &gt; 8 months), or serum creatinine (&lt; 1.10 or ≥1.10 mg/dL). But steroids increased the risk of side effects such as gastrointestinal and endocrinium symptoms. <b><i>Conclusion:</i></b> This study provides the clear beneficial effects of the steroids therapy on the kidney function and proteinuria, although it should be used with caution.
DOI: 10.6084/m9.figshare.6450032
title: Dataset for: The effects of a mixture of copper, nickel and zinc on the structure and function of a freshwater planktonic community

description: It is generally assumed that as long as the majority of species experiences no direct adverse effects due to a single substance (i.e. Potentially Affected Fraction, PAF &lt; 5%), no significant structural or functional effects at community-level are expected to occur. Whether this assumption holds for mixed metal contamination is not known. Here, we tested this by performing a microcosm experiment in which a naturally occurring freshwater planktonic community was exposed to a Cu-Ni-Zn mixture for 8 weeks, and in which various structural and functional community-level traits were assessed. In the low mixture concentration treatments (i.e., Ni-Zn mixtures, because there was no difference of Cu concentrations in these treatments with the control), community-level effects were relatively simple, only involving phytoplankton species groups. In the high mixture concentration treatments (Cu-Ni-Zn mixtures), community-level effects were more complex, involving several phytoplankton and zooplankton species groups. Multi-substance PAF (msPAF) values for all mixture treatments were calculated by applying the concentration addition model to bioavailability-normalised single-metal species sensitivity distributions (SSD). Consistent effects on the structural traits community composition, abundance of zooplankton species groups, species diversity, and species richness and on the functional trait dissolved organic carbon (DOC) concentration (as a proxy for the microbial loop and pelagic food web interactions) were only observed at msPAF values above 0.05, i.e. in the Cu-Ni-Zn mixture. However, consistent effects on the abundance of various phytoplankton species groups (structural traits) and on two measures of community respiration, i.e. overnight ∆DO and ∆pH (functional traits) were already observed at msPAF values of 0.05 or lower, i.e. in the
DOI: 10.6084/m9.figshare.6450032.v1
title: Dataset for: The effects of a mixture of copper, nickel and zinc on the structure and function of a freshwater planktonic community

description: It is generally assumed that as long as the majority of species experiences no direct adverse effects due to a single substance (i.e. Potentially Affected Fraction, PAF &lt; 5%), no significant structural or functional effects at community-level are expected to occur. Whether this assumption holds for mixed metal contamination is not known. Here, we tested this by performing a microcosm experiment in which a naturally occurring freshwater planktonic community was exposed to a Cu-Ni-Zn mixture for 8 weeks, and in which various structural and functional community-level traits were assessed. In the low mixture concentration treatments (i.e., Ni-Zn mixtures, because there was no difference of Cu concentrations in these treatments with the control), community-level effects were relatively simple, only involving phytoplankton species groups. In the high mixture concentration treatments (Cu-Ni-Zn mixtures), community-level effects were more complex, involving several phytoplankton and zooplankton species groups. Multi-substance PAF (msPAF) values for all mixture treatments were calculated by applying the concentration addition model to bioavailability-normalised single-metal species sensitivity distributions (SSD). Consistent effects on the structural traits community composition, abundance of zooplankton species groups, species diversity, and species richness and on the functional trait dissolved organic carbon (DOC) concentration (as a proxy for the microbial loop and pelagic food web interactions) were only observed at msPAF values above 0.05, i.e. in the Cu-Ni-Zn mixture. However, consistent effects on the abundance of various phytoplankton species groups (structural traits) and on two measures of community respiration, i.e. overnight ∆DO and ∆pH (functional traits) were already observed at msPAF values of 0.05 or lower, i.e. in the
DOI: 10.21227/8awx-v784
title: Effects of a Powered Knee-Ankle Prosthesis on Amputee Hip Compensations: A Case Series

description: Gait with passive prostheses often exhibit compensations due to the lack of push-off power of the prosthetic ankle. Powered prostheses can restore some functionality, but there is little evidence that shows their effect on compensatory behaviors, specifically at the residual hip. This paper is aimed at investigating how powered prostheses can be leveraged to mitigate residual hip compensations. Walking experiments were conducted with three transfemoral amputees using a low-impedance powered knee-ankle prosthesis compared to their day-to-day passive prosthesis. A walking controller was implemented on the powered prosthesis to exploit the low-impedance actuators' power density during push-off, impedance control abilities in stance, and trajectory tracking abilities to ensure prosthetic toe-clearance during swing. Experiments show that when large prosthetic ankle push-off power is utilized, less mechanical power is demanded from the residual hip to progress the limb forward. Moreover, all subjects displayed increased step length (by ~60mm and propulsive impulses for the prosthetic side, compared to their passive prostheses. This reduced residual hip work used to accelerate the body forward by ~15%, and improved gait symmetry. Results on hip circumduction were mixed, but improved for subjects who had previously exhibited this compensation on their passive prosthesis. These improvements in gait, especially reduced residual hip power and work, have the potential to reduce fatigue and overuse injuries in persons with transfemoral amputation.
DOI: 10.21227/sngq-4x29
title: Effects of a Powered Knee-Ankle Prosthesis on Amputee Hip Compensations: A Case Series

description: Gait with passive prostheses often exhibit compensations due to the lack of push-off power of the prosthetic ankle. Powered prostheses can restore some functionality, but there is little evidence that shows their effect on compensatory behaviors, specifically at the residual hip. This paper is aimed at investigating how powered prostheses can be leveraged to mitigate residual hip compensations. Walking experiments were conducted with three transfemoral amputees using a low-impedance powered knee-ankle prosthesis compared to their day-to-day passive prosthesis. A walking controller was implemented on the powered prosthesis to exploit the low-impedance actuators' power density during push-off, impedance control abilities in stance, and trajectory tracking abilities to ensure prosthetic toe-clearance during swing. Experiments show that when large prosthetic ankle push-off power is utilized, less mechanical power is demanded from the residual hip to progress the limb forward. Moreover, all subjects displayed increased step length (by ~60mm and propulsive impulses for the prosthetic side, compared to their passive prostheses. This reduced residual hip work used to accelerate the body forward by ~15%, and improved gait symmetry. Results on hip circumduction were mixed, but improved for subjects who had previously exhibited this compensation on their passive prosthesis. These improvements in gait, especially reduced residual hip power and work, have the potential to reduce fatigue and overuse injuries in persons with transfemoral amputation.
DOI: 10.6084/m9.figshare.6450023.v1
title: Salisbury Avon Navigation: Maps

description: These maps show the location of works undertaken by the powers of the Salisbury Avon Navigation Act 1665
DOI: 10.6084/m9.figshare.6449840
title: Production and preservation of the smallest drumlins

description: Few very small drumlins are typically mapped in previously glaciated landscapes, which might be an important signature of subglacial processes or an observational artefact. One hundred and forty-three newly emergent drumlins, recently sculpted by the Múlajökull glacier, have been mapped using high-resolution LiDAR and aerial photographs in addition to field surveying. In this paper, these are used as evidence that few small drumlins (e.g., height <i>H</i> 4 m, width <i>W</i> 40 m, length <i>L</i> 100 m) are produced; at least, few survive to pass outside the ice margin in this actively forming drumlin field. Specifically, the lack of a multitude of small features seen in other landforms (e.g., volcanoes) is argued not to be due to (i) Digital Elevation Model resolution or quality, (ii) mapper ability in complex (i.e., anthropogenically cluttered or vegetated) landscapes or (iii) post-glacial degradation at this site. So, whilst detection ability must still be at least acknowledged in drumlin mapping, and ideally corrected for in quantitative analyses, this observation can now be firmly taken as a constraint upon drumlin formation models (i.e., statistical, conceptual or numerical ice flow). Our preferred explanation for the scarcity of small drumlins, at least at sites similar to Múlajökull (i.e., ice lobes with near-margin drumlin genesis), is that they form stochastically during multiple surge cycles, evolving from wide and gentle pre-existing undulations by increasing rapidly in amplitude before significant streamlining occurs.
DOI: 10.6084/m9.figshare.6449840.v1
title: Production and preservation of the smallest drumlins

description: Few very small drumlins are typically mapped in previously glaciated landscapes, which might be an important signature of subglacial processes or an observational artefact. One hundred and forty-three newly emergent drumlins, recently sculpted by the Múlajökull glacier, have been mapped using high-resolution LiDAR and aerial photographs in addition to field surveying. In this paper, these are used as evidence that few small drumlins (e.g., height <i>H</i> 4 m, width <i>W</i> 40 m, length <i>L</i> 100 m) are produced; at least, few survive to pass outside the ice margin in this actively forming drumlin field. Specifically, the lack of a multitude of small features seen in other landforms (e.g., volcanoes) is argued not to be due to (i) Digital Elevation Model resolution or quality, (ii) mapper ability in complex (i.e., anthropogenically cluttered or vegetated) landscapes or (iii) post-glacial degradation at this site. So, whilst detection ability must still be at least acknowledged in drumlin mapping, and ideally corrected for in quantitative analyses, this observation can now be firmly taken as a constraint upon drumlin formation models (i.e., statistical, conceptual or numerical ice flow). Our preferred explanation for the scarcity of small drumlins, at least at sites similar to Múlajökull (i.e., ice lobes with near-margin drumlin genesis), is that they form stochastically during multiple surge cycles, evolving from wide and gentle pre-existing undulations by increasing rapidly in amplitude before significant streamlining occurs.
DOI: 10.6084/m9.figshare.6449837
title: Phylogeny of some Devonian trilobites and consequences for the systematics of <i>Austerops</i> (Phacopidae)

description: A comprehensive phylogenetic hypothesis for Devonian phacopid trilobites of the genus <i>Austerops</i> has not previously been proposed. We carried out a cladistic analysis of the 13 species and subspecies assigned to <i>Austerops</i>, based on a data matrix of 63 characters. Two species of the morphologically very similar genus <i>Chotecops</i>, <i>C. auspex</i> and <i>C. hoseri</i>, and seven other close relatives (<i>Reedops cephalotes hamlagdadianus</i>, <i>Boeckops stelcki</i>, <i>Morocops granulops</i>, <i>Paciphacops logani</i>, <i>Phacops latifrons</i>, <i>Phacops araw</i> and <i>Pedinopariops</i> (<i>Hypsipariops</i>) <i>vagabundus</i>) were also included in the analysis in order to test their relationship with species of <i>Austerops</i>. Parsimony analyses using a heuristic method, with <i>Calyptaulax callirachis</i> and <i>C. glabella</i> as outgroup taxa, produced two most parsimonious trees of 341 steps. These trees are partly consistent with trees obtained from additional analyses performed with modified data sets (deletion of homoplastic characters, multistate characters, continuous characters carved into 5% increments, thoracic and pygidial characters, or taxa with numerous unknown characters). Results suggest that <i>Austerops</i> sp. B and <i>A.</i>? sp. D are close to <i>Chotecops hoseri</i> and <i>C. auspex</i>, and that these species constitute a monophyletic group. <i>Austerops Austerops menchikoffi</i>, <i>A. speculator</i> and <i>A. punctatus</i> are also a monophyletic group and reasonably constitute a sister group of that formed by the rest of <i>Austerops</i> and <i>Chotecops</i> sensu lato, while <i>A. hottonensis</i> seems phylogenetically distant from other representatives of <i>Austerops</i>. <i>Chotecops</i> including <i>C. hoseri</i> and <i>C. auspex</i> together with <i>Austerops</i> sp. B and <i>A</i>.? sp. D seem derived from <i>A. legrandi</i>. The relationship between <i>Austerops</i> and <i>Chotecops</i> remains partly unresolved but it seems likely that their recognition as separate taxa results in paraphyletic groups. The phylogenetic analysis suggests that the currently poorly known <i>Austerops</i> sp. B and <i>A</i>.? sp. D should be reassigned to <i>Chotecops</i>.
DOI: 10.6084/m9.figshare.6449786
title: PPARgamma-mediated ALDH1A3 suppression exerts anti-proliferative effects in lung cancer by inducing lipid peroxidation

description: <b>Context:</b> The metabolic function of peroxisome proliferator-activated receptor gamma (PPARγ) in lung cancer remains unclear. <b>Objectives:</b> To determine the relationship of PPARγ on ALDH1A3-induced lipid peroxidation to inhibit lung cancer cell growth. <b>Materials and methods:</b><i>In silico</i> analysis using microarray dataset was performed to screen the positive correlation between PPARγ and all ALDH isoforms. NUBIscan software and ChIP assay were used to identify the binding sites (BSs) of PPARγ on ALDH1A3 promoter. The expression of ALDH1A3 under thiazolidinedione (TZD) treatment was evaluated by QPCR and Western Blot in HBEC and H1993 cell lines. Upon treatment of TZD, colony formation assay was used to check cell growth inhibition and 4-hydroxy-2-nonenal (4HNE) production as lipid peroxidation marker was determined by Western Blot in PPARγ positive cell H1993 and PPARγ negative cell H1299. <b>Results:</b> Compared to other ALDH isoforms, ALDH1A3 showed the highest positive correlation to PPARγ expression. ALDH1A3 upregulated PPARγ expression while PPARγ activation suppressed ALDH1A3. Among 2 potential screened PPARγ response elements, BS 1 and 2 in the promoter of <i>ALDH1A3</i> gene, PPARγ bound directly to BS2. Ligand activation of PPARγ suppressed mRNA and protein expression of ALDH1A3. Growth inhibition was observed in H1993 (PPARγ positive cell) treated with PPARγ activator and ALDH inhibitor compared to H1299 (PPARγ negative cell). PPARγ activation increased 4HNE which is known to be suppressed by ALDH1A3. <b>Conclusions:</b> ALDH1A3 suppression could be one of PPARγ tumor suppressive function. This study provides a better understanding of the role of PPARγ in lung cancer.
DOI: 10.6084/m9.figshare.6449786.v1
title: PPARgamma-mediated ALDH1A3 suppression exerts anti-proliferative effects in lung cancer by inducing lipid peroxidation

description: <b>Context:</b> The metabolic function of peroxisome proliferator-activated receptor gamma (PPARγ) in lung cancer remains unclear. <b>Objectives:</b> To determine the relationship of PPARγ on ALDH1A3-induced lipid peroxidation to inhibit lung cancer cell growth. <b>Materials and methods:</b><i>In silico</i> analysis using microarray dataset was performed to screen the positive correlation between PPARγ and all ALDH isoforms. NUBIscan software and ChIP assay were used to identify the binding sites (BSs) of PPARγ on ALDH1A3 promoter. The expression of ALDH1A3 under thiazolidinedione (TZD) treatment was evaluated by QPCR and Western Blot in HBEC and H1993 cell lines. Upon treatment of TZD, colony formation assay was used to check cell growth inhibition and 4-hydroxy-2-nonenal (4HNE) production as lipid peroxidation marker was determined by Western Blot in PPARγ positive cell H1993 and PPARγ negative cell H1299. <b>Results:</b> Compared to other ALDH isoforms, ALDH1A3 showed the highest positive correlation to PPARγ expression. ALDH1A3 upregulated PPARγ expression while PPARγ activation suppressed ALDH1A3. Among 2 potential screened PPARγ response elements, BS 1 and 2 in the promoter of <i>ALDH1A3</i> gene, PPARγ bound directly to BS2. Ligand activation of PPARγ suppressed mRNA and protein expression of ALDH1A3. Growth inhibition was observed in H1993 (PPARγ positive cell) treated with PPARγ activator and ALDH inhibitor compared to H1299 (PPARγ negative cell). PPARγ activation increased 4HNE which is known to be suppressed by ALDH1A3. <b>Conclusions:</b> ALDH1A3 suppression could be one of PPARγ tumor suppressive function. This study provides a better understanding of the role of PPARγ in lung cancer.
DOI: 10.6084/m9.figshare.6449777
title: Free energy and concentration of crystalline vacancies by molecular simulation

description: We present an approach for evaluating the concentration of vacancy defects in crystalline materials by molecular simulation. The proposed method circumvents the problem of equilibration of the number of ‘lattice sites’ <i>M</i>, which characterises the trade-off between more, smaller lattice cells (with some vacant), versus fewer, larger cells. Working in a grand-canonical framework, we instead fix <i>M</i> and solve for the chemical potential <i>μ</i> that ensures thermodynamic consistency of the ensemble-averaged pressure and the grand potential. Having determined <i>μ</i> this way for the given <i>M</i>, the equilibrium vacancy concentration and free energy are easily determined. Methods are demonstrated for the classical Lennard–Jones fcc crystal, examining all states where the crystal is stable. We find for this system that the effect of equilibrating <i>M</i> is negligible at all conditions. Also, although the vacancy fraction varies by many orders of magnitude with temperature and density, we find that the value at melting is nearly independent of density, equal to about . Results further show that a lattice-energy approximation (ignoring entropic effects) underestimates the correct concentration by four orders of magnitude at almost all conditions; ignoring only anharmonic contributions underestimates the vacancy concentration at melting by nearly one order of magnitude.
DOI: 10.6084/m9.figshare.6449777.v1
title: Free energy and concentration of crystalline vacancies by molecular simulation

description: We present an approach for evaluating the concentration of vacancy defects in crystalline materials by molecular simulation. The proposed method circumvents the problem of equilibration of the number of ‘lattice sites’ <i>M</i>, which characterises the trade-off between more, smaller lattice cells (with some vacant), versus fewer, larger cells. Working in a grand-canonical framework, we instead fix <i>M</i> and solve for the chemical potential <i>μ</i> that ensures thermodynamic consistency of the ensemble-averaged pressure and the grand potential. Having determined <i>μ</i> this way for the given <i>M</i>, the equilibrium vacancy concentration and free energy are easily determined. Methods are demonstrated for the classical Lennard–Jones fcc crystal, examining all states where the crystal is stable. We find for this system that the effect of equilibrating <i>M</i> is negligible at all conditions. Also, although the vacancy fraction varies by many orders of magnitude with temperature and density, we find that the value at melting is nearly independent of density, equal to about . Results further show that a lattice-energy approximation (ignoring entropic effects) underestimates the correct concentration by four orders of magnitude at almost all conditions; ignoring only anharmonic contributions underestimates the vacancy concentration at melting by nearly one order of magnitude.
DOI: 10.6084/m9.figshare.6449756
title: arXiv publications dataset with simulated citation relationships

description: <b>arXiv publications dataset with simulated citation relationships</b><br>https://github.com/jacekmiecznikowski/neo4index App evaluates scientific reasearch impact using author-level metrics (h-index and more)<br>This collection contains data aquired from arXiv.org via OAI2 protocol.arXiv does not provide citations metadata so this data was pseudo-randomly simulated.We evaluated scientific reasearch impact using six popular author-level metrics:* h-index,* m quotient,* e-index,* m-index,* r-index,* ar-index.<br><b>Source</b>https://arxiv.org/help/bulk_data (downloaded: 2018-03-23; over 1.3 million publications)<br><b>Files</b>* arxiv_bulk_metadata_2018-03-23.tar.gz - file downloaded using <i>oai-harvester</i> contains metadata of all arXiv publications to date.* categories.csv - file contains categories from arXiv with category-subcategory division* publications.csv - file contains information about articles like: id, title, abstract, url, categories and date* authors.csv - file contains authors data like first name, last name and id of published article* citations.csv - file contains simulated relationships between all publications using <i>arxivCite</i>* indices.csv - file contains 6 author-level metrics calculated on database using <i>neo4index</i><br><b>Statistics</b>h-index Average = 3.5836524733724495m quotient Average = 0.5831426366846965e-index Average = 7.9260187734579075m-index Average = 29.436844659143155r-index Average = 8.931101630575293ar-index Average = 3.5439082808721025h-index Median = 1.0m quotient Median = 0.4167e-index Median = 5.3852m-index Median = 17.0r-index Median = 5.831ar-index Median = 2.7928h-index Mode = 1.0m quotient Mode = 1.0e-index Mode = 0.0m-index Mode = 0.0r-index Mode = 0.0ar-index Mode = 0.0