cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5519098.v1
title: Tables of Results Monte Carlo Studies 1 & 2 from Miočević, Levy, & MacKinnon (under review)

description: This document contains tables of results from the Monte Carlo studies examining the statistical properties of Bayesian point and interval summaries of the indirect effect in a latent variable single mediator model. The Monte Carlo studies are described in detail in the manuscript by Miočević, Levy, and MacKinnon (under review).<br>
DOI: 10.6084/m9.figshare.5519038
title: SNP dataset for M. truncatula HapMap collection

description: SNP database files generated using SNPmatch for Medicago truncatula HapMap collection.
DOI: 10.6084/m9.figshare.5519044
title: Additional datasets from 'Do ampharetids take sedimented steps between vents and seeps? Phylogeny and habitat use of Ampharetidae (Annelida, Terebelliformia) in chemosynthesis-based ecosystems' BMC Evolutionary Biology

description: Geographic coordinates of records of Ampharetids in chemosynthesis-based ecosystems.<br>Concatenated alignments of COI, 16S, 28S and 18S for the complete dataset and Clade A and C separately.
DOI: 10.6084/m9.figshare.5519044.v1
title: Additional datasets from 'Do ampharetids take sedimented steps between vents and seeps? Phylogeny and habitat use of Ampharetidae (Annelida, Terebelliformia) in chemosynthesis-based ecosystems' BMC Evolutionary Biology

description: Geographic coordinates of records of Ampharetids in chemosynthesis-based ecosystems.<br>Concatenated alignments of COI, 16S, 28S and 18S for the complete dataset and Clade A and C separately.
DOI: 10.6084/m9.figshare.5519038.v1
title: SNP dataset for M. truncatula HapMap collection

description: SNP database files generated using SNPmatch for Medicago truncatula HapMap collection.
DOI: 10.6084/m9.figshare.5518996
title: sleep dataset.zip

description: This is a dual-mode sleep video database. Please cite the following paper if you wish to use our dataset: Hu M, Zhai G, Li D, et al. Combination of near-infrared and thermal imaging techniques for the remote and simultaneous measurements of breathing and heart rates under sleep situation[J]. PloS one, 2018, 13(1): e0190466.If you have any questions, you can send a request to: humenghan89@163.com
DOI: 10.6084/m9.figshare.5518963
title: Dataset for: Subtype specific effects of dopaminergic D2 receptor activation on synaptic trains in layer V pyramidal neurons in the mouse prefrontal cortex

description: In humans, prefrontal cortical areas are known to support executive functions. In mice, these functions are mediated by homologous regions in the medial prefrontal cortex (mPFC). Executive processes are critically dependent on optimal levels of dopamine (DA), but the cellular mechanisms of DA modulation are incompletely understood. Stable patterns of neuronal activity may be sensitive to frequency dependent changes in synaptic transmission. We characterized the effects of D2 receptor (D2R) activation on short-term excitatory postsynaptic potential (EPSP) dynamics evoked at varying frequencies in the two subtypes of layer V pyramidal neurons in mouse mPFC. We isolated NMDA receptor and non-NMDA receptor mediated components of EPSP trains evoked by stimulating fibers within layer V or layer I. All significant effects of D2 receptor activation were confined to type I (corticopontine) cells. First, we found that with layer I stimulation, D2R activation reduces the amplitude of NMDAR-mediated EPSP’s, with no effect on facilitation or depression of these responses at lower frequencies, but leading to facilitation with high frequency stimulation. Further, the non-NMDA component also underwent synaptic depression at low frequencies. Second, with layer V stimulation, D2R activation had no effect on NMDA or non-NMDA receptor mediated EPSP components. Overall, our results suggest that D2R activation may modulate memory functions by inhibiting ‘top-down’ influences from apical tuft inputs activated at low frequencies, while promoting ‘top-down’ influences from inputs activated at higher frequencies. These data provide further insight into mechanisms of dopamine’s modulation of executive functions.
DOI: 10.6084/m9.figshare.5518963.v1
title: Dataset for: Subtype specific effects of dopaminergic D2 receptor activation on synaptic trains in layer V pyramidal neurons in the mouse prefrontal cortex

description: In humans, prefrontal cortical areas are known to support executive functions. In mice, these functions are mediated by homologous regions in the medial prefrontal cortex (mPFC). Executive processes are critically dependent on optimal levels of dopamine (DA), but the cellular mechanisms of DA modulation are incompletely understood. Stable patterns of neuronal activity may be sensitive to frequency dependent changes in synaptic transmission. We characterized the effects of D2 receptor (D2R) activation on short-term excitatory postsynaptic potential (EPSP) dynamics evoked at varying frequencies in the two subtypes of layer V pyramidal neurons in mouse mPFC. We isolated NMDA receptor and non-NMDA receptor mediated components of EPSP trains evoked by stimulating fibers within layer V or layer I. All significant effects of D2 receptor activation were confined to type I (corticopontine) cells. First, we found that with layer I stimulation, D2R activation reduces the amplitude of NMDAR-mediated EPSP’s, with no effect on facilitation or depression of these responses at lower frequencies, but leading to facilitation with high frequency stimulation. Further, the non-NMDA component also underwent synaptic depression at low frequencies. Second, with layer V stimulation, D2R activation had no effect on NMDA or non-NMDA receptor mediated EPSP components. Overall, our results suggest that D2R activation may modulate memory functions by inhibiting ‘top-down’ influences from apical tuft inputs activated at low frequencies, while promoting ‘top-down’ influences from inputs activated at higher frequencies. These data provide further insight into mechanisms of dopamine’s modulation of executive functions.
DOI: 10.6084/m9.figshare.5518897
title: results.JNB

description: original experimental data
DOI: 10.6084/m9.figshare.5518825
title: Cytokine and Clinical Data.xls

description: Plasma Cytokine concentrations during an acute malaria episode and clinical data from a small nested sub-study of children in Nagongera, Uganda. Comparisons across age and by parasite density. <br>
DOI: 10.6084/m9.figshare.5518897.v1
title: results.JNB

description: original experimental data
DOI: 10.6084/m9.figshare.5518777
title: Genomic Analysis Reveals Genetic Distinctiveness of the Paiute Cutthroat Trout <i>Oncorhynchus clarkii seleniris</i>

description: The Paiute Cutthroat Trout (PCT) <i>Oncorhynchus clarkii seleniris</i> is classified as a subspecies within the greater Cutthroat Trout <i>O. clarkii</i> ssp. complex and is federally listed as threatened under the Endangered Species Act. However, genetic studies to date have revealed very little genetic differentiation between the PCT and its closest relative, the Lahontan Cutthroat Trout (LCT) <i>O. clarkii henshawi</i>. These results casted doubt on whether the PCT is a genetically distinct subspecies or merely a phenotypic variant of the LCT. Here, we present a genomic analysis of Cutthroat Trout subspecies and populations to resolve the genetic and phylogenetic relationship between PCT and LCT. Our results demonstrate substantial genetic structure and differentiation between PCT and LCT populations. In contrast to current thinking, our phylogenetic reconstructions show the PCT to be a distinct evolutionary lineage that diverged from LCT before the LCT differentiated into its current populations (i.e., rather than PCT divergence due to geographic isolation from an LCT population in the Carson River). We conclude that the PCT is genetically distinct from the LCT. Received May 3, 2017; accepted July 12, 2017Published online October 19, 2017
DOI: 10.6084/m9.figshare.5518777.v1
title: Genomic Analysis Reveals Genetic Distinctiveness of the Paiute Cutthroat Trout <i>Oncorhynchus clarkii seleniris</i>

description: The Paiute Cutthroat Trout (PCT) <i>Oncorhynchus clarkii seleniris</i> is classified as a subspecies within the greater Cutthroat Trout <i>O. clarkii</i> ssp. complex and is federally listed as threatened under the Endangered Species Act. However, genetic studies to date have revealed very little genetic differentiation between the PCT and its closest relative, the Lahontan Cutthroat Trout (LCT) <i>O. clarkii henshawi</i>. These results casted doubt on whether the PCT is a genetically distinct subspecies or merely a phenotypic variant of the LCT. Here, we present a genomic analysis of Cutthroat Trout subspecies and populations to resolve the genetic and phylogenetic relationship between PCT and LCT. Our results demonstrate substantial genetic structure and differentiation between PCT and LCT populations. In contrast to current thinking, our phylogenetic reconstructions show the PCT to be a distinct evolutionary lineage that diverged from LCT before the LCT differentiated into its current populations (i.e., rather than PCT divergence due to geographic isolation from an LCT population in the Carson River). We conclude that the PCT is genetically distinct from the LCT. Received May 3, 2017; accepted July 12, 2017Published online October 19, 2017
DOI: 10.6084/m9.figshare.5517013
title: Data from: Arbuscular mycorrhizal fungi as mediators of ecosystem responses to nitrogen deposition: a trait-based predictive framework

description: Data from Journal of Ecology article by:KK TresederEB AllenLM Egerton-WarburtonMM HartJN KlironomosH MaheraliL Tedersoo
DOI: 10.25377/sussex.5515045
title: Research data for research paper: Precise positioning of an ion in an integrated Paul trap-cavity system using radio frequency signals

description: The data provided is the data used in 11 of the figures in the research paper. Each sheet in the spreadsheet is labelled by the figure label they correspond to in the research paper.<br><b>Abstract from research paper:</b>We report a novel miniature Paul ion trap design with an integrated optical fibre cavity which can serve as a building block for a fibre-linked quantum network. In such cavity quantum electrodynamic set-ups, the optimal coupling of the ions to the cavity mode is of vital importance and this is achieved by moving the ion relative to the cavity mode. The trap presented herein features an endcap-style design complemented with extra electrodes on which additional radiofrequency voltages are applied to fully control the pseudopotential minimum in three dimensions. This method lifts the need to use three-dimensional translation stages for moving the fibre cavity with respect to the ion and achieves high integrability, mechanical rigidity and scalability. Not based on modifying the capacitive load of the trap, this method leads to precise control of the pseudopotential minimum allowing the ion to be moved with precisions limited only by the ion's position spread. We demonstrate this by coupling the ion to the fibre cavity and probing the cavity mode profile.
DOI: 10.25377/sussex.5515045.v1
title: Research data for research paper: Precise positioning of an ion in an integrated Paul trap-cavity system using radio frequency signals

description: The data provided is the data used in 11 of the figures in the research paper. Each sheet in the spreadsheet is labelled by the figure label they correspond to in the research paper.<br><b>Abstract from research paper:</b>We report a novel miniature Paul ion trap design with an integrated optical fibre cavity which can serve as a building block for a fibre-linked quantum network. In such cavity quantum electrodynamic set-ups, the optimal coupling of the ions to the cavity mode is of vital importance and this is achieved by moving the ion relative to the cavity mode. The trap presented herein features an endcap-style design complemented with extra electrodes on which additional radiofrequency voltages are applied to fully control the pseudopotential minimum in three dimensions. This method lifts the need to use three-dimensional translation stages for moving the fibre cavity with respect to the ion and achieves high integrability, mechanical rigidity and scalability. Not based on modifying the capacitive load of the trap, this method leads to precise control of the pseudopotential minimum allowing the ion to be moved with precisions limited only by the ion's position spread. We demonstrate this by coupling the ion to the fibre cavity and probing the cavity mode profile.
DOI: 10.6084/m9.figshare.5515042
title: DMNH #35822

description: Fossil Lauraceae (CR 20) from Castle Rock
DOI: 10.6084/m9.figshare.5517013.v1
title: Data from: Arbuscular mycorrhizal fungi as mediators of ecosystem responses to nitrogen deposition: a trait-based predictive framework

description: Data from Journal of Ecology article by:KK TresederEB AllenLM Egerton-WarburtonMM HartJN KlironomosH MaheraliL Tedersoo
DOI: 10.6084/m9.figshare.5515009
title: DMNH #26267

description: Fossil Sassafras (CR 10) from Castle Rock
DOI: 10.6084/m9.figshare.5515015
title: DMNH #35760

description: Fossil Sassafras (CR 10) from Castle Rock
DOI: 10.6084/m9.figshare.5515006
title: DMNH #26263

description: Fossil Sassafras (CR 10) from Castle Rock
DOI: 10.6084/m9.figshare.5515042.v1
title: DMNH #35822

description: Fossil Lauraceae (CR 20) from Castle Rock
DOI: 10.6084/m9.figshare.5515000
title: DMNH #22455

description: Fossil Sassafras (CR 10) from Castle Rock
DOI: 10.6084/m9.figshare.5515006.v1
title: DMNH #26263

description: Fossil Sassafras (CR 10) from Castle Rock
DOI: 10.6084/m9.figshare.5515015.v1
title: DMNH #35760

description: Fossil Sassafras (CR 10) from Castle Rock
DOI: 10.6084/m9.figshare.5514961
title: Stochastic Zika Epidemic Trajectories

description: RDS files of the stochastic simulation outputs based on the Gao et al. compartment model. Includes files for Carlson, Messina, Samy, the six alternative Mordecai realizations, and the two Majority Rule consensus models. Also includes the original shapefile with 3108 rows (continental US counties) and 22 columns (2016 Population Estimates and Zika transmission suitability according to each alternative model). Finally, a .zip file containing four R code files, each covering a different set of models.
DOI: 10.6084/m9.figshare.5514994
title: Figures and images

description: Figures and images
DOI: 10.6084/m9.figshare.5515000.v1
title: DMNH #22455

description: Fossil Sassafras (CR 10) from Castle Rock
DOI: 10.6084/m9.figshare.5514883
title: Designer flows to resolve human and environmental water needs in a dam-regulated river

description: Data from:<br><br>Designer flows to resolve human and environmental water needs in a dam-regulated river<br><br>William Chen and Julian D. Olden<br>Nature Communications (in press)<br><br><br><br><br><br> <br>
DOI: 10.6084/m9.figshare.5514994.v1
title: Figure 5

description: Figures and images
DOI: 10.21954/ou.rd.5514877
title: Death and Dying Seminar: How talking about death makes life better (February 2017)

description: Seminar presentation by Emma Curtis (independent celebrant and founder of Extraordinary Ceremonies) about how talking about death can help prepare for death and help the bereaved.This seminar was delivered on 21st Febrary 2017 as part of the OU Death and Dying Seminar series.
DOI: 10.6084/m9.figshare.5514883.v2
title: Designer flows to resolve human and environmental water needs in a dam-regulated river

description: Data from:<br><br>Designer flows to resolve human and environmental water needs in a dam-regulated river<br><br>William Chen and Julian D. Olden<br>Nature Communications (in press)<br><br><br><br><br><br> <br>
DOI: 10.6084/m9.figshare.5514994.v2
title: Figures and imagessupplemental materials

description: Figures and images
DOI: 10.6084/m9.figshare.5514883.v1
title: Chen&Olden_2018.xlsx

description: Data from:<br><br>Designer flows to resolve human and environmental water needs in a dam-regulated river<br><br>William Chen and Julian D. Olden<br>Nature Communications (in press)<br><br><br><br><br> <br>
DOI: 10.6084/m9.figshare.5514994.v4
title: Figures and images

description: Figures and images
DOI: 10.6084/m9.figshare.5514994.v3
title: Figures and imagessupplemental materials

description: Figures and images
DOI: 10.21954/ou.rd.5514748
title: Death and Dying Seminar: Pet death, owner wellbeing: theoretical issues, personhood, grief and wellbeing (February 2017)

description: Seminar presentation by Professor Douglas Davies (Durham University) about research on death of pets and owners' grief and wellbeing.This seminar was given on 21st February 2017 as part of the OU Death and Dying Seminar Series.
DOI: 10.21954/ou.rd.5514733
title: Death and Dying Seminar: Palliative care in New Zealand (August 2017)

description: Seminar delivered by Merryn Gott (University of Auckland). After a quick introduction to New Zealand and its cultural context, Merryn delivers a fascinating insight into recent research activities by Te Arai: the Palliative Care and End of Life Care Research Group based at The University of Auckland. This seminar was delivered on 15th August 2017 as part of the OU Death and Dying Seminar Series.
DOI: 10.21954/ou.rd.5514535
title: Death and Dying Seminar: Death and the moving image: ideology, iconography and I (closed version) (July 2017)

description: Michele Aaron (University of Birmingham) presents an interactive seminar exploring how death has been portrayed in cinema, and how the ethical and aesthetic potential of film can effect social, political or personal change.Seminar delivered on 18th July 2017 as part of the OU Death and Dying Seminar Series.
DOI: 10.21954/ou.rd.5514493
title: Death and Dying Seminar: Death and the moving image: ideology, iconography and I (July 2017)

description: Michele Aaron (University of Birmingham) presents an interactive seminar exploring how death has been portrayed in cinema, and how the ethical and aesthetic potential of film can effect social, political or personal change.This seminar was delivered on 18th July 2017 as part of the OU Death and Dying seminar series.
DOI: 10.6084/m9.figshare.5514466
title: Nutrient data for seaweeds

description: These seaweeds represent a subset reported from Demko, A. M., C. D. Amsler, M. E. Hay, J. D. Long, J. B. McClintock, V. J. Paul, and E. E. Sotka. 2017. Declines in plant palatability from polar to tropical latitudes depend on herbivore and plant identity. Ecology 98:2312–2321.
DOI: 10.6084/m9.figshare.5514466.v1
title: Nutrient data for seaweeds

description: These seaweeds represent a subset reported from Demko, A. M., C. D. Amsler, M. E. Hay, J. D. Long, J. B. McClintock, V. J. Paul, and E. E. Sotka. 2017. Declines in plant palatability from polar to tropical latitudes depend on herbivore and plant identity. Ecology 98:2312–2321.
DOI: 10.6084/m9.figshare.5514403
title: SNP dataset for A. thaliana 1001 Genomes project

description: SNP database files generated using SNPmatch from published 1001 genomes SNPs
DOI: 10.6084/m9.figshare.5514385
title: SNP dataset for A. thaliana RegMap panel

description: Biallelic SNP database files used in SNPmatch for RegMap panel of Arabidopsis thaliana
DOI: 10.6084/m9.figshare.5514385.v1
title: SNP dataset for A. thaliana RegMap panel

description: Biallelic SNP database files used in SNPmatch for RegMap panel of Arabidopsis thaliana
DOI: 10.17045/sthlmuni.5514127.v1
title: Data from: Land uplift creates important meadow habitat and a potential original niche for grassland species

description: This is the dataset for the article "Land uplift creates important meadow habitat and a potential original niche for grassland species" by Auffret & Cousins.<br><br>The data presented include:<br>1. A land uplift model showing the century of land emergence since 2000BC for all land, and two definitions of potential meadow grassland in the regions of Uppland and Södertörn in central Sweden.<br><br>2. The observations of plant species on 20 coastal meadow grasslands in central Sweden in 2012. <br><br>3. Species richness and the number of red-listed plant species in coastal areas of the province of Södermanland from the regional plant atlas, along with selected landscape variables.<br><br>More detailed information is available in the readme file, as well as the original publication.<br><br>Please feel free to get in touch.
DOI: 10.21954/ou.rd.5514082
title: Quantified Self Privacy Heuristics v1

description: Privacy Heuristics for Quantifield Self and mHealth app evaluation.
DOI: 10.6084/m9.figshare.5514112
title: Supplementary Material for: Discrepancies between Perceived and Measured Cognition in Kidney Transplant Recipients: Implications for Clinical Management

description: <b><i>Background:</i></b> Cognitive impairment is common in kidney transplant (KT) recipients and affects quality of life, graft survival, morbidity, and mortality. Failure to identify patients with cognitive impairment can withhold appropriate and timely intervention. This study determines whether measured cognition with standard screening tools offers any advantage over perceived cognition in screening transplant patients for cognitive impairment. <b><i>Methods:</i></b> Cognition was assessed in 157 KT recipients using the Montreal Cognitive Assessment (MoCA; measured cognition). In addition, transplant physicians and nurse coordinators were asked to rate transplant recipients' level of cognition after routine clinical interactions (perceived cognition). Physicians and nurses were blind to MoCA scores. Perceived cognition scores were compared to MoCA scores. <b><i>Results:</i></b> Perceived cognition scores fairly correlated with MOCA scores (γ = 0.24, <i>p</i> = 0.001 for physicians and γ = 0.33, <i>p</i> &lt; 0.0001 for nurses). Physician scores moderately correlated with nurses scores (κ = 0.44, <i>p</i> &lt; 0.0001). Clinical perception had a low accuracy for identifying patients with cognitive impairment (sensitivity 66% for physicians, 65% for nurses), and those without cognitive impairment (specificity 67% for physicians, 76% for nurses). <b><i>Conclusion:</i></b> Clinical perception is inaccurate at detecting cognitive impairment in KT recipients. Objective tests should be considered to screen KT recipients for cognitive impairment.
DOI: 10.6084/m9.figshare.5514037
title: Supplementary Material for: Expression of Angiogenic and Inflammatory Factors in Choroidal Neovascularisation-Derived Retinal Pigment Epithelium

description: <b><i>Purpose:</i></b> Anti-angiogenic treatment is well established in the management of exudative age-related macular degeneration (AMD), but not sufficient in all patients. The characterisation of factors driving this chronic disease could serve to identify additional treatment options. The purpose of this study was to assess gene expression patterns and distinct changes in cells derived from surgically extracted choroidal neovascularisation (CNV) membranes. <b><i>Materials and Methods:</i></b> The expression of &gt;11,000 genes was analysed by means of a microarray in cells cultured from 2 late-stage CNV membranes compared to primary human retinal pigment epithelium (RPE) and ARPE-19 cells. A pathway analysis was performed to identify gene expression patterns associated with exudative AMD. <b><i>Results:</i></b> The analysis revealed significant alterations in gene sets associated with inflammatory processes in CNV-derived cells, involving the upregulation of pro-inflammatory factors IL6, C3, and C5, and downregulation of anti-inflammatory complement factor B and complement factor I. Factors associated with angiogenesis, such as VEGFA or ANGPT2, were not significantly regulated in the 2 RPE-derived cell lines. <b><i>Conclusion:</i></b> In late-stage CNV membrane-derived RPE, gene expression was shifted towards a pro-inflammatory state. Angiogenesis-associated factors were regulated differently in the 2 CNV-derived RPE membranes. While inflammation seems to be continuously stimulated by RPE associated with late exudative AMD, this appears not to be the case with regard to angioregulatory mechanisms.