cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5727090.v4
title: Timelapse 8 - Maximum intensity projections - bleach corrected

description: See accompanying word documents
DOI: 10.6084/m9.figshare.5727090.v3
title: Timelapse 8 - Maximum intensity projections - bleach corrected

description: See accompanying word documents
DOI: 10.6084/m9.figshare.5727086
title: Supplementary Table

description: Supplementary Table 1<br>
DOI: 10.6084/m9.figshare.5727084
title: Building and Sustaining a Grassroots Library Organization: A Three Year Retrospective of Library Pipeline

description: This article is an overview of Library Pipeline, a grassroots library organization dedicated to supporting structural changes by providing opportunities, funding, and services that improve the library as an institution and librarianship as a profession.
DOI: 10.6084/m9.figshare.5727080
title: A Repelling–Attracting Metropolis Algorithm for Multimodality

description: Although the Metropolis algorithm is simple to implement, it often has difficulties exploring multimodal distributions. We propose the repelling–attracting Metropolis (RAM) algorithm that maintains the simple-to-implement nature of the Metropolis algorithm, but is more likely to jump between modes. The RAM algorithm is a Metropolis-Hastings algorithm with a proposal that consists of a downhill move in density that aims to make local modes repelling, followed by an uphill move in density that aims to make local modes attracting. The downhill move is achieved via a reciprocal Metropolis ratio so that the algorithm prefers downward movement. The uphill move does the opposite using the standard Metropolis ratio which prefers upward movement. This down-up movement in density increases the probability of a proposed move to a different mode. Because the acceptance probability of the proposal involves a ratio of intractable integrals, we introduce an auxiliary variable which creates a term in the acceptance probability that cancels with the intractable ratio. Using several examples, we demonstrate the potential for the RAM algorithm to explore a multimodal distribution more efficiently than a Metropolis algorithm and with less tuning than is commonly required by tempering-based methods. Supplementary materials are available online.
DOI: 10.6084/m9.figshare.5727080.v2
title: A Repelling–Attracting Metropolis Algorithm for Multimodality

description: Although the Metropolis algorithm is simple to implement, it often has difficulties exploring multimodal distributions. We propose the repelling–attracting Metropolis (RAM) algorithm that maintains the simple-to-implement nature of the Metropolis algorithm, but is more likely to jump between modes. The RAM algorithm is a Metropolis-Hastings algorithm with a proposal that consists of a downhill move in density that aims to make local modes repelling, followed by an uphill move in density that aims to make local modes attracting. The downhill move is achieved via a reciprocal Metropolis ratio so that the algorithm prefers downward movement. The uphill move does the opposite using the standard Metropolis ratio which prefers upward movement. This down-up movement in density increases the probability of a proposed move to a different mode. Because the acceptance probability of the proposal involves a ratio of intractable integrals, we introduce an auxiliary variable which creates a term in the acceptance probability that cancels with the intractable ratio. Using several examples, we demonstrate the potential for the RAM algorithm to explore a multimodal distribution more efficiently than a Metropolis algorithm and with less tuning than is commonly required by tempering-based methods. Supplementary materials are available online.
DOI: 10.6084/m9.figshare.5727080.v1
title: A Repelling-Attracting Metropolis Algorithm for Multimodality

description: Although the Metropolis algorithm is simple to implement, it often has difficulties exploring multimodal distributions. We propose the repelling-attracting Metropolis (RAM) algorithm that maintains the simple-to-implement nature of the Metropolis algorithm, but is more likely to jump between modes. The RAM algorithm is a Metropolis-Hastings algorithm with a proposal that consists of a downhill move in density that aims to make local modes repelling, followed by an uphill move in density that aims to make local modes attracting. The downhill move is achieved via a reciprocal Metropolis ratio so that the algorithm prefers downward movement. The uphill move does the opposite using the standard Metropolis ratio which prefers upward movement. This down-up movement in density increases the probability of a proposed move to a different mode. Because the acceptance probability of the proposal involves a ratio of intractable integrals, we introduce an auxiliary variable which creates a term in the acceptance probability that cancels with the intractable ratio. Using several examples, we demonstrate the potential for the RAM algorithm to explore a multimodal distribution more efficiently than a Metropolis algorithm and with less tuning than is commonly required by tempering-based methods. Supplementary materials are available online.
DOI: 10.6084/m9.figshare.5727076
title: Understanding the Risk-Return Relation: The Aggregate Wealth Proxy Actually Matters

description: The ICAPM implies that the market’s conditional expected return is proportional to its conditional variance and that the reward-to-risk ratio equals the representative investor’s coefficient of relative risk aversion. Prior studies examine this relation using the stock market to proxy for aggregate wealth and find mixed results. We show, however, that stock-based tests suffer from low power and lead to biased estimates of the risk-return tradeoff when stocks are an imperfect market proxy. Tests designed to mitigate this bias by incorporating a more comprehensive measure of aggregate wealth produce large, positive estimates of the risk-aversion coefficient around seven to nine. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5727076.v1
title: Understanding the Risk-Return Relation: The Aggregate Wealth Proxy Actually Matters

description: The ICAPM implies that the market’s conditional expected return is proportional to its conditional variance and that the reward-to-risk ratio equals the representative investor’s coefficient of relative risk aversion. Prior studies examine this relation using the stock market to proxy for aggregate wealth and find mixed results. We show, however, that stock-based tests suffer from low power and lead to biased estimates of the risk-return tradeoff when stocks are an imperfect market proxy. Tests designed to mitigate this bias by incorporating a more comprehensive measure of aggregate wealth produce large, positive estimates of the risk-aversion coefficient around seven to nine. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5727074
title: Archivo de Prueba para el curso

description: es un archivo subido para probar como funciona la plataforma<br>
DOI: 10.6084/m9.figshare.5727074.v1
title: Archivo de Prueba para el curso

description: es un archivo subido para probar como funciona la plataforma<br>
DOI: 10.6084/m9.figshare.5727073
title: OpenML R Bot Benchmark Data

description: This is the data that was created by the OpenML R Bot that executed benchmark experiments on the dataset collection OpenML100 with six R algorithms: glmnet, rpart, kknn, <br>svm, ranger and xgboost. The hyperparameters of these algorithms were drawn randomly. In total it contains more than 5 million benchmark experiments and can be used by other researchers. <br><br>Each file is a table that for each benchmark experiment contains: OpenML-Task ID, hyperparameter values, performance masures (AUC, accuracy, brier score), runtime, scimark (runtime reference of the machine), and some meta features of the dataset.<br>
DOI: 10.6084/m9.figshare.5727073.v1
title: OpenML R Bot Benchmark Data

description: This is the data that was created by the OpenML R Bot that executed benchmark experiments on the dataset collection OpenML100 with six R algorithms: glmnet, rpart, kknn, <br>svm, ranger and xgboost. The hyperparameters of these algorithms were drawn randomly. In total it contains more than 5 million benchmark experiments and can be used by other researchers. <br><br>Each file is a table that for each benchmark experiment contains: OpenML-Task ID, hyperparameter values, performance masures (AUC, accuracy, brier score), runtime, scimark (runtime reference of the machine), and some meta features of the dataset.<br>
DOI: 10.6084/m9.figshare.5727066
title: Timelapse 8 - Maximum intensity projections

description: See accompanying word documents
DOI: 10.6084/m9.figshare.5727066.v1
title: Timelapse 8 - Maximum intensity projections

description: See accompanying word documents
DOI: 10.6084/m9.figshare.5727062
title: Towards a National Professional Development Recognition Framework for All Staff Who Teach in Higher Education

description: The National Professional DevelopmentFramework (PDF) for All Staff Who Teachin Higher Education was published inmid-2016. Since then, the National Forumprofessional development expert group has been considering the structure and functioning of an associated Professional Development Recognition Framework (PDRF). This Forum Insight sets out a proposed vision for the national PDRF and poses questions that need to be considered by those with and for whom the recognition framework has been designed. The proposed model for the PDRF has been informed by a review of international models of PDRFs, sectoral consultation and the contributions of all those involved in the initial implementation of the PDF.
DOI: 10.6084/m9.figshare.5727061
title: Supplementary Material for: Experimental Inhibition of Periostin Attenuates Kidney Fibrosis

description: <b><i>Background:</i></b> Periostin is responsible for tissue regeneration, fibrosis, and wound healing via its interaction with integrin. Recently, the role of periostin has been shown to contribute to fibrosis in chronic kidney disease. We investigated the role of periostin and the effect of periostin blockade in renal fibrogenesis. <b><i>Methods:</i></b> We investigated the function of periostin in vivo in wild-type and periostin-null mice (Postn-KO) in a unilateral ureteral obstruction (UUO) model. For the in vitro experiments, primary cultured inner medullary collecting duct cells from the wild-type and Postn-KO mice were used. <b><i>Results:</i></b> Periostin expression was strongly induced by UUO in the wild-type mice. UUO induced renal fibrosis and morphological changes in the obstructed kidney of wild-type mice, whereas global knockout of periostin reduced fibrosis induced by UUO and improved kidney structure. Fibrosis- and inflammation-related mRNA were significantly induced in the wild-type mice and were decreased in the Postn-KO mice. Additionally, α-smooth muscle actin expression was increased following the administration of recombinant periostin in vitro. The effect of periostin blockade was examined using 2 methods. The integrin blockade peptide decreased fibrosis-related gene expression in in vitro experiments. Anti-periostin polyclonal antibody attenuated renal fibrosis induced by UUO through changes in transforming growth factor-β signaling and the inflammatory and apoptotic pathways. <b><i>Conclusion:</i></b> Periostin is a marker of renal fibrosis and may augment the progression of fibrogenesis as an extracellular matrix protein. Periostin blockade effectively attenuated renal fibrogenesis. Thus, periostin inhibition may be a therapeutic strategy for the amelioration of renal disease progression.
DOI: 10.6084/m9.figshare.5727061.v1
title: Supplementary Material for: Experimental Inhibition of Periostin Attenuates Kidney Fibrosis

description: <b><i>Background:</i></b> Periostin is responsible for tissue regeneration, fibrosis, and wound healing via its interaction with integrin. Recently, the role of periostin has been shown to contribute to fibrosis in chronic kidney disease. We investigated the role of periostin and the effect of periostin blockade in renal fibrogenesis. <b><i>Methods:</i></b> We investigated the function of periostin in vivo in wild-type and periostin-null mice (Postn-KO) in a unilateral ureteral obstruction (UUO) model. For the in vitro experiments, primary cultured inner medullary collecting duct cells from the wild-type and Postn-KO mice were used. <b><i>Results:</i></b> Periostin expression was strongly induced by UUO in the wild-type mice. UUO induced renal fibrosis and morphological changes in the obstructed kidney of wild-type mice, whereas global knockout of periostin reduced fibrosis induced by UUO and improved kidney structure. Fibrosis- and inflammation-related mRNA were significantly induced in the wild-type mice and were decreased in the Postn-KO mice. Additionally, α-smooth muscle actin expression was increased following the administration of recombinant periostin in vitro. The effect of periostin blockade was examined using 2 methods. The integrin blockade peptide decreased fibrosis-related gene expression in in vitro experiments. Anti-periostin polyclonal antibody attenuated renal fibrosis induced by UUO through changes in transforming growth factor-β signaling and the inflammatory and apoptotic pathways. <b><i>Conclusion:</i></b> Periostin is a marker of renal fibrosis and may augment the progression of fibrogenesis as an extracellular matrix protein. Periostin blockade effectively attenuated renal fibrogenesis. Thus, periostin inhibition may be a therapeutic strategy for the amelioration of renal disease progression.
DOI: 10.6084/m9.figshare.5727051
title: Data from: Fundamental contradictions among observational and experimental estimates of non-trophic species interactions

description: Data to accompany Barner et al. 2018 Ecology<br><br>Please cite: Barner, AK, K Coblentz, SD Hacker, BA Menge. 2018. Fundamental contradictions among observational and experimental estimates of non-trophic species interactions. Ecology 99: 557-566.<br><br><b>Abstract</b><br>The difficulty of experimentally quantifying non-trophic species interactions has long troubled ecologists. Increasingly, a new application of the classic “checkerboard distribution” approach is used to infer interactions by examining the pairwise frequency at which species are found to spatially co-occur. However, the link between spatial associations, as estimated from observational co-occurrence, and species interactions, has not been tested. Here we used nine common statistical methods to estimate associations from surveys of rocky intertidal communities in the Northeast Pacific Ocean. We compared those inferred associations with a new dataset of experimentally-determined net and direct species interactions. Although association methods generated networks with aggregate structure similar to previously published interaction networks, each method detected a different set of species associations from the same dataset. Moreover, although association methods generally performed better than a random model, associations rarely matched empirical net or direct species interactions, with high rates of false positives and true positives, and many false negatives. Our findings cast doubt on studies that equate species co-occurrences to species interactions, and highlight a persistent, unanswered question: how do we interpret spatial patterns in communities? We suggest future research directions to unify the observational and experimental study of species interactions, and discuss the need for community standards and best practices in association analysis.<br><br><b>Files</b><br><b>environmental_variables.csv</b> - All the abiotic variables associated with surveys conducted at the 25 x 25 cm<sup>2</sup> spatial grain size (see Appendix S2: Table S1).<br><b>experimental_interactions.csv </b>- Data from the literature on species interactions among rocky intertidal taxa encountered in the community survey.<br><b>taxon_names_key.csv </b>- Key to translate among the species names found in the literature survey, the species names used in the community survey, and the numeric codes assigned for analysis.<br><b>community_survey_<i>num</i>x<i>num</i></b> - Community survey data at the 5 spatial grain sizes: 5x5, 10x10, 15x15, 20x20, and 25x25 cm<sup>2</sup>. Unknown and rare taxa are included in these data, but were removed for analysis (see Appendix S2). Taxon names are the ones recorded during the survey and are purely descriptive; the formal taxon names for these columns can be found in <i>taxon_names_key.csv</i>. <br><br>
DOI: 10.6084/m9.figshare.5727010
title: Interactive video

description: This compressed file package consists of images, javascripts and other files which are used to build a interactive video demo accessible on the Aqueti webpage: http://aqueti.tv/demos/xiaolinRoad/
DOI: 10.6084/m9.figshare.5727010.v1
title: Interactive video

description: This compressed file package consists of images, javascripts and other files which are used to build a interactive video demo accessible on the Aqueti webpage: http://aqueti.tv/demos/xiaolinRoad/
DOI: 10.6084/m9.figshare.5726980
title: Timelapse 4 - Maximum intensity projections

description: See accompanying word documents
DOI: 10.6084/m9.figshare.5726914
title: Timelapse 3 - Maximum intensity projections

description: See accompanying word documents
DOI: 10.6084/m9.figshare.5726914.v2
title: Timelapse 3 - Maximum intensity projections

description: See accompanying word documents
DOI: 10.6084/m9.figshare.5726914.v1
title: Timelapse three - Maximum intensity projections

description: See accompanying word documents
DOI: 10.6084/m9.figshare.5726902
title: The ‘suitcase hypothesis’: Can entrainment of meroplankton by eddies provide a pathway for gene flow between Madagascar and KwaZulu-Natal, South Africa?

description: Similarities in the marine fauna found off the coasts of southern Madagascar and KwaZulu-Natal Province (KZN), South Africa, led to the development of the ‘suitcase project,’ with the aim of establishing whether eddies that form off southern Madagascar may package and transport biological material across the Mozambique Channel, facilitating connectivity and gene flow. Meroplankton (larval stages of fishes and benthic invertebrates) were collected on the Madagascan shelf and along a transect through a cyclonic eddy in the Mozambique Channel. The samples were analysed using microscopy and DNA barcoding, seeking to identify species known to be common to both the southeast coast of Madagascar and the east coast of South Africa and thereby to reveal potential indicators of connectivity between these regions. The greatest zooplankton biovolume in the upper 200 m occurred on the shelf, followed by in the western part of the eddy and in the region outside the eddy to the west, and was lowest in the region outside the eddy to the east. The meroplankton were dominated by taxa of coastal origin and these were also most abundant on the shelf and in the western part of the eddy, with the lowest abundances in the region outside the eddy to the east. The findings show greater zooplankton biovolumes and larval abundances and the presence of reef-associated larval assemblages on the Madagascan shelf and along the transect through the cyclonic eddy, providing support for the suitcase hypothesis that planktonic organisms are entrained within eddies as they propagate south-westwards of the Madagascan shelf.
DOI: 10.6084/m9.figshare.5726902.v1
title: The ‘suitcase hypothesis’: Can entrainment of meroplankton by eddies provide a pathway for gene flow between Madagascar and KwaZulu-Natal, South Africa?

description: Similarities in the marine fauna found off the coasts of southern Madagascar and KwaZulu-Natal Province (KZN), South Africa, led to the development of the ‘suitcase project,’ with the aim of establishing whether eddies that form off southern Madagascar may package and transport biological material across the Mozambique Channel, facilitating connectivity and gene flow. Meroplankton (larval stages of fishes and benthic invertebrates) were collected on the Madagascan shelf and along a transect through a cyclonic eddy in the Mozambique Channel. The samples were analysed using microscopy and DNA barcoding, seeking to identify species known to be common to both the southeast coast of Madagascar and the east coast of South Africa and thereby to reveal potential indicators of connectivity between these regions. The greatest zooplankton biovolume in the upper 200 m occurred on the shelf, followed by in the western part of the eddy and in the region outside the eddy to the west, and was lowest in the region outside the eddy to the east. The meroplankton were dominated by taxa of coastal origin and these were also most abundant on the shelf and in the western part of the eddy, with the lowest abundances in the region outside the eddy to the east. The findings show greater zooplankton biovolumes and larval abundances and the presence of reef-associated larval assemblages on the Madagascan shelf and along the transect through the cyclonic eddy, providing support for the suitcase hypothesis that planktonic organisms are entrained within eddies as they propagate south-westwards of the Madagascan shelf.
DOI: 10.6084/m9.figshare.5726878
title: Initiation of breastfeeding within one hour after birth and its determinants among non-caesarean deliveries at primary and secondary health facilities: A case-observation study

description: Initiation of breastfeeding within one hour after birth and its determinants among non-caesarean deliveries at primary and secondary health facilities: A case-observation study
DOI: 10.6084/m9.figshare.5726878.v1
title: Initiation of breastfeeding within one hour after birth and its determinants among non-caesarean deliveries at primary and secondary health facilities: A case-observation study

description: Initiation of breastfeeding within one hour after birth and its determinants among non-caesarean deliveries at primary and secondary health facilities: A case-observation study
DOI: 10.6084/m9.figshare.5726854
title: A Comprehensive Technique to Predict the Size of Maintenance Issues

description: Software systems continuously evolve over time because of changes in the requirements, code refactoring, or bug fixing activities. A way to quantify the extent of a change is given by code churn, that represents the sum of added, modified and deleted lines of code by a developer to perform such a change. Previous research showed that code churn can be adopted by practitioners to perform early evaluation of defect density, presence of vulnerabilities, or to simply monitor the impact of a code change. We argue that an automated software analytics technique able to inform developers of the quantity of code churn needed to perform a maintenance issue might be useful when assessing the complexity and the possible hidden risks behind that maintenance issue (e.g., this task is critical, so it should be tested more or additional resources are needed).In this paper, we present a novel code churn prediction model, that uses a mix of product, process, and developer-related factors never used in this context to output a nominal value indicating an estimate of the category of code churn for a given maintenance issue. We employ the model in a large-scale empirical study involving 17 open-source software systems, comparing it with baselines relying on (i) only product, (ii) only process, and (iii) a combination of product and process metrics. We show that the proposed model is pretty accurate in the estima- tions reaching up to 70% of F-Measure and 80% of AUC-ROC. Furthermore, its performance is statistically better than the one of other baseline models in 88% of the cases.