cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.2068602.v1
title: A Bootstrap Metropolis-Hastings Algorithm for Bayesian Analysis of Big Data

description: Markov chain Monte Carlo (MCMC) methods have proven to be a very powerful tool for analyzing data of complex structures. However, their computer-intensive nature, which typically require a large number of iterations and a complete scan of the full dataset for each iteration, precludes their use for big data analysis. In this paper, we propose the so-called bootstrap Metropolis-Hastings (BMH) algorithm, which provides a general framework for how to tame powerful MCMC methods to be used for big data analysis; that is to replace the full data log-likelihood by a Monte Carlo average of the log-likelihoods that are calculated in parallel from multiple bootstrap samples. The BMH algorithm possesses an embarrassingly parallel structure and avoids repeated scans of the full dataset in iterations, and is thus feasible for big data problems. Compared to the popular divide-and-combine method, BMH can be generally more efficient as it can asymptotically integrate the whole data information into a single simulation run. The BMH algorithm is very flexible. Like the Metropolis-Hastings algorithm, it can serve as a basic building block for developing advanced MCMC algorithms that are feasible for big data problems. This is illustrated in the paper by the tempering BMH algorithm, which can be viewed as a combination of parallel tempering and the BMH algorithm. BMH can also be used for model selection and optimization by combining with reversible jump MCMC and simulated annealing, respectively.
DOI: 10.6084/m9.figshare.2068548
title: Rejoinder

description: Rejoinder
DOI: 10.6084/m9.figshare.2068563.v1
title: Raphael's <i>Acts of the Apostles</i> Tapestries for Leo X: Sight, Sound, and Space in the Sistine Chapel

description: The Sistine Chapel in the Vatican was the intended site for tapestries depicting the lives of Saints Peter and Paul that were commissioned in 1515 by Leo X, designed by Raphael in Rome, and woven in the Brussels workshop of Pieter van Aelst. The contribution these tapestries made to papal majesty has long been acknowledged, and various schemes for their hanging within the chapel have been proposed. Their effect not only on the preexisting paintings but also on the spoken and sung rituals that took place in the Sistine Chapel is significant as well.
DOI: 10.6084/m9.figshare.2068545
title: Space-filling designs for computer experiments: A review

description: Improving the quality of a product/process using a computer simulator is a much less expensive option than the real physical testing. However, simulation using computationally intensive computer models can be time consuming and, therefore, directly doing the optimization on the computer simulator can be infeasible. Experimental design and statistical modeling techniques can be used to overcome this problem. This article reviews experimental designs known as space-filling designs that are suitable for computer simulations. In the article, a special emphasis is given for a recently developed space-filling design called maximum projection design. Its advantages are illustrated using a simulation conducted for optimizing a milling process.
DOI: 10.6084/m9.figshare.2068548.v1
title: Rejoinder

description: Rejoinder
DOI: 10.6084/m9.figshare.2068536
title: Using concept maps and goal-setting to support the development of self-regulated learning in a problem-based learning curriculum

description: Problem-based learning (PBL) in medical education focuses on preparing independent learners for continuing, self-directed, professional development beyond the classroom. Skills in self-regulated learning (SRL) are important for success in PBL and ongoing professional practice. However, the development of SRL skills is often left to chance. This study presents the investigated outcomes for students when support for the development of SRL was embedded in a PBL medical curriculum. This investigation involved design, delivery and testing of SRL support, embedded into the first phase of a four-year, graduate-entry MBBS degree. The intervention included concept mapping and goal-setting activities through iterative processes of planning, monitoring and reflecting on learning. A mixed-methods approach was used to collect data from seven students to develop case studies of engagement with, and outcomes from, the SRL support. The findings indicate that students who actively engaged with support for SRL demonstrated increases in cognitive and metacognitive functioning. Students also reported a greater sense of confidence in and control over their approaches to learning in PBL. This study advances understanding about how the development of SRL can be integrated into PBL.
DOI: 10.6084/m9.figshare.2068536.v1
title: Using concept maps and goal-setting to support the development of self-regulated learning in a problem-based learning curriculum

description: Problem-based learning (PBL) in medical education focuses on preparing independent learners for continuing, self-directed, professional development beyond the classroom. Skills in self-regulated learning (SRL) are important for success in PBL and ongoing professional practice. However, the development of SRL skills is often left to chance. This study presents the investigated outcomes for students when support for the development of SRL was embedded in a PBL medical curriculum. This investigation involved design, delivery and testing of SRL support, embedded into the first phase of a four-year, graduate-entry MBBS degree. The intervention included concept mapping and goal-setting activities through iterative processes of planning, monitoring and reflecting on learning. A mixed-methods approach was used to collect data from seven students to develop case studies of engagement with, and outcomes from, the SRL support. The findings indicate that students who actively engaged with support for SRL demonstrated increases in cognitive and metacognitive functioning. Students also reported a greater sense of confidence in and control over their approaches to learning in PBL. This study advances understanding about how the development of SRL can be integrated into PBL.
DOI: 10.6084/m9.figshare.2068545.v1
title: Space-filling designs for computer experiments: A review

description: Improving the quality of a product/process using a computer simulator is a much less expensive option than the real physical testing. However, simulation using computationally intensive computer models can be time consuming and, therefore, directly doing the optimization on the computer simulator can be infeasible. Experimental design and statistical modeling techniques can be used to overcome this problem. This article reviews experimental designs known as space-filling designs that are suitable for computer simulations. In the article, a special emphasis is given for a recently developed space-filling design called maximum projection design. Its advantages are illustrated using a simulation conducted for optimizing a milling process.
DOI: 10.6084/m9.figshare.2068542
title: Histone H3K36 methylation regulates pre-mRNA splicing in <i>Saccharomyces cerevisiae</i>

description: Co-transcriptional splicing takes place in the context of a highly dynamic chromatin architecture, yet the role of chromatin restructuring in coordinating transcription with RNA splicing has not been fully resolved. To further define the contribution of histone modifications to pre-mRNA splicing in <i>Saccharomyces cerevisiae</i>, we probed a library of histone point mutants using a reporter to monitor pre-mRNA splicing. We found that mutation of H3 lysine 36 (H3K36) – a residue methylated by Set2 during transcription elongation – exhibited phenotypes similar to those of pre-mRNA splicing mutants. We identified genetic interactions between genes encoding RNA splicing factors and genes encoding the H3K36 methyltransferase Set2 and the demethylase Jhd1 as well as point mutations of H3K36 that block methylation. Consistent with the genetic interactions, deletion of <i>SET2</i>, mutations modifying the catalytic activity of Set2 or H3K36 point mutations significantly altered expression of our reporter and reduced splicing of endogenous introns. These effects were dependent on the association of Set2 with RNA polymerase II and H3K36 dimethylation. Additionally, we found that deletion of <i>SET2</i> reduces the association of the U2 and U5 snRNPs with chromatin. Thus, our study provides the first evidence that H3K36 methylation plays a role in co-transcriptional RNA splicing in yeast.
DOI: 10.6084/m9.figshare.2068530
title: Bloch_Schneider_and_Sinkjaer_2016.xlsx

description: Aggregated data for the paper:Bloch, Schneider and Sinkjær (2016) Size, accumulation and performance for research grants: examining the role of size for centres of excellence, PLOSone.
DOI: 10.6084/m9.figshare.2068542.v2
title: Histone H3K36 methylation regulates pre-mRNA splicing in <i>Saccharomyces cerevisiae</i>

description: Co-transcriptional splicing takes place in the context of a highly dynamic chromatin architecture, yet the role of chromatin restructuring in coordinating transcription with RNA splicing has not been fully resolved. To further define the contribution of histone modifications to pre-mRNA splicing in <i>Saccharomyces cerevisiae</i>, we probed a library of histone point mutants using a reporter to monitor pre-mRNA splicing. We found that mutation of H3 lysine 36 (H3K36) – a residue methylated by Set2 during transcription elongation – exhibited phenotypes similar to those of pre-mRNA splicing mutants. We identified genetic interactions between genes encoding RNA splicing factors and genes encoding the H3K36 methyltransferase Set2 and the demethylase Jhd1 as well as point mutations of H3K36 that block methylation. Consistent with the genetic interactions, deletion of <i>SET2</i>, mutations modifying the catalytic activity of Set2 or H3K36 point mutations significantly altered expression of our reporter and reduced splicing of endogenous introns. These effects were dependent on the association of Set2 with RNA polymerase II and H3K36 dimethylation. Additionally, we found that deletion of <i>SET2</i> reduces the association of the U2 and U5 snRNPs with chromatin. Thus, our study provides the first evidence that H3K36 methylation plays a role in co-transcriptional RNA splicing in yeast.
DOI: 10.6084/m9.figshare.2068521
title: Survey data of managed honey bee (Apis mellifera) colony losses in China from 2010 to 2013.

description: Survey data of managed honey bee (Apis mellifera) colony losses in China from 2010 to 2013.<br>
DOI: 10.6084/m9.figshare.2068530.v1
title: Bloch_Schneider_and_Sinkjaer_2016.xlsx

description: Aggregated data for the paper:Bloch, Schneider and Sinkjær (2016) Size, accumulation and performance for research grants: examining the role of size for centres of excellence, PLOSone.
DOI: 10.6084/m9.figshare.2068542.v1
title: Histone H3K36 methylation regulates pre-mRNA splicing in <i>Saccharomyces cerevisiae</i>

description: Co-transcriptional splicing takes place in the context of a highly dynamic chromatin architecture, yet the role of chromatin restructuring in coordinating transcription with RNA splicing has not been fully resolved. To further define the contribution of histone modifications to pre-mRNA splicing in <i>Saccharomyces cerevisiae</i>, we probed a library of histone point mutants using a reporter to monitor pre-mRNA splicing. We found that mutation of H3 lysine 36 (H3K36) – a residue methylated by Set2 during transcription elongation – exhibited phenotypes similar to those of pre-mRNA splicing mutants. We identified genetic interactions between genes encoding RNA splicing factors and genes encoding the H3K36 methyltransferase Set2 and the demethylase Jhd1 as well as point mutations of H3K36 that block methylation. Consistent with the genetic interactions, deletion of <i>SET2</i>, mutations modifying the catalytic activity of Set2 or H3K36 point mutations significantly altered expression of our reporter and reduced splicing of endogenous introns. These effects were dependent on the association of Set2 with RNA polymerase II and H3K36 dimethylation. Additionally, we found that deletion of <i>SET2</i> reduces the association of the U2 and U5 snRNPs with chromatin. Thus, our study provides the first evidence that H3K36 methylation plays a role in co-transcriptional RNA splicing in yeast.
DOI: 10.6084/m9.figshare.2068509
title: Raw data for table 1 and 2

description: Raw data was used to make table 1 and table 2
DOI: 10.6084/m9.figshare.2068515
title: All measurement data on the radial, tangential and vertical turbulent fluctuating velocity.docx

description: This file is the original data on the radial, tangential and vertical turbulent fluctuating velocity components with respect to different angular velocities of the inner cylinder. This file is also a supporting file for the paper published in PLOS One (PONE-D-15-35042R2)
DOI: 10.6084/m9.figshare.2068521.v2
title: Survey data of managed honey bee (Apis mellifera) colony losses in China from 2010 to 2013.

description: Survey data of managed honey bee (Apis mellifera) colony losses in China from 2010 to 2013.<br>
DOI: 10.6084/m9.figshare.2068521.v1
title: colony_loss.txt

description: Survey data of managed honey bee (Apis mellifera) colony losses in China from 2010 to 2013.<br>
DOI: 10.6084/m9.figshare.2068518.v1
title: Table 1 and 2.egg

description: raw data
DOI: 10.6084/m9.figshare.2068509.v1
title: Raw data for table 1 and 2

description: Raw data was used to make table 1 and table 2
DOI: 10.6084/m9.figshare.2068434
title: Geochemistry, geochronology, and tectonic setting of early Permian (~290 Ma) volcanic-hosted massive sulphide deposits of the Tasik Chini district, Peninsular Malaysia

description: The age and nature of Permian volcanism and sulphide mineralization in Malaysia are poorly understood. The Tasik Chini district is located in the Central Belt of Peninsular Malaysia and hosts the Bukit Botol and Bukit Ketaya volcanic-hosted massive sulphide (VHMS) deposits. These deposits are hosted by felsic-dominated Permian felsic volcanics that are part of a mixed volcano-sedimentary rock succession. Four mineralization zones were identified in both deposits: (1) stringer sulphide/zone; (2) massive sulphide zone; (3) barite zone; and (4) Fe-Mn and Fe-Si zones. The stringer and massive sulphides generally define the lower mineralized zones, whereas the barite, Fe-Mn, and Fe-Si layers define the stratigraphically upper mineralized zones. The main sulphide phases are pyrite, chalcopyrite, sphalerite, rare galena, and trace Sn-, Au-, and Ag-bearing minerals, with the latter two confined to the massive sulphide and barite zones. Trace and rare earth element data for the host rhyodacite-rhyolite at both deposits are consistent with formation in a volcanic arc palaeotectonic setting. In comparison, the trace element data for Triassic volcanic and intrusive rocks from the Tasik Chini area have moderate to low high field strength element (HFSE) concentrations along with transitional (Zr/Y = 4–7) to tholeiitic (Zr/Y = 2–4) affinities, but have similar magmatic arc signatures. Laser ablation inductively coupled mass spectrometry (LA-ICP-MS) U–Pb zircon dating of rhyolites from the Bukit Botol deposit yields early Permian (286 ± 4 to 292 ± 3 Ma) ages. Similarly, the zircon U–Pb age results for Bukit Ketaya rhyolites reveal early Permian (286 ± 2 to 288 ± 4 Ma) ages. The differences in geochemical and geochronological results between the early Permian host and the later Triassic volcanic and intrusive rocks are likely due to tectonic progression from a volcanic arc environment to a collisional setting.
DOI: 10.6084/m9.figshare.2068434.v1
title: Geochemistry, geochronology, and tectonic setting of early Permian (~290 Ma) volcanic-hosted massive sulphide deposits of the Tasik Chini district, Peninsular Malaysia

description: The age and nature of Permian volcanism and sulphide mineralization in Malaysia are poorly understood. The Tasik Chini district is located in the Central Belt of Peninsular Malaysia and hosts the Bukit Botol and Bukit Ketaya volcanic-hosted massive sulphide (VHMS) deposits. These deposits are hosted by felsic-dominated Permian felsic volcanics that are part of a mixed volcano-sedimentary rock succession. Four mineralization zones were identified in both deposits: (1) stringer sulphide/zone; (2) massive sulphide zone; (3) barite zone; and (4) Fe-Mn and Fe-Si zones. The stringer and massive sulphides generally define the lower mineralized zones, whereas the barite, Fe-Mn, and Fe-Si layers define the stratigraphically upper mineralized zones. The main sulphide phases are pyrite, chalcopyrite, sphalerite, rare galena, and trace Sn-, Au-, and Ag-bearing minerals, with the latter two confined to the massive sulphide and barite zones. Trace and rare earth element data for the host rhyodacite-rhyolite at both deposits are consistent with formation in a volcanic arc palaeotectonic setting. In comparison, the trace element data for Triassic volcanic and intrusive rocks from the Tasik Chini area have moderate to low high field strength element (HFSE) concentrations along with transitional (Zr/Y = 4–7) to tholeiitic (Zr/Y = 2–4) affinities, but have similar magmatic arc signatures. Laser ablation inductively coupled mass spectrometry (LA-ICP-MS) U–Pb zircon dating of rhyolites from the Bukit Botol deposit yields early Permian (286 ± 4 to 292 ± 3 Ma) ages. Similarly, the zircon U–Pb age results for Bukit Ketaya rhyolites reveal early Permian (286 ± 2 to 288 ± 4 Ma) ages. The differences in geochemical and geochronological results between the early Permian host and the later Triassic volcanic and intrusive rocks are likely due to tectonic progression from a volcanic arc environment to a collisional setting.
DOI: 10.6084/m9.figshare.2068410
title: Redsea data 200 kHz.

description: redsea sonar dataset<br>
DOI: 10.6084/m9.figshare.2068509.v2
title: Raw data for table 1 and 2

description: Raw data was used to make table 1 and table 2
DOI: 10.6084/m9.figshare.2068371
title: Reliability of task-based fMRI for preoperative planning

description: The patient and healthy control data sets have been included. They are organized according to task, and within each task folder is the patient and healthy control folders. The subject folders are available there including their 3dvolume scan and two runs repeated for each task. Timing files have been included (txt) as well as the master script used to calculate reliability metrics. <br>
DOI: 10.6084/m9.figshare.2068392
title: Ecosystem Service Value Transfer Repository

description: Growing demand of resources increases pressure on ecosystem services (ES) and biodiversity. Monetary valuation of ES is frequently seen as a decision-support tool by providing explicit values for unconsidered, non-market goods and services. Despite all criticism benefit transfer, i.e. estimations of values for unsampled areas utilizing results from distant studies, is frequently applied in situations of resource constraints (information, time and money). Here we present the database used for meta-analytic value transfer functions developed in Schmidt et al. 2016. The database contains 194 valuation studies of ES including 839 monetary values for 12 ES. We combined two, peer reviewed databases (Seppelt et al. 2011, De Groot et al. 2012). ES were harmonized to a common, comparable set of ES types using a standardized classification system (McVittie et al. 2008) to avoid semantical differences between varying ES terminologies. Besides the original monetary values we also extracted information about the investigation area and the methodological approach of valuations. Global geo-datasets that were not compiled from valuation studies and used as covariates in Schmidt et al. 2016 are not listed, but are openly available. The sources are mentioned in Schmidt et al. 2016.
DOI: 10.6084/m9.figshare.2068347
title: APC applications July - December 2015 Cardiff University

description: Jisc APC data for July - December 2015 for Cardiff University
DOI: 10.6084/m9.figshare.2068347.v1
title: APC applications July - December 2015 Cardiff University

description: Jisc APC data for July - December 2015 for Cardiff University
DOI: 10.6084/m9.figshare.2068410.v1
title: Thuwal-D20150520-T081103.raw_200kHzpp.mat

description: redsea sonar dataset<br>
DOI: 10.6084/m9.figshare.2068293
title: global_neuromagnetic_cortical_fields.zip.001

description: Data files for "Neuromagnetic Fields have non-Zero Velocity"<br>
DOI: 10.6084/m9.figshare.2068284
title: PM7-MD trajectories for B-doped graphene

description: MOLECULAR TRAJECTORIES forBoron Doping of Graphene – Pushing the Limit<br>Boron-doped derivatives of graphene are intensely investigated due to their electronic and catalytic properties. The maximum experimentally observed concentration of boron atoms in graphite amounts to 2.35% at 2350 K. Employing quantum chemistry coupled with molecular dynamics, we identify the theoretical doping limit for the single-layer graphene at different temperatures, demonstrating that it is possible to achieve much higher boron doping concentrations. According to the computations, 33.3 mol% of boron does not significantly undermine thermal stability, whereas 50 mol% of boron results in critical backbone deformations. Even though boron is less electro-negative than carbon, it tends to act as an electron acceptor in the vicinity of C-B bonds. The dipole moment of B-doped graphene depends strongly on the distribution of dopant atoms within the sheet. Compared with N-doped graphene, the dopant-dopant bonds are less destructive in the present system. The reported results motivate efforts to synthesize highly B-doped graphene for semiconductor and catalytic applications. The theoretical predictions can be validated through direct chemical synthesis.<br><br>The visualized molecular trajectories represent the last 20ps of the thermal motion in every system. The file names are self-explanatory. 1B_per_ring - one boron atom per the hexagonal ring.3B_per_ring - three boron atoms per the hexagonal ring.B-B-B_chains - boron-boron covalent bonds within B-doped graphene.
DOI: 10.6084/m9.figshare.2068410.v2
title: Redsea data 200 Hz.

description: redsea sonar dataset<br>
DOI: 10.6084/m9.figshare.2068275
title: Statistics GRRA allocator- Sparc

description: This files contains general statistics about the experiment, including generated spill, runtime, confidence interval of the observations for each program and the difference between the spill generated for the GRRA allocator and the others, generating code for the x86 architecture.<br>