cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21820210.v1
title: A systematic review of lean simulation games in the construction industry

description: Lean philosophy has garnered attention in the construction industry world-wide and lean simulation games have arguably played a vital role in lean’s uptake by the architecture, engineering, and construction (AEC) industry. Although numerous lean simulation games are already being used extensively both in industry and academia, there has been, as yet, no systematic investigation in this area. In this context, this paper reports a systematic literature review to analyse existing lean simulations and games. Relevant databases were identified, and a search strategy was devised to uncover relevant literature. Peer-reviewed papers were vetted according to a set of pre-determined inclusion and exclusion criteria. Following the screening process, 52 documents were identified from the databases. From the final set of papers, 96 games in total were identified. The papers were analysed for a variety of factors including distribution along a timeline, database homes, authorship and countries of origin using social network analysis, and depth of discussion of particular simulations. Findings showed that the popularity of lean simulation games in the construction sector has grown in recent decades. According to our systematic review of the literature, the International Group for Lean Construction (IGLC) serves as a significant contributor to the emergence and dissemination of new and existing lean games and simulations. The analysis also indicated that most contributions have originated in the United States. Our social network analysis also indicated that a few key authors collaborate extensively, while others in the periphery are beginning to publish and collaborate.
DOI: 10.6084/m9.figshare.24498250
title: Study in extense

description: First approach to case studies
DOI: 10.6084/m9.figshare.24498250.v1
title: Study in extense

description: First approach to case studies
DOI: 10.34740/kaggle/dsv/6875830
title: Deaths in Israel per day - 1/1/2000-10/8/2023
DOI: 10.6084/m9.figshare.24496414
title: Fastq_Samain_et_al.

description: Fastq files of Samain et al. Biology
DOI: 10.3886/e194893
title: Are Non-inclusive Peace Agreements Effective Counter-Insurgency Strategies?

description: Civil wars are complex in ways that challenge effective resolution. Civil war actors tend to be dynamic in nature and often splinter then coalesce over time potentially evolving into multiple dyads pitted against their government. Previous work has demonstrated that when multiple rebel factions emerge, civil wars tend to be longer in duration as satisfying multiple factions tends to be more challenging. However, governments may choose to pursue dyadic agreements hoping to end the conflict either through subsequent dyadic negotiations or through more targeted military tactics focusing intently on the remaining faction(s). This study suggest that which dyads will be excluded from the peace is predictable, but also seeks to better understand what happens to those excluded factions that hedge their bets to continue the fight. Propositions are tested on all civil war peace agreements between 1945-2013. Key findings indicate the importance of political power-sharing provision and third-party assistance in bringing excluded groups into the fold. <br>
DOI: 10.3886/e194893v1
title: Are Non-inclusive Peace Agreements Effective Counter-Insurgency Strategies?

description: Civil wars are complex in ways that challenge effective resolution. Civil war actors tend to be dynamic in nature and often splinter then coalesce over time potentially evolving into multiple dyads pitted against their government. Previous work has demonstrated that when multiple rebel factions emerge, civil wars tend to be longer in duration as satisfying multiple factions tends to be more challenging. However, governments may choose to pursue dyadic agreements hoping to end the conflict either through subsequent dyadic negotiations or through more targeted military tactics focusing intently on the remaining faction(s). This study suggest that which dyads will be excluded from the peace is predictable, but also seeks to better understand what happens to those excluded factions that hedge their bets to continue the fight. Propositions are tested on all civil war peace agreements between 1945-2013. Key findings indicate the importance of political power-sharing provision and third-party assistance in bringing excluded groups into the fold. <br>
DOI: 10.18112/openneuro.ds004229.v1.0.3
title: amnoise
DOI: 10.6073/pasta/4294aba296fb22f76873fef5edda92ea
title: North Temperate Lakes LTER: Southern Lake Spiny Water Flea 2016 - present

description: Beginning in 2016, vertical tows with a special zooplankton net were collected in the lakes of the Yahara River specifically for the invasive Bythotrephes longimanus (spiny water flea). The net has a 400 micrometer mesh with a 0.5 meter diameter opening. Individuals are simply counted, and density is determined to be the number of individuals divided by the total water volume of each tow. The depth of the tow, and therefore the tow volume, varies by lake. Additional sampling for spiny water flea occurred 2009 - 2014 as a part of graduate student research (dataset knb-lter-ntl.343). Spiny water flea are also captured occasionally during our standard zooplankton tows of the southern lakes (knb-lter-ntl.90).
DOI: 10.13020/qv23-pp07
title: Data for Gaming self-consistent field theory: Generative block polymer phase discovery

description: This dataset contains the input and output files for self-consistent field theory (SCFT) simulations and the training of generative adversarial networks (GANs) in the associate paper. (https://doi.org/10.1073/pnas.2308698120)
description: Generative adversarial networks (GANs), trained on self-consistent field theory (SCFT) density fields of known block polymer phases, was used to propose new initial guesses for subsequent SCFT calculations. This dataset contains the training data and outputs for GANs, as well as the input and output for SCFT calculations.
DOI: 10.5281/zenodo.10069970
title: Non-Poissonian Forecast and Hazard source files - New Zealand National Seismic Hazard Model 2022

description: This repository contains:

The forecast's files for the Distributed Seismicity Model of the NZNSHM2022, as well as figures, and the Paraview files to explore them in the software interactively. (https://www.paraview.org/)
The Openquake source files (https://github.com/gem/oq-engine) to run the NZ-NSHM2022 model using the non-Poisson forecasts as single branches.
Installation instructions
For reproducibility, this package should install OpenQuake (https://github.com/gem/oq-engine) in its version v3.16.4. However, Openquake should remain backward compatible for the Negative Binomial formulation in the future. To install the version 3.16.4, a virtual environment can be created used Anaconda/Miniconda/Micromamba (the latter is recommended, see installation instructions https://mamba.readthedocs.io/en/latest/installation.html) by using:

conda env create -f environment.yml
This environment should already contain the Openquake version. If the Openquake software should be installed manually into an environment created by the user:

source activate {user_env}
git clone https://github.com/gem/oq-engine --depth=1 --branch=v3.16.4
cd oq-engine
pip install -e .
For additional information, please see the README.md file, or visit https://github.com/pabloitu/nz_nshm2022_nonpoisson
DOI: 10.5281/zenodo.10069969
title: Non-Poissonian Forecast and Hazard source files - New Zealand National Seismic Hazard Model 2022

description: This repository contains:

The forecast's files for the Distributed Seismicity Model of the NZNSHM2022, as well as figures, and the Paraview files to explore them in the software interactively. (https://www.paraview.org/)
The Openquake source files (https://github.com/gem/oq-engine) to run the NZ-NSHM2022 model using the non-Poisson forecasts as single branches.
Installation instructions
For reproducibility, this package should install OpenQuake (https://github.com/gem/oq-engine) in its version v3.16.4. However, Openquake should remain backward compatible for the Negative Binomial formulation in the future. To install the version 3.16.4, a virtual environment can be created used Anaconda/Miniconda/Micromamba (the latter is recommended, see installation instructions https://mamba.readthedocs.io/en/latest/installation.html) by using:

conda env create -f environment.yml
This environment should already contain the Openquake version. If the Openquake software should be installed manually into an environment created by the user:

source activate {user_env}
git clone https://github.com/gem/oq-engine --depth=1 --branch=v3.16.4
cd oq-engine
pip install -e .
For additional information, please see the README.md file, or visit https://github.com/pabloitu/nz_nshm2022_nonpoisson
DOI: 10.5281/zenodo.10070289
title: Companion data for Asynchronous multi-phase task-based applications: Employing different nodes to design better distributions

description: This is the companion data for the paper "Asynchronous multi-phase task-based applications: Employing different nodes to design better distributions", by Lucas Leandro Nesi, Arnaud Legrand, and Lucas Mello Schnorr, published at Future Generation Computer Systems, check the main companion at: https://gitlab.com/lnesi/companion-fgcs .
DOI: 10.5281/zenodo.10070288
title: Companion data for Asynchronous multi-phase task-based applications: Employing different nodes to design better distributions

description: This is the companion data for the paper "Asynchronous multi-phase task-based applications: Employing different nodes to design better distributions", by Lucas Leandro Nesi, Arnaud Legrand, and Lucas Mello Schnorr, published at Future Generation Computer Systems, check the main companion at: https://gitlab.com/lnesi/companion-fgcs .
DOI: 10.5281/zenodo.10070345
title: Plastid genome evolution in leafless members of the orchid subfamily Orchidoideae, with a focus on Degranvillea dermaptera

description: Premise: Leafless, heterotrophic plants are prime examples of organismal modification, the genomic consequences of which have received considerable interest. In particular, plastid genomes (plastomes) are being sequenced at a high rate, allowing continual refinement of conceptual models of reductive evolution in heterotrophs. Yet, numerous sampling gaps exist, hindering the ability to conduct comprehensive phylogenomic analyses in these plants. 
Methods: We sequenced and analyzed the plastome of Degranvillea dermaptera, a rarely collected, leafless orchid species from South America about which little is known, including its phylogenetic affinities. 
Key Results: We revealed the most reduced plastome sequenced to date among the orchid subfamily Orchidoideae. Degranvillea has lost the majority of genes found in leafy autotrophic species, is structurally rearranged, and has similar gene content to the most reduced plastomes among the orchids. We found strong evidence for the placement of Degranvillea within the subtribe Spiranthinae using models that explicitly account for heterotachy, or lineage-specific evolutionary rate variation over time. We further found evidence of relaxed selection on several genes and correlations among substitution rates and several other "traits" of the plastome among leafless members of orchid subfamily Orchidoideae. 
Conclusions: Our findings advance knowledge on the phylogenetic relationships and paths of plastid genome evolution among the orchids, which have experienced more independent transitions to heterotrophy than any other plant family. This study demonstrates the importance of herbarium collections in comparative genomics of poorly known species of conservation concern.
DOI: 10.5281/zenodo.10070346
title: Plastid genome evolution in leafless members of the orchid subfamily Orchidoideae, with a focus on Degranvillea dermaptera

description: Premise: Leafless, heterotrophic plants are prime examples of organismal modification, the genomic consequences of which have received considerable interest. In particular, plastid genomes (plastomes) are being sequenced at a high rate, allowing continual refinement of conceptual models of reductive evolution in heterotrophs. Yet, numerous sampling gaps exist, hindering the ability to conduct comprehensive phylogenomic analyses in these plants. 
Methods: We sequenced and analyzed the plastome of Degranvillea dermaptera, a rarely collected, leafless orchid species from South America about which little is known, including its phylogenetic affinities. 
Key Results: We revealed the most reduced plastome sequenced to date among the orchid subfamily Orchidoideae. Degranvillea has lost the majority of genes found in leafy autotrophic species, is structurally rearranged, and has similar gene content to the most reduced plastomes among the orchids. We found strong evidence for the placement of Degranvillea within the subtribe Spiranthinae using models that explicitly account for heterotachy, or lineage-specific evolutionary rate variation over time. We further found evidence of relaxed selection on several genes and correlations among substitution rates and several other "traits" of the plastome among leafless members of orchid subfamily Orchidoideae. 
Conclusions: Our findings advance knowledge on the phylogenetic relationships and paths of plastid genome evolution among the orchids, which have experienced more independent transitions to heterotrophy than any other plant family. This study demonstrates the importance of herbarium collections in comparative genomics of poorly known species of conservation concern.
DOI: 10.5281/zenodo.10070335
title: SamueleMeschini/fuel-cycle: Submitted version

description: Fuel cycle model (MATLAB Simulink) and results from Meschini S., et al. "Modeling and analysis of the tritium fuel cycle for ARC- and STEP-Class D-T fusion power plants".
The model and the scripts can be found here:
https://github.com/SamueleMeschini/fuel-cycle/releases/tag/v1.1
For the updated version of the model, please refer to the main branch:
https://github.com/SamueleMeschini/fuel-cycle
If using the model, please cite the original paper and this repo.
DOI: 10.5281/zenodo.8019891
title: SamueleMeschini/fuel-cycle: Submitted version

description: Fuel cycle model (MATLAB Simulink) and results from Meschini S., et al. "Modeling and analysis of the tritium fuel cycle for ARC- and STEP-Class D-T fusion power plants".
The model and the scripts can be found here:
https://github.com/SamueleMeschini/fuel-cycle/releases/tag/v1.1
For the updated version of the model, please refer to the main branch:
https://github.com/SamueleMeschini/fuel-cycle
If using the model, please cite the original paper and this repo.
DOI: 10.5281/zenodo.8019892
title: SamueleMeschini/fuel-cycle: Submitted version

description: Fuel cycle model (MATLAB Simulink) and results from Meschini S., et al. "Modeling and analysis of the tritium fuel cycle for ARC- and STEP-Class D-T fusion power plants". The model and the scripts can be found here: https://github.com/SamueleMeschini/fuel-cycle/releases/tag/v1.0
DOI: 10.5519/qd.5poxv971
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (21 records)
DOI: 10.5519/qd.t10j8nub
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (21 records)
DOI: 10.3886/e120231v1-142799
title: Sustainable construction practices assessment

description: This study focuses on sustainable construction practices in Venezuela through identifying its current status as well as barriers and challenges to the implementation of such practices.
DOI: 10.5519/qd.b1b95w5v
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (99 records)
DOI: 10.22002/mcr98-ays65
title: Dataset: A Novel Application of Spinning Disk Technology to Collect Plasma from Whole Blood Prior to Quantifying Plasma RNA

description: The complete dataset of measurements found during this study and analyzed in this paper.
DOI: 10.15468/makkj2
title: Planktic foraminifera abundance of Hole 19-185
DOI: 10.15468/462pej
title: (Table T10) Calcareous nannofossil stratigraphy of ODP Hole 198-1212A
DOI: 10.15468/deupb5
title: Distribution of Cretaceous and early Danian planktonic foraminifera in ODP Hole 119-738C (Table 1)

description: A biostratigraphically complete upper Maestrichtian-Danian sequence was recovered at ODP Leg 119 Site 738 on the southern Kerguelen Plateau (62°S). Planktonic foraminifers are abundant and well to moderately preserved in all upper Maestrichtian samples to within 6 cm of the Cretaceous/Tertiary boundary, where foraminifers are rare and poorly preserved due to increased sediment lithification. Lowermost Danian samples are also poorly preserved, but specimen abundance is sufficient for preliminary quantitative biostratigraphic analysis. Despite the poor foraminifer preservation, evidence is presented for paleoenvironmental change immediately below a thin, iridium-rich calcareous clay horizon that is recognized as the Cretaceous/Tertiary boundary. The most significant indicators for preboundary change include; (1) loss of sediment bioturbation; (2) loss of keeled planktonic foraminifers; and (3) diminished size and diversity of benthic foraminifers. Planktonic foraminifers showing transitional morphologies between Cretaceous and Tertiary planktonic biserial heterohelicids first appear 4 cm below the boundary clay. Although some Cretaceous planktonic foraminifers consistently occur with early Danian marker species in initially high abundance above the boundary clay, they are not considered as survival species, but are considered as reworked because of their co-occurrence with Campanian and Maestrichtian species whose extinctions took place well before the end of the Maestrichtian. The recovered Maestrichtian planktonic foraminifers are identical to Austral Realm assemblages found in the southern South Atlantic region. All five species previously recognized as being endemic to this realm were recovered from Hole 738C. Lower Danian assemblages strongly resemble coeval low-latitude foraminifer faunas, whereas upper Danian assemblages differ only in the absence of indicator species, particularly the morozovellids. The stratigraphy of this sequence is correlated using existing zonal schemes for the southern high-latitudes, with modification of one Antarctic Paleogene zone and subzone. Only broad subdivisions of tropical zonal schemes were recognized, as most of the nominate taxa are absent from the southern high-latitudes.
DOI: 10.15468/z2nukr
title: Range table from benthic foraminifers in ODP Hole 146-889A
DOI: 10.15468/3ha6xm
title: Sarcodine counts and carbon biomass at station TT007_8-CTD99
DOI: 10.15468/qdtrbw
title: (Table 3) Relative abundances of palynoclasts, palynomorphs and microplankton in ODP Leg 112 samples
DOI: 10.15468/28f4ke
title: Meiofauna densities from in situ feeding experiments in the Nazare Canyon conducted with sediments from ROV push-core JC10-95-PUC03
DOI: 10.15468/2waw52
title: Benthic foraminifera and algae abundance of Hole 81-552A
DOI: 10.15468/rrjnzb
title: Planktic foraminifera abundance of Hole 32-310
DOI: 10.15468/w7awdm
title: Dinoflagellate abundance of Hole 81-554
DOI: 10.15468/gzfx6w
title: (Table 3) Pleistocene nannofossil range chart for ODP Hole 134-831A
DOI: 10.15468/jsxfms
title: Nannofossil abundance of Hole 24-232
DOI: 10.15468/9hygjy
title: Abundance of non-diatom phytoplankton measured on water bottle samples at station PS58/041-2
DOI: 10.15468/c689ku
title: Nannofossil abundance of Hole 36-329
DOI: 10.15468/sg4m8p
title: Benthic foraminiferal assemblage (Rose Bengal stained) in MUC SC1-K, size fraction &gt;150 µm
DOI: 10.15468/xvj4xz
title: Nematode genera abundances at the Arctic Håkon Mosby Mud Volcano (HMMV) of sediment core PS64/390-1c
DOI: 10.15468/8ucyr4
title: Dinoflagellate abundance of Hole 14-144
DOI: 10.15468/vq2pnz
title: (Table 2) Occurrence of upper Maestrichtian to Eocene benthic foraminifers in ODP Hole 121-753A
DOI: 10.15468/j6ab2x
title: (Table A.04) Foraminiferal census data of sediment core PS1243-1 during marine isotopic stage 7 (80-150 µm)
DOI: 10.15468/u5sp63
title: Planktic foraminifera abundance of Hole 37-332
DOI: 10.15468/yxpccs
title: (Table 2) Calcareous nannofossil distribution in the Upper Cretaceous of ODP Hole 120-748C
DOI: 10.15468/hfguzw
title: Total foraminifera counts of multinet POS231/3_MSN1332
DOI: 10.15468/tw7m6c
title: Range table from planktonic foraminifers in ODP Hole 152-919A
DOI: 10.15468/fm87qg
title: Phytoplankton abundance and species composition in the Tyrrhenian Sea in November 1981
DOI: 10.15468/vgstqq
title: Plasm bearing foraminifera counts from M35/1_MSN1069
DOI: 10.15468/e3mspp
title: (Table 1) Range chart for planktonic foraminifers from ODP Hole 111-667A
DOI: 10.15468/q9zpam
title: Nannofossil abundance of Hole 37-334
DOI: 10.15468/x6zb5s
title: Total foraminifera counts of multinet M21/2_MSN650
DOI: 10.15468/kpdgu7
title: Echinoderms in surface sediments off Sylt collected during HEINCKE cruise HE236
DOI: 10.15468/yg2srf
title: Total foraminifera counts of multinet SO117_MSN1244
DOI: 10.15468/m7snbt
title: Range table from benthic foraminifers in ODP Hole 181-1122C
DOI: 10.26208/az99-rq38
title: Accurate Assembly of Circular RNAs with TERRACE

description: CircularRNA (circRNA) is a class of RNA molecules that forms a closed loop with its 5’and 3’ ends covalently bonded. Due to this specific structure circRNAs are more stable than linear RNAs, admit distinct biological properties and functions, and have been proved to be promising biomarkers. Circular RNAs were severely overlooked previously owing to the biases in the RNA-seq protocols and in the detection algorithms, but recently gained tremendous attention in both aspects. However, most existing methods for assembling circRNAs heavily rely on the annotated transcriptomes, and hence exhibit unsatisfactory accuracy when a high-quality transcriptome is unavailable. Here we present TERRACE, a new algorithm for full-length assembly of cirRNAs from paired-end total RNA-seq data. TERRACE uses the splice graph as the underlying data structure to organize the splicing and coverage information. We transform the problem of assembling circRNAs into finding two paths that “bridge” the three fragments in the splice graph induced by back-spliced reads. To solve this formulation, we adapted a definition for optimal bridging paths and a dynamic programming algorithm to calculate such paths, an approach that proved useful for assembling linear RNAs. TERRACE features an efficient algorithm to detect back-spliced reads that are missed by RNA-seq aligners, contributing to its much improved sensitivity. It also incorporates a new machine-learning approach that is trained to assign a confidence score to each assembled circRNA, which is shown superior to using abundance for scoring. TERRACE is compared with leading circRNA detection methods on both simulations and biological datasets. Our method consistently outperforms by a large margin in sensitivity while maintaining better or comparable precision. In particular, when the annotations are not provided, TERRACE can assemble 123%-412% more correct circRNAs than state-of-the-art on human tissues. TERRACE presents a major leap on assembling full-length circRNAs from RNA-seq data, and we expect it to be widely used in the downstream research on circRNAs.
DOI: 10.15468/pkatya
title: Assemblage of living benthic foraminifera in sediment core CD146_55921#1, 63-150 µm
DOI: 10.15468/g66uzq
title: (Table 5) Paleotemperature estimates for DSDP Hole 81-552A
DOI: 10.15468/b2ndxd
title: Coccoliths in sediment core GIK23065-3
DOI: 10.15468/gfuakc
title: Total foraminifera counts of multinet M21/4_MSN706
DOI: 10.15468/huznpy
title: Plasm bearing foraminifera counts of multinet M21/1_MSN615
DOI: 10.15468/6vpk5x
title: (Table 2) Distribution of recurrent planktonic foraminifera at DSDP Hole 75-530A
DOI: 10.15468/dyvhb7
title: Planktic foraminifera assemblage in sediment core GIK23065-2