cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4900388
title: Insights into petrogenesis of the Jálama pluton (Central Iberian Zone, western Spain)

description: The Jálama pluton (JP) is a Variscan peraluminous granitoid that intruded into low-grade metasediments from the Central Iberian Zone (CIZ). It comprises a sillimanite-bearing two-mica monzogranite in the inner zone, followed by a tourmaline-bearing two-mica monzogranite, and a marginal tourmaline-muscovite leucogranite in the northern half of the pluton. Microgranitoid enclaves and metasedimentary xenoliths occur locally in monzogranites. The change in rock type from the central monzogranite to the marginal leucogranite corresponds to decreasing TiO<sub>2</sub>, MgO, FeO, CaO, Sr, Ba, Zr, and ΣREE, and increasing SiO<sub>2</sub>, Na<sub>2</sub>O, P<sub>2</sub>O<sub>5</sub>, Rb, Li, Cs, Ta, Sn, and W. Fe/(Fe+Mg) ratios in biotite, muscovite and tourmaline increase with increasing Fe/(Fe+Mg) in bulk rock, suggesting an important control of the bulk-rock composition on mineral chemistry. The high peraluminosity, the low CaO and high P contents, as well as the similarity of <i>ε</i>(Nd)<sub>300</sub> values in both the granites and metasediments of the southern CIZ constitute strong evidences for a crustal origin of the granite suite, probably by melting of these metasedimentary rocks. Field and petrographic observations, together with mineralogical and geochemical data, suggest that assimilation and mingling/mixing acted in concert with fractional crystallization during the formation of the JP. These processes may also have been important in the evolution of other granitoids from this region.
DOI: 10.6084/m9.figshare.4900367
title: ControlPNAS.zip

description: Untrained control data are in ControlPNAS and ControlPNAS_2
DOI: 10.6084/m9.figshare.4900364
title: ControlPNAS_2.zip

description: Untrained Control Data are in ControlPNAS and ControlPNAS_2
DOI: 10.6084/m9.figshare.4900388.v1
title: Insights into petrogenesis of the Jálama pluton (Central Iberian Zone, western Spain)

description: The Jálama pluton (JP) is a Variscan peraluminous granitoid that intruded into low-grade metasediments from the Central Iberian Zone (CIZ). It comprises a sillimanite-bearing two-mica monzogranite in the inner zone, followed by a tourmaline-bearing two-mica monzogranite, and a marginal tourmaline-muscovite leucogranite in the northern half of the pluton. Microgranitoid enclaves and metasedimentary xenoliths occur locally in monzogranites. The change in rock type from the central monzogranite to the marginal leucogranite corresponds to decreasing TiO<sub>2</sub>, MgO, FeO, CaO, Sr, Ba, Zr, and ΣREE, and increasing SiO<sub>2</sub>, Na<sub>2</sub>O, P<sub>2</sub>O<sub>5</sub>, Rb, Li, Cs, Ta, Sn, and W. Fe/(Fe+Mg) ratios in biotite, muscovite and tourmaline increase with increasing Fe/(Fe+Mg) in bulk rock, suggesting an important control of the bulk-rock composition on mineral chemistry. The high peraluminosity, the low CaO and high P contents, as well as the similarity of <i>ε</i>(Nd)<sub>300</sub> values in both the granites and metasediments of the southern CIZ constitute strong evidences for a crustal origin of the granite suite, probably by melting of these metasedimentary rocks. Field and petrographic observations, together with mineralogical and geochemical data, suggest that assimilation and mingling/mixing acted in concert with fractional crystallization during the formation of the JP. These processes may also have been important in the evolution of other granitoids from this region.
DOI: 10.6084/m9.figshare.4900364.v1
title: ControlPNAS_2.zip

description: Untrained Control Data are in ControlPNAS and ControlPNAS_2
DOI: 10.6084/m9.figshare.4900367.v1
title: ControlPNAS.zip

description: Untrained control data are in ControlPNAS and ControlPNAS_2
DOI: 10.6084/m9.figshare.4900373.v2
title: Latitudinal gradient in insect immunity

description: We studied among-population differences of two parameters reflecting constitutive immunity – phenoloxidase (PO) and lytic activity – using common garden design on three distantly related moth species represented by populations ranging from northern Finland to Georgia (Caucasus).
DOI: 10.6084/m9.figshare.4900373.v1
title: Latitudinal gradient in insect immunity

description: We studied among-population differences of two parameters reflecting constitutive immunity – phenoloxidase (PO) and lytic activity – using common garden design on three distantly related moth species represented by populations ranging from northern Finland to Georgia (Caucasus).
DOI: 10.6084/m9.figshare.4899764
title: Bayesian SEM for Specification Search Problems in Testing Factorial Invariance

description: Specification search problems refer to two important but under-addressed issues in testing for factorial invariance: how to select proper reference indicators and how to locate specific non-invariant parameters. In this study, we propose a two-step procedure to solve these issues. Step 1 is to identify a proper reference indicator using the Bayesian structural equation modeling approach. An item is selected if it is associated with the highest likelihood to be invariant across groups. Step 2 is to locate specific non-invariant parameters, given that a proper reference indicator has already been selected in Step 1. A series of simulation analyses show that the proposed method performs well under a variety of data conditions, and optimal performance is observed under conditions of large magnitude of non-invariance, low proportion of non-invariance, and large sample sizes. We also provide an empirical example to demonstrate the specific procedures to implement the proposed method in applied research. The importance and influences are discussed regarding the choices of informative priors with zero mean and small variances. Extensions and limitations are also pointed out.
DOI: 10.6084/m9.figshare.4899764.v1
title: Bayesian SEM for Specification Search Problems in Testing Factorial Invariance

description: Specification search problems refer to two important but under-addressed issues in testing for factorial invariance: how to select proper reference indicators and how to locate specific non-invariant parameters. In this study, we propose a two-step procedure to solve these issues. Step 1 is to identify a proper reference indicator using the Bayesian structural equation modeling approach. An item is selected if it is associated with the highest likelihood to be invariant across groups. Step 2 is to locate specific non-invariant parameters, given that a proper reference indicator has already been selected in Step 1. A series of simulation analyses show that the proposed method performs well under a variety of data conditions, and optimal performance is observed under conditions of large magnitude of non-invariance, low proportion of non-invariance, and large sample sizes. We also provide an empirical example to demonstrate the specific procedures to implement the proposed method in applied research. The importance and influences are discussed regarding the choices of informative priors with zero mean and small variances. Extensions and limitations are also pointed out.
DOI: 10.6084/m9.figshare.4899269
title: New large-scale data instances for CARP and new variations of CARP

description: The capacitated arc routing problem (CARP) captures important aspects of real-life problems and has been studied extensively over the past two decades. Based on a waste collection project, we introduce a number of new CARP variations. We first present three multi-compartment CARP variations of different levels of complexity regarding compartments and where one incorporates a time horizon. We then present a variation that seeks to coordinate vehicles over a planning horizon such that the vehicles that collect different waste fractions from the same households do so on the same day of the week. Finally, the semi-periodic CARP takes into account that the households on a street, providing the demand of the edge, may not request waste collection at the same interval. We present large-scale instances both for the classical CARP and for the five new problems. The instances are based on real-life networks and waste data from five areas in Denmark and cover rural as well as urban areas. The largest instances contain more than 10,000 nodes. We give detailed information about the construction of the instances from the real-life data, and explain how they can be used to perform scenario analyses.
DOI: 10.6084/m9.figshare.4899269.v1
title: New large-scale data instances for CARP and new variations of CARP

description: The capacitated arc routing problem (CARP) captures important aspects of real-life problems and has been studied extensively over the past two decades. Based on a waste collection project, we introduce a number of new CARP variations. We first present three multi-compartment CARP variations of different levels of complexity regarding compartments and where one incorporates a time horizon. We then present a variation that seeks to coordinate vehicles over a planning horizon such that the vehicles that collect different waste fractions from the same households do so on the same day of the week. Finally, the semi-periodic CARP takes into account that the households on a street, providing the demand of the edge, may not request waste collection at the same interval. We present large-scale instances both for the classical CARP and for the five new problems. The instances are based on real-life networks and waste data from five areas in Denmark and cover rural as well as urban areas. The largest instances contain more than 10,000 nodes. We give detailed information about the construction of the instances from the real-life data, and explain how they can be used to perform scenario analyses.
DOI: 10.6084/m9.figshare.4898921
title: Standing Iguanodon in Crystal Palace Park: condition survey data

description: Survey to assess structural deterioration in the Standing Iguanodon in Crystal Palace Park (https://en.wikipedia.org/wiki/Crystal_Palace_Dinosaurs). Complete dataset consists largely of photogrammetry data from a single statue with 2x crack reports taken at an interval of 3 months (late 2016 and early 2017). Metadata is in Archaeology Data Service recommended formats.<br>This data consists of 4x .obj meshes each with associated texture files, x2 of back right leg and x2 of the entire statue, one with annotations.
DOI: 10.6084/m9.figshare.4898528
title: Synthesis of dopamine in <i>E. coli</i> using plasmid-based expression system and its marked effect on host growth profiles

description: L-Dopa and dopamine are important pathway intermediates toward the synthesis of catecholamine such as epinephrine and norepinephrine from amino acid L-tyrosine. Dopamine, secreted from dopaminergic nerve cells, serves as an important neurotransmitter. We report the synthesis of dopamine by extending the aromatic amino acid pathway of <i>Escherichia coli</i> DH5α by the expression of 4-hydroxyphenylacetate-3-hydrolase (HpaBC) from <i>E. coli</i> and an engineered dopa decarboxylase (DDC) from pig kidney cell. The activity of HpaBC and DDC require 200 µM iron supplementation and 50 µM vitamin B6, respectively as additives to the growth media. The maximum concentration of L-dopa and dopamine obtained from the broth was around 26 and 27 mg/L after 24 hr of separate shake flask studies. We observed that in the presence of dopamine synthesized <i>in vivo</i> host growth was remarkably enhanced. These observations lead us to an interesting finding about the role of these catecholamines on bacterial growth. It is clear that synthesis of dopamine <i>in vivo</i> actually promotes growth much efficiently as compared to when dopamine is added to the system from outside. From HPLC and GC–MS data it was further observed that L-dopa was stable within the observable time of experiments whereas dopamine actually was subjected to degradation via oxidation and host consumption.
DOI: 10.6084/m9.figshare.4898528.v2
title: Synthesis of dopamine in <i>E. coli</i> using plasmid-based expression system and its marked effect on host growth profiles

description: L-Dopa and dopamine are important pathway intermediates toward the synthesis of catecholamine such as epinephrine and norepinephrine from amino acid L-tyrosine. Dopamine, secreted from dopaminergic nerve cells, serves as an important neurotransmitter. We report the synthesis of dopamine by extending the aromatic amino acid pathway of <i>Escherichia coli</i> DH5α by the expression of 4-hydroxyphenylacetate-3-hydrolase (HpaBC) from <i>E. coli</i> and an engineered dopa decarboxylase (DDC) from pig kidney cell. The activity of HpaBC and DDC require 200 µM iron supplementation and 50 µM vitamin B6, respectively as additives to the growth media. The maximum concentration of L-dopa and dopamine obtained from the broth was around 26 and 27 mg/L after 24 hr of separate shake flask studies. We observed that in the presence of dopamine synthesized <i>in vivo</i> host growth was remarkably enhanced. These observations lead us to an interesting finding about the role of these catecholamines on bacterial growth. It is clear that synthesis of dopamine <i>in vivo</i> actually promotes growth much efficiently as compared to when dopamine is added to the system from outside. From HPLC and GC–MS data it was further observed that L-dopa was stable within the observable time of experiments whereas dopamine actually was subjected to degradation via oxidation and host consumption.
DOI: 10.6084/m9.figshare.4898528.v1
title: Synthesis of Dopamine in <i>E.coli</i> Using Plasmid Based Expression System and Its Marked Effect on Host Growth Profiles

description: L-Dopa and dopamine are important pathway intermediates towards the synthesis of catecholamine like epinephrine and norepinephrine from amino acid L-tyrosine. Dopamine, secreted from dopaminergic nerve cells, serves as an important neurotransmitter. We report the synthesis of dopamine by extending the aromatic amino acid pathway of <i>E.coli</i> DH5α by expression of 4-hydroxyphenylacetate-3-hydrolase (HpaBC) from <i>E.coli</i> and an engineered dopa decarboxylase (DDC) from pig kidney cell. The activity of HpaBC and DDC require 200 µM iron supplementation and 50 µM vitamin B6 respectively as additives to the growth media. The maximum concentration of L-Dopa and dopamine obtained from the broth was around 26 mg/L and 27 mg/L after 24 hours of separate shake flask studies. We observed that in presence of dopamine synthesized <i>in vivo</i> host growth was remarkably enhanced. These observations lead us to an interesting finding about the role of these catecholamines on bacterial growth. It is clear that synthesis of dopamine <i>in vivo</i> actually promotes growth much efficiently as compared to when dopamine is added to the system from outside. From HPLC and GC-MS data it was further observed that L-Dopa was stable within the observable time of experiments while dopamine actually was subjected to degradation via oxidation and host consumption.
DOI: 10.6084/m9.figshare.4898345
title: Cluster Computing Journal: "FUGE: A joint meta-heuristic approach to cloud job scheduling algorithm using fuzzy theory and a genetic method"

description: Job scheduling is one of the most important research problems in distributed systems, particularly cloud environments/computing. The dynamic and heterogeneous nature of resources in such distributed systems makes optimum job scheduling a non-trivial task. Maximal resource utilization in cloud computing demands/necessitates an algorithm that allocates resources to jobs with optimal execution time and cost. The critical issue for job scheduling is assigning jobs to the most suitable resources, considering user preferences and requirements. In this paper, we present a hybrid approach called <em>FUGE</em> that is based on fuzzy theory and a genetic algorithm (GA) that aims to perform optimal load balancing considering execution time and cost. We modify the standard genetic algorithm (SGA) and use fuzzy theory to devise a fuzzy-based steady-state GA in order to improve SGA performance in term of <em>makespan</em>. In details, the <em>FUGE</em> algorithm assigns jobs to resources by considering virtual machine (VM) processing speed, VM memory, VM bandwidth, and the job lengths. We mathematically prove our optimization problem which is convex with well-known analytical conditions (specifically, Karush–Kuhn–Tucker conditions). We compare the performance of our approach to several other cloud scheduling models. The results of the experiments show the efficiency of the FUGE approach in terms of execution time, execution cost, and average degree of imbalance.
DOI: 10.6084/m9.figshare.4898327.v2
title: Zircon SHRIMP U-Pb ages and geochemistry of Late Mesozoic granitoids in Western Zhejiang and Southern Anhui: constraints on the model of lithospheric thinning of Southeast China

description: We report geochemical data and zircon SHRIMP U-Pb ages for Late Mesozoic granitoids from the western Zhejiang province and southern Anhui province (the WZSA region) from southeast China. In combination with published geochronological and geochemical data, the granitoids in the region can be divided into three stages: 171–141 Ma, 140–121 Ma, and 120–95 Ma. The first stage of these granitoids is mainly composed of granite porphyry and granodiorite which are similar to I-type granitoids, including having weakly negative Eu anomalies with enrichment in light rare earth elements (LREE), Rb, Th, and U. The second stage of granitoids consists of monzogranite, syenogranite, and granite with the characteristics of both A-type and I-type granitoids including strongly negative Eu anomalies; depletion of Ba, Sr, and Ti; and enrichment of K, Rb, and high field strength elements (HFSEs) (such as Th and U). The third stage of granitoids is mainly composed of granite, quartz monzonite, quartz diorite, and mafic rocks with weakly negative Eu anomalies and also enrichment in LREE, Rb, Th, U, and K. From our work, we propose a transition from compressional to extensional magmatism at ~141 Ma. Based on the geochemical characteristics of these granites and coeval mafic rocks, we propose that the formation of the A-type magmatism in the WZSA region formed as the result of lithospheric extension and asthenospheric upwelling during the Early Cretaceous.
DOI: 10.6084/m9.figshare.4898177
title: Spore viability and genetic differences

description: Tab-delimited table containing all SNP and structural variant genetic differences between all combinations of the 161 strain used for the publication below.<br><br>Jeffares DC, Jolly C, Hoti M, Speed D, Liam Shaw, Rallis D, Francois Balloux, Dessimoz C, Bähler J, Sedlazeck F (2016). Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast.<em> </em><em><strong>Nature Communications </strong>doi:10.1038/ncomms14061<strong><br><br></strong></em>
DOI: 10.6084/m9.figshare.4898327.v1
title: Zircon SHRIMP U-Pb ages and geochemistry of Late Mesozoic granitoids in Western Zhejiang and Southern Anhui: constraints on the model of lithospheric thinning of Southeast China

description: We report geochemical data and zircon SHRIMP U-Pb ages for Late Mesozoic granitoids from the western Zhejiang province and southern Anhui province (the WZSA region) from southeast China. In combination with published geochronological and geochemical data, the granitoids in the region can be divided into three stages: 171–141 Ma, 140–121 Ma, and 120–95 Ma. The first stage of these granitoids is mainly composed of granite porphyry and granodiorite which are similar to I-type granitoids, including having weakly negative Eu anomalies with enrichment in light rare earth elements (LREE), Rb, Th, and U. The second stage of granitoids consists of monzogranite, syenogranite, and granite with the characteristics of both A-type and I-type granitoids including strongly negative Eu anomalies; depletion of Ba, Sr, and Ti; and enrichment of K, Rb, and high field strength elements (HFSEs) (such as Th and U). The third stage of granitoids is mainly composed of granite, quartz monzonite, quartz diorite, and mafic rocks with weakly negative Eu anomalies and also enrichment in LREE, Rb, Th, U, and K. From our work, we propose a transition from compressional to extensional magmatism at ~141 Ma. Based on the geochemical characteristics of these granites and coeval mafic rocks, we propose that the formation of the A-type magmatism in the WZSA region formed as the result of lithospheric extension and asthenospheric upwelling during the Early Cretaceous.
DOI: 10.6084/m9.figshare.4898171
title: PowerPoint Slides for: Psychosocial Factors and 30-Day Hospital Readmission among Individuals Receiving Maintenance Dialysis: A Prospective Study

description: <b><i>Background:</i></b> Thirty-day hospital readmissions are common among maintenance dialysis patients. Prior studies have evaluated easily measurable readmission risk factors such as comorbid conditions, laboratory results, and hospital discharge day. We undertook this prospective study to investigate the associations between hospital-assessed depression, health literacy, social support, and self-rated health (separately) and 30-day hospital readmission among dialysis patients. <b><i>Methods:</i></b> Participants were recruited from the University of North Carolina Hospitals, 2014-2016. Validated depression, health literacy, social support, and self-rated health screening instruments were administered during index hospitalizations. Multivariable logistic regression models with 30-day readmission as the dependent outcome were used to examine readmission risk factors. <b><i>Results:</i></b> Of the 154 participants, 58 (37.7%) had a 30-day hospital readmission. In unadjusted analyses, individuals with positive screening for depression, lower health literacy, and poorer social support were more likely to have a 30-day readmission (vs. negative screening). Positive depression screening and poorer social support remained significantly associated with 30-day readmission in models adjusted for race, heart failure, admitting service, weekend discharge day, and serum albumin: adjusted OR (95% CI) 2.33 (1.02-5.15) for positive depressive symptoms and 2.57 (1.10-5.91) for poorer social support. The area under the receiver operating characteristic curve (AUC) of the multivariable model adjusted for social support status was significantly greater than the AUC of the multivariable model without social support status (test for equality; <i>p</i> value = 0.04). <b><i>Conclusion:</i></b> Poor social support and depressive symptoms identified during hospitalizations may represent targetable readmission risk factors among dialysis patients. Our findings suggest that hospital-based assessments of select psychosocial factors may improve readmission risk prediction.
DOI: 10.6084/m9.figshare.4898177.v1
title: Spore viability and genetic differences

description: Tab-delimited table containing all SNP and structural variant genetic differences between all combinations of the 161 strain used for the publication below.<br><br>Jeffares DC, Jolly C, Hoti M, Speed D, Liam Shaw, Rallis D, Francois Balloux, Dessimoz C, Bähler J, Sedlazeck F (2016). Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast.<em> </em><em><strong>Nature Communications </strong>doi:10.1038/ncomms14061<strong><br><br></strong></em>