cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4815046.v3
title: iCub Facility - Ubuntu (x64) VVV VM

description: This is an Ubuntu 16.04 x64 Virtual Machine (<b>OVF format</b>) pre-configured with iCub software.<br>This VM has been prepared for the use during <b>VVV18 Winter School</b> following the instructions published here: https://github.com/vvv-school/vvv18/wiki/How-to-prepare-your-system.<br>The VM is archived within three files to comply with size limitations. Use your preferred tool to unpack the VM at once.<br><br>VM credentials are:- login: <b>icub</b>- password: <b>icub</b>
DOI: 10.6084/m9.figshare.4814809
title: Hermes insertion count data

description: Hermes insertion count data from all log phase and ageing libraries. Each file in the tar is a tab-delimted plan text file with these data columns:<br><br>chr, chromosome of insertion<br>pos, position of insertion<br>fwd, number of unique insertions in the forward strand<br>rev, number of unique insertions in the reverse strand<br>total, number of unique insertions in either strand<br><br><br>
DOI: 10.6084/m9.figshare.4814743
title: erp_fake.dat

description: MCS STG 4008 waveform used to simulate ERPs for evaluation of tACS artifact removal techniques<br>
DOI: 10.6084/m9.figshare.4814743.v1
title: erp_fake.dat

description: MCS STG 4008 waveform used to simulate ERPs for evaluation of tACS artifact removal techniques<br>
DOI: 10.6084/m9.figshare.4814752.v1
title: strongERP

description: Fake ERP generated with MCS STG 4008, the waveform defined by fake_erp.dat and with large amplitude
DOI: 10.6084/m9.figshare.4814758.v1
title: weakERP

description: Fake ERP generated with MCS STG 4008, the waveform defined by fake_erp.dat and with small amplitude<br>
DOI: 10.6084/m9.figshare.4814851.v2
title: Social network use for research purposes

description: Some tips and recommendations for using social network for research purposes
DOI: 10.6084/m9.figshare.4814713
title: Tm849x23x15.txt

description: Tridacna maxima genotypes at 15 msat loci across 23 sampling sites in New Caledonia and Vanuatu. Dataset made by Cecile Fauvelot and Daphné Grulois, IRD Noumea (New Caledonia). Data analysis presented in <br> https://doi.org/10.1371/journal.pone.0178239
DOI: 10.6084/m9.figshare.4814740
title: PRG GS Heading Date Data

description: Conditional modes (BLUPs) for heading date generated in lme4 from data collected over two years in a replicated field trial.Sequencing data from these genotypes are available on NCBI (PRJNA352789).
DOI: 10.6084/m9.figshare.4814713.v1
title: Tm849x23x15.txt

description: Tridacna maxima genotypes at 15 msat loci across 23 sampling sites in New Caledonia and Vanuatu. Dataset made by Cecile Fauvelot and Daphné Grulois, IRD Noumea (New Caledonia). Data analysis presented in <br> https://doi.org/10.1371/journal.pone.0178239
DOI: 10.6084/m9.figshare.4814698
title: 4 objective problem test cases

description: A set of randomly generated 4 objective knapsack, assignment and travelling salesman problems used to test optimisation algorithms.<br><br>These are generated using similar techniques to those of Laumanns et al. (2006) (for knapsack problems), Przybylski et al. (2010) (for assignment problems), and Özpeynirci and Köksalan (2010) (for traveling salesman problems). A knapsack instance is generated by randomly assigned an integer weight (uniformly at random in the range {60, ... , 100}) to each of n items. The upper bound on the total weight of the selected items is set to be half of the total weight of all items. Each objective function is chosen in a similar manner, with the coefficients for each item drawn uniformly<br>at random from the range {[60, ... , 100}.<br><br>Assignment problems are generated in the manner of Przybylski et al. (2010), with objective function coefficients drawn uniformly at random from {0, ... , 20}. We also generate instances of the traveling salesman problem as per Özpeynirci and Köksalan (2010). We place cities on a 1000 × 1000 plane by assigning integer coordinates to cities, and round the Euclidean distance between any two cities to an integer value.<br><br>Finally some non-Euclidean traveling salesman problems are generated by assigning distances between towns uniformly at random from {20, ..., 180}. Note that these distances will not satisfy common properties of distances or norms (such as the triangle inequality).<br><br>Laumanns M, Thiele L, Zitzler E (2006) An efficient, adaptive parameter variation scheme for metaheuristics based on the epsilon-constraint method. European Journal of Operational Research 169(3):932 – 942, ISSN 0377-2217, URL http://dx.doi.org/http://dx.doi.org/10.1016/j.ejor.2004.08.029.<br><br>Przybylski A, Gandibleux X, Ehrgott M (2010) A two phase method for multi-objective integer programming and its application to the assignment problem with three objectives. Discrete Optimization 7(3):149 – 165, ISSN 1572-5286, URL http://dx.doi.org/https://doi.org/10.1016/j.disopt.2010.03.005.<br><br>Özpeynirci O, Köksalan M (2010) An exact algorithm for finding extreme supported nondominated points of multiobjective mixed integer programs. Management Science 56(12):2302–2315, URL http://dx.doi.org/10.1287/mnsc.1100.1248.<br><br>These use an extended LP file format where multiple objectives are defined as additional constraints after the original problem's constraints. The right-hand-side value of the last constraint defines the number of objectives.
DOI: 10.6084/m9.figshare.4814695
title: 3 objective problem test cases

description: A set of randomly generated 3 objective knapsack, assignment and travelling salesman problems used to test optimisation algorithms.<br><br>These are generated using similar techniques to those of Laumanns et al. (2006) (for knapsack problems), Przybylski et al. (2010) (for assignment problems), and Özpeynirci and Köksalan (2010) (for traveling salesman problems). A knapsack instance is generated by randomly assigned an integer weight (uniformly at random in the range {60, ... , 100}) to each of n items. The upper bound on the total weight of the selected items is set to be half of the total weight of all items. Each objective function is chosen in a similar manner, with the coefficients for each item drawn uniformly<br>at random from the range {[60, ... , 100}.<br><br>Assignment problems are generated in the manner of Przybylski et al. (2010), with objective function coefficients drawn uniformly at random from {0, ... , 20}. We also generate instances of the traveling salesman problem as per Özpeynirci and Köksalan (2010). We place cities on a 1000 × 1000 plane by assigning integer coordinates to cities, and round the Euclidean distance between any two cities to an integer value.<br><br>Finally some non-Euclidean traveling salesman problems are generated by assigning distances between towns uniformly at random from {20, ..., 180}. Note that these distances will not satisfy common properties of distances or norms (such as the triangle inequality).<br><br>Laumanns M, Thiele L, Zitzler E (2006) An efficient, adaptive parameter variation scheme for metaheuristics based on the epsilon-constraint method. European Journal of Operational Research 169(3):932 – 942, ISSN 0377-2217, URL http://dx.doi.org/http://dx.doi.org/10.1016/j.ejor.2004.08.029.<br><br>Przybylski A, Gandibleux X, Ehrgott M (2010) A two phase method for multi-objective integer programming and its application to the assignment problem with three objectives. Discrete Optimization 7(3):149 – 165, ISSN 1572-5286, URL http://dx.doi.org/https://doi.org/10.1016/j.disopt.2010.03.005.<br><br>Özpeynirci O, Köksalan M (2010) An exact algorithm for finding extreme supported nondominated points of multiobjective mixed integer programs. Management Science 56(12):2302–2315, URL http://dx.doi.org/10.1287/mnsc.1100.1248.<br><br>These use an extended LP file format where multiple objectives are defined as additional constraints after the original problem's constraints. The right-hand-side value of the last constraint defines the number of objectives.
DOI: 10.6084/m9.figshare.4814689
title: Metavolcanic host rocks, mineralization, and gossans of the Shaib al Tair and Rabathan volcanogenic massive sulphide deposits of the Wadi Bidah Mineral District, Saudi Arabia

description: The Wadi Bidah Mineral District of Saudi Arabia contains more than 16 small outcropping stratabound volcanogenic Cu–Zn–(Pb) ± Au-bearing massive sulphide deposits and associated zones of hydrothermal alteration. Here, we use major and trace element analyses of massive sulphides, gossans, and hydrothermally altered and least altered metamorphosed host rock (schist) from two of the deposits (Shaib al Tair and Rabathan) to interpret the geochemical and petrological evolution of the host rocks and gossanization of the mineralization. Tectonic interpretations utilize high-field-strength elements, including the rare earth elements (REE), because they are relatively immobile during hydrothermal alteration, low-grade metamorphism, and supergene weathering and therefore are useful in constraining the source, composition, and physicochemical parameters of the primary igneous rocks, the mineralizing hydrothermal fluid and subsequent supergene weathering processes. Positive Eu anomalies in some of the massive sulphide samples are consistent with a high temperature (&gt;250°C) hydrothermal origin, consistent with the Cu contents (up to 2 wt.%) of the massive sulphides. The REE profiles of the gossans are topologically similar to nearby hydrothermally altered felsic schists (light REE (LREE)-enriched to concave-up REE profiles, with or without positive Eu anomalies) suggesting that the REE experienced little fractionation during metamorphism or supergene weathering. Hydrothermally altered rocks (now schists) close to the massive sulphide deposits have high base metals and Ba contents and have concave-up REE patterns, in contrast to the least altered host rocks, consistent with greater mobility of the middle REE compared to the light and heavy REE during hydrothermal alteration. The gossans are interpreted to represent relict massive sulphides that have undergone supergene weathering; ‘chert’ beds within these massive sulphide deposits may be leached wall-rock gossans that experienced silicification and Pb–Ba–Fe enrichment from acidic groundwaters generated during gossan formation.
DOI: 10.6084/m9.figshare.4814683
title: Spring mortality in honey bees in northeastern Italy: detection of pesticides and viruses in dead honey bees and other matrices

description: In spring there is often a rise in honey bee mortality incidents. The aim of this study was to investigate the potential correlation, in the reported incidents, between exposure to pesticide treatments and virus infections. Here we summarize the situation in northeastern Italy during spring 2014, evaluated by monitoring 150 active ingredients and three honey bee viruses in dead honey bees and other matrices. At least one active ingredient was found in 72.2% of the 79 dead honey bee samples, with the most abundant (59.4%) being insecticides, mainly belonging to the class of neonicotinoids (41.8%), followed by fungicides (40.6%). Imidacloprid, chlorpyrifos, tau-fluvalinate, and cyprodinil were the most frequently detected active ingredients. Multiple virus infections were monitored, revealing a high prevalence of chronic bee paralysis virus (CBPV) and deformed wing virus (DWV), detected in all samples except one. 71 and 37% of the CBPV- and DWV positive samples, respectively, showed a high number of viral copies per bee (&gt;10<sup>7</sup>). This work emphasizes the possible relationship between spring mortality in honey bees and pesticide treatments. Honey bee viruses could synergistically exacerbate the negative impact of pesticides on honey bee health, endangering the survival of colonies.
DOI: 10.6084/m9.figshare.4814689.v1
title: Metavolcanic host rocks, mineralization, and gossans of the Shaib al Tair and Rabathan volcanogenic massive sulphide deposits of the Wadi Bidah Mineral District, Saudi Arabia

description: The Wadi Bidah Mineral District of Saudi Arabia contains more than 16 small outcropping stratabound volcanogenic Cu–Zn–(Pb) ± Au-bearing massive sulphide deposits and associated zones of hydrothermal alteration. Here, we use major and trace element analyses of massive sulphides, gossans, and hydrothermally altered and least altered metamorphosed host rock (schist) from two of the deposits (Shaib al Tair and Rabathan) to interpret the geochemical and petrological evolution of the host rocks and gossanization of the mineralization. Tectonic interpretations utilize high-field-strength elements, including the rare earth elements (REE), because they are relatively immobile during hydrothermal alteration, low-grade metamorphism, and supergene weathering and therefore are useful in constraining the source, composition, and physicochemical parameters of the primary igneous rocks, the mineralizing hydrothermal fluid and subsequent supergene weathering processes. Positive Eu anomalies in some of the massive sulphide samples are consistent with a high temperature (&gt;250°C) hydrothermal origin, consistent with the Cu contents (up to 2 wt.%) of the massive sulphides. The REE profiles of the gossans are topologically similar to nearby hydrothermally altered felsic schists (light REE (LREE)-enriched to concave-up REE profiles, with or without positive Eu anomalies) suggesting that the REE experienced little fractionation during metamorphism or supergene weathering. Hydrothermally altered rocks (now schists) close to the massive sulphide deposits have high base metals and Ba contents and have concave-up REE patterns, in contrast to the least altered host rocks, consistent with greater mobility of the middle REE compared to the light and heavy REE during hydrothermal alteration. The gossans are interpreted to represent relict massive sulphides that have undergone supergene weathering; ‘chert’ beds within these massive sulphide deposits may be leached wall-rock gossans that experienced silicification and Pb–Ba–Fe enrichment from acidic groundwaters generated during gossan formation.
DOI: 10.6084/m9.figshare.4814698.v1
title: 4 objective problem test cases

description: A set of randomly generated 4 objective knapsack, assignment and travelling salesman problems used to test optimisation algorithms.<br><br>These use an extended LP file format where multiple objectives are defined as additional constraints after the original problem's constraints. The right-hand-side value of the last constraint defines the number of objectives.
DOI: 10.6084/m9.figshare.4814674
title: The costs of beekeeping for pollination services in the UK – an explorative study

description: Honey bees are a key managed pollination service resource in crop agriculture, providing flexible, highly generalist and resilient pollination service delivery to a broad range of UK crops. Despite their potential economic impacts, there is little information on the actual costs involved in providing pollination services experienced by UK beekeepers. Utilizing an online survey of UK beekeepers, this study examines the full economic costs of providing pollination services to crops in the UK, as well as examining the differences in costs experienced by different beekeepers. The findings indicate that &lt;10% of respondent beekeepers, mainly professionals, actively provide pollination services to crops, and rarely receive payment for this in field crops. In apple orchards, where beekeepers most often receive payments, the benefits to the orchard are estimated at 86–149 times the payments received by beekeepers. Although exploratory, the findings highlight the need for wider collection of information on beekeeping costs and several key knowledge gaps that could influence future development of the UK bee farming industry.
DOI: 10.6084/m9.figshare.4814683.v1
title: Spring mortality in honey bees in northeastern Italy: detection of pesticides and viruses in dead honey bees and other matrices

description: In spring there is often a rise in honey bee mortality incidents. The aim of this study was to investigate the potential correlation, in the reported incidents, between exposure to pesticide treatments and virus infections. Here we summarize the situation in northeastern Italy during spring 2014, evaluated by monitoring 150 active ingredients and three honey bee viruses in dead honey bees and other matrices. At least one active ingredient was found in 72.2% of the 79 dead honey bee samples, with the most abundant (59.4%) being insecticides, mainly belonging to the class of neonicotinoids (41.8%), followed by fungicides (40.6%). Imidacloprid, chlorpyrifos, tau-fluvalinate, and cyprodinil were the most frequently detected active ingredients. Multiple virus infections were monitored, revealing a high prevalence of chronic bee paralysis virus (CBPV) and deformed wing virus (DWV), detected in all samples except one. 71 and 37% of the CBPV- and DWV positive samples, respectively, showed a high number of viral copies per bee (&gt;10<sup>7</sup>). This work emphasizes the possible relationship between spring mortality in honey bees and pesticide treatments. Honey bee viruses could synergistically exacerbate the negative impact of pesticides on honey bee health, endangering the survival of colonies.
DOI: 10.6084/m9.figshare.4814659
title: MicroRNA signatures associated with thioacetamide-induced liver fibrosis in mice

description: Multiple etiologies of liver injury are associated with fibrosis in which the key event is the activation of hepatic stellate cells (HSCs). Although microRNAs (miRNAs) are reportedly involved in fibrogenesis, the complete array of miRNA signatures associated with the disease has yet to be elucidated. Here, deep sequencing analysis revealed that compared to controls, 80 miRNAs were upregulated and 21 miRNAs were downregulated significantly in the thioacetamide (TAA)-induced mouse fibrotic liver. Interestingly, 58 of the upregulated miRNAs were localized to an oncogenic miRNA megacluster upregulated in liver cancer. Differential expression of some of the TAA-responsive miRNAs was confirmed, and their human orthologs were similarly deregulated in TGF-β1-activated HSCs. Moreover, a functional analysis of the experimentally validated high-confidence miRNA targets revealed significant enrichment for the GO terms and KEGG pathways involved in HSC activation and liver fibrogenesis. This is the first comprehensive report of miRNAs profiles during TAA-induced mouse liver fibrosis. We identified 80 upregulated miRNAs and 21 downregulated miRNAs associated with TAA-induced liver fibrosis in mice.
DOI: 10.6084/m9.figshare.4814674.v1
title: The costs of beekeeping for pollination services in the UK – an explorative study

description: Honey bees are a key managed pollination service resource in crop agriculture, providing flexible, highly generalist and resilient pollination service delivery to a broad range of UK crops. Despite their potential economic impacts, there is little information on the actual costs involved in providing pollination services experienced by UK beekeepers. Utilizing an online survey of UK beekeepers, this study examines the full economic costs of providing pollination services to crops in the UK, as well as examining the differences in costs experienced by different beekeepers. The findings indicate that &lt;10% of respondent beekeepers, mainly professionals, actively provide pollination services to crops, and rarely receive payment for this in field crops. In apple orchards, where beekeepers most often receive payments, the benefits to the orchard are estimated at 86–149 times the payments received by beekeepers. Although exploratory, the findings highlight the need for wider collection of information on beekeeping costs and several key knowledge gaps that could influence future development of the UK bee farming industry.
DOI: 10.6084/m9.figshare.4814695.v1
title: 3 objective problem test cases

description: A set of randomly generated 3 objective knapsack, assignment and travelling salesman problems used to test optimisation algorithms.<br><br>These use an extended LP file format where multiple objectives are defined as additional constraints after the original problem's constraints. The right-hand-side value of the last constraint defines the number of objectives.
DOI: 10.6084/m9.figshare.4814647
title: Genome-enabled prediction for feedlot average daily gain in Nelore cattle

description: Files used to produce the results in the paper "Genome-enable prediction of breeding values for feedlot average daily weight gain in Nelore cattle" published in G3.AdjustedADGs.txt - Animal ID,year of birth during the study and adjusted feedlot average daily weight gain.<br>Genotype files in Plink format after quality control - Three files (*.bed,*.bim and *.fam) for each of the four datasets used in the analysis. <br>
DOI: 10.6084/m9.figshare.4814632
title: Effectiveness of fine root fingerprinting as a tool to identify plants of the Alps: Results of a preliminary study

description: To identify plants of the Alps through analysis of their roots is currently extremely difficult when using traditional identification methods such as dichotomous keys and/or illustrated atlases. Besides genetic analysis, other analytical methods, such as chromatographic analysis, could also be useful for root identification. Chromatographic fingerprints of root extracts of six species (<i>Betula pendula</i>, <i>Picea ab</i>ies, <i>Fagus sylvat</i>i<i>ca</i>, <i>Larix decidua</i>, <i>Fraxinus excelsior</i> and <i>Corylus avellana</i>) were analyzed in order to understand whether these species have a chromatographic fingerprint that identifies them, and hence to ascertain whether they can be identified by applying the method of analysis presented below. One hundred and sixty-two root samples were collected in various areas of the Alps and subjected to high-performance liquid chromatography (HPLC) analysis. Multivariate analysis techniques (e.g. cluster analysis) were employed for statistical analysis of chromatographic fingerprints. This study revealed that the chromatographic fingerprints of birch, spruce and larch samples were similar and that the method can therefore clearly identify the respective species. Instead, chromatographic fingerprint samples of beech, hazel and ash presented greater variability. Research proposals based on the results obtained in this study were also developed in order to implement and facilitate studies regarding plant roots.
DOI: 10.6084/m9.figshare.4814695.v2
title: 3 objective problem test cases

description: A set of randomly generated 3 objective knapsack, assignment and travelling salesman problems used to test optimisation algorithms.<br><br>These use an extended LP file format where multiple objectives are defined as additional constraints after the original problem's constraints. The right-hand-side value of the last constraint defines the number of objectives.