cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6391808
title: Supplementary Material for: Cytoplasmic RNA Granules in Somatic Maintenance

description: Cytoplasmic RNA granules represent subcellular compartments that are enriched in protein-bound RNA species. RNA granules are produced by evolutionary divergent eukaryotes, including yeast, mammals, and plants. The functions of cytoplasmic RNA granules differ widely. They are dictated by the cell type and physiological state, which in turn is determined by intrinsic cell properties and environmental factors. RNA granules provide diverse cellular functions. However, all of the granules contribute to aspects of RNA metabolism. This is exemplified by transcription, RNA storage, silencing, and degradation, as well as mRNP remodeling and regulated translation. Several forms of cytoplasmic mRNA granules are linked to normal physiological processes. For instance, they may coordinate protein synthesis and thereby serve as posttranscriptional “operons”. RNA granules also participate in cytoplasmic mRNA trafficking, a process particularly well understood for neurons. Many forms of RNA granules support the preservation of somatic cell performance under normal and stress conditions. On the other hand, severe insults or disease can cause the formation and persistence of RNA granules that contribute to cellular dysfunction, especially in the nervous system. Neurodegeneration and many other diseases linked to RNA granules are associated with aging. Nevertheless, information related to the impact of aging on the various types of RNA granules is presently very limited. This review concentrates on cytoplasmic RNA granules and their role in somatic cell maintenance. We summarize the current knowledge on different types of RNA granules in the cytoplasm, their assembly and function under normal, stress, or disease conditions. Specifically, we discuss processing bodies, neuronal granules, stress granules, and other less characterized cytoplasmic RNA granules. Our focus is primarily on mammalian and yeast models, because they have been critical to unravel the physiological role of various RNA granules. RNA granules in plants and pathogens are briefly described. We conclude our viewpoint by summarizing the emerging concepts for RNA granule biology and the open questions that need to be addressed in future studies.
DOI: 10.6084/m9.figshare.6391808.v1
title: Supplementary Material for: Cytoplasmic RNA Granules in Somatic Maintenance

description: Cytoplasmic RNA granules represent subcellular compartments that are enriched in protein-bound RNA species. RNA granules are produced by evolutionary divergent eukaryotes, including yeast, mammals, and plants. The functions of cytoplasmic RNA granules differ widely. They are dictated by the cell type and physiological state, which in turn is determined by intrinsic cell properties and environmental factors. RNA granules provide diverse cellular functions. However, all of the granules contribute to aspects of RNA metabolism. This is exemplified by transcription, RNA storage, silencing, and degradation, as well as mRNP remodeling and regulated translation. Several forms of cytoplasmic mRNA granules are linked to normal physiological processes. For instance, they may coordinate protein synthesis and thereby serve as posttranscriptional “operons”. RNA granules also participate in cytoplasmic mRNA trafficking, a process particularly well understood for neurons. Many forms of RNA granules support the preservation of somatic cell performance under normal and stress conditions. On the other hand, severe insults or disease can cause the formation and persistence of RNA granules that contribute to cellular dysfunction, especially in the nervous system. Neurodegeneration and many other diseases linked to RNA granules are associated with aging. Nevertheless, information related to the impact of aging on the various types of RNA granules is presently very limited. This review concentrates on cytoplasmic RNA granules and their role in somatic cell maintenance. We summarize the current knowledge on different types of RNA granules in the cytoplasm, their assembly and function under normal, stress, or disease conditions. Specifically, we discuss processing bodies, neuronal granules, stress granules, and other less characterized cytoplasmic RNA granules. Our focus is primarily on mammalian and yeast models, because they have been critical to unravel the physiological role of various RNA granules. RNA granules in plants and pathogens are briefly described. We conclude our viewpoint by summarizing the emerging concepts for RNA granule biology and the open questions that need to be addressed in future studies.
DOI: 10.6084/m9.figshare.6391796
title: Software artifacts for Euro-Par 2018 paper: "Efficient Strict-Binning Particle-in-Cell Algorithm for Multi-Core SIMD Processors"

description: This dataset contains artifacts relating to the results presented in the Euro-Par 2018 conference paper entitled "Efficient Strict-Binning Particle-in-Cell Algorithm for Multi-Core SIMD Processors".<br>The paper describes a multi-core PIC algorithm that achieves close-to-minimal number of memory transfers with the main memory, while at the same time exploiting SIMD instructions for numerical computations and exhibiting a high degree of OpenMP-level parallelism.<br>A README file titled Overview_document.pdf outlines the purpose and dependencies of the software, as well as instructions for compiling and running it.<br>The processes used to demonstrate the performance, validation and verification of the software are also described.<br>This artifact is composed of several folders:<br># include and src contain all the modular code for Pic-Vert (as .h and .c files). By opening them, it is possible to check that we implemented the data structures we describe in thepaper:– compiler_test.h: compiler check to know which features we can use.– diagnostics.c/h: electric field diagnostics.– fields.c/h: data structure for the electric fields.– hdf5_io.c/h: handling of HDF5 outputs.– initial_distributions.c/h: possible initial distributions of particles.– math_functions.h: useful mathematical functions not already in standard libraries.– matrix_functions.c/h: dynamic allocation of arrays.– meshes.c/h: data structure for the grid.– output.c/h: handling of outputs other than HDF5.– papi_handlers.c/h: handling of PAPI performance counters.– parameter_reader.c/h: reading parameter files for simulations.– parameters.h: useful parameters (architecture, mathematics, simulation. . . )– particle_type_concurrent_chunkbags_of_soa_XXX.c/h: data structure for particles.– poisson_solvers.c/h: data structure for the FFT Poisson solver.– random.c/h: pseudo-random number generators available.– rho.c/h: data structure for the charge density.– space_filling_curves.c/h: use of space-filling curves in the code.– variadic.h: allows to write function with default arguments in C.# simulations contains the PIC simulations that we used for this article, and that uses the files in the previous point.# scripts contains the compile and run scripts for our simulations.# memory contains spread sheets to compute the number of particles you should put in the simulation, given your architecture (prior to compilation).# Stream-test contains the Stream benchmark# post-process contains scripts to “automate data extraction and the production of plots”.# sample-outputs contains “files that represent expected outputs”.<br>
DOI: 10.6084/m9.figshare.6391796.v1
title: Software artifacts for Euro-Par 2018 paper: "Efficient Strict-Binning Particle-in-Cell Algorithm for Multi-Core SIMD Processors"

description: This dataset contains artifacts relating to the results presented in the Euro-Par 2018 conference paper entitled "Efficient Strict-Binning Particle-in-Cell Algorithm for Multi-Core SIMD Processors".<br>The paper describes a multi-core PIC algorithm that achieves close-to-minimal number of memory transfers with the main memory, while at the same time exploiting SIMD instructions for numerical computations and exhibiting a high degree of OpenMP-level parallelism.<br>A README file titled Overview_document.pdf outlines the purpose and dependencies of the software, as well as instructions for compiling and running it.<br>The processes used to demonstrate the performance, validation and verification of the software are also described.<br>This artifact is composed of several folders:<br># include and src contain all the modular code for Pic-Vert (as .h and .c files). By opening them, it is possible to check that we implemented the data structures we describe in thepaper:– compiler_test.h: compiler check to know which features we can use.– diagnostics.c/h: electric field diagnostics.– fields.c/h: data structure for the electric fields.– hdf5_io.c/h: handling of HDF5 outputs.– initial_distributions.c/h: possible initial distributions of particles.– math_functions.h: useful mathematical functions not already in standard libraries.– matrix_functions.c/h: dynamic allocation of arrays.– meshes.c/h: data structure for the grid.– output.c/h: handling of outputs other than HDF5.– papi_handlers.c/h: handling of PAPI performance counters.– parameter_reader.c/h: reading parameter files for simulations.– parameters.h: useful parameters (architecture, mathematics, simulation. . . )– particle_type_concurrent_chunkbags_of_soa_XXX.c/h: data structure for particles.– poisson_solvers.c/h: data structure for the FFT Poisson solver.– random.c/h: pseudo-random number generators available.– rho.c/h: data structure for the charge density.– space_filling_curves.c/h: use of space-filling curves in the code.– variadic.h: allows to write function with default arguments in C.# simulations contains the PIC simulations that we used for this article, and that uses the files in the previous point.# scripts contains the compile and run scripts for our simulations.# memory contains spread sheets to compute the number of particles you should put in the simulation, given your architecture (prior to compilation).# Stream-test contains the Stream benchmark# post-process contains scripts to “automate data extraction and the production of plots”.# sample-outputs contains “files that represent expected outputs”.<br>
DOI: 10.6084/m9.figshare.6391619
title: The participation of core stakeholders in the design of, and challenges to, the US Clean Power Plan

description: We examine the participation of stakeholders in the rule-making process leading to the design of the US Clean Power Plan (CPP), which was the cornerstone regulation developed during the Obama administration to lower GHG emissions from power plants in the US. Using publicly available information, we identify the core stakeholders that participated in the different stages of the rulemaking process, from the early draft of the rule to its publication in final form, and examine variables that could help explain their decisions to litigate, either against or in favour of the final version of the rule. We show that the ‘pro-CPP’ stakeholders were (a) more likely to participate during the early stages of the rule-making process, attending meetings with the Environmental Protection Agency (EPA) staff to discuss rule content, and (b) less likely to get involved during the litigation process. ‘Anti-CPP’ stakeholders, on the other hand, did the opposite, being in general less active during the rulemaking stages, and more active during the litigation stage. However, we also find that the ‘anti-CPP’ stakeholders were more tightly organized as a coalition when compared to the ‘pro-CPP’ stakeholders throughout the process (even in the early stages when they participated less). Our results shed new light on the way advocacy coalitions operate in the climate policy subsystem in the US, and help inform debates about the likelihood of conflict and cooperation across a variety of environmental policy topics. <b>Key policy insights</b>The design of the Clean Power Plan was a long and contentious process in which ‘Pro’ and ‘Anti-CPP’ coalitions operated to support and undermine the rule, respectively.‘Pro-CPP’ stakeholders were more active in meetings organized to discuss the CPP with EPA staff, and in submitting written comments.‘Anti-CPP’ stakeholders were more active during litigation, in response to perceived EPA overreach in designing the rule and negative financial impacts on states’ economies.Joint participation by ‘Anti-CPP’ stakeholders in meetings conveyed by the EPA to discuss the potential content of the rule helps explain their joint litigation efforts, which hints at their considerable capacity to self-organize as a coalition throughout the process. The design of the Clean Power Plan was a long and contentious process in which ‘Pro’ and ‘Anti-CPP’ coalitions operated to support and undermine the rule, respectively. ‘Pro-CPP’ stakeholders were more active in meetings organized to discuss the CPP with EPA staff, and in submitting written comments. ‘Anti-CPP’ stakeholders were more active during litigation, in response to perceived EPA overreach in designing the rule and negative financial impacts on states’ economies. Joint participation by ‘Anti-CPP’ stakeholders in meetings conveyed by the EPA to discuss the potential content of the rule helps explain their joint litigation efforts, which hints at their considerable capacity to self-organize as a coalition throughout the process.
DOI: 10.6084/m9.figshare.6391619.v1
title: The participation of core stakeholders in the design of, and challenges to, the US Clean Power Plan

description: We examine the participation of stakeholders in the rule-making process leading to the design of the US Clean Power Plan (CPP), which was the cornerstone regulation developed during the Obama administration to lower GHG emissions from power plants in the US. Using publicly available information, we identify the core stakeholders that participated in the different stages of the rulemaking process, from the early draft of the rule to its publication in final form, and examine variables that could help explain their decisions to litigate, either against or in favour of the final version of the rule. We show that the ‘pro-CPP’ stakeholders were (a) more likely to participate during the early stages of the rule-making process, attending meetings with the Environmental Protection Agency (EPA) staff to discuss rule content, and (b) less likely to get involved during the litigation process. ‘Anti-CPP’ stakeholders, on the other hand, did the opposite, being in general less active during the rulemaking stages, and more active during the litigation stage. However, we also find that the ‘anti-CPP’ stakeholders were more tightly organized as a coalition when compared to the ‘pro-CPP’ stakeholders throughout the process (even in the early stages when they participated less). Our results shed new light on the way advocacy coalitions operate in the climate policy subsystem in the US, and help inform debates about the likelihood of conflict and cooperation across a variety of environmental policy topics. <b>Key policy insights</b>The design of the Clean Power Plan was a long and contentious process in which ‘Pro’ and ‘Anti-CPP’ coalitions operated to support and undermine the rule, respectively.‘Pro-CPP’ stakeholders were more active in meetings organized to discuss the CPP with EPA staff, and in submitting written comments.‘Anti-CPP’ stakeholders were more active during litigation, in response to perceived EPA overreach in designing the rule and negative financial impacts on states’ economies.Joint participation by ‘Anti-CPP’ stakeholders in meetings conveyed by the EPA to discuss the potential content of the rule helps explain their joint litigation efforts, which hints at their considerable capacity to self-organize as a coalition throughout the process. The design of the Clean Power Plan was a long and contentious process in which ‘Pro’ and ‘Anti-CPP’ coalitions operated to support and undermine the rule, respectively. ‘Pro-CPP’ stakeholders were more active in meetings organized to discuss the CPP with EPA staff, and in submitting written comments. ‘Anti-CPP’ stakeholders were more active during litigation, in response to perceived EPA overreach in designing the rule and negative financial impacts on states’ economies. Joint participation by ‘Anti-CPP’ stakeholders in meetings conveyed by the EPA to discuss the potential content of the rule helps explain their joint litigation efforts, which hints at their considerable capacity to self-organize as a coalition throughout the process.
DOI: 10.5281/zenodo.4007701
title: Patents and certificates of addition granted in France from 1880 to 1903 by class of industry

description: <strong>**TITRE**</strong><br> Etat des brevets d'invention et des certificats d'addition délivrés en France entre 1880 et 1903 par classes d'industrie <strong>**VARIABLES**</strong><br> CLASS : le nom donné est le nom de la classe d'industrie qui apparaît dans la source originale. SUB-CLASS : le nom donné est le nom de la sous-classe d'industrie qui apparaît dans la source originale. TYPE : brevets d'invention ou certificats d'addition YEAR : année de délivrance<br> NUMBER : le nombre de brevets d'invention et de certificats d'addition délivrés. <strong>**SOURCES**</strong> <em>La propriété industrielle : organe officiel du Bureau international de l'Union pour la protection de la propriété industrielle</em> <br> année 1880 à 1884 : 1885/12, p. 13 ; année 1885<em> </em>:<em> </em>1886/8, p. 62 ; année 1886 : 1887/9, p. 72 ; année 1887 : 1889/5, p. 73 ; année 1888 : 1889/6, p. 90 ; année 1889 : 1890/07, p. 86 ; année 1890 : 1891/08, p. 110 ; année 1891 : 1892/08, p. 134 ; année 1892 : 1893/07, p. 100 ; année 1893 : 1894/08, p. 102 ; année 1894 : 1896/05, p. 81; année 1895 : 1897/02, p. 32; année 1896 : 1898/06, p. 100; année 1897 : 1899/01, p. 16 ; année 1898 : 1900/03, p. 55 ; année 1899 : 1900/08, p. 140 ; année 1900 : 1902/02, p. 32 ; année 1901 : 1903/03, p. 52 ; année 1902 : 1904/04, p. 72 ; année 1903 : 1906/03, p. 48. -------------------------------------------------------------------------------------------------- <strong>**TITLE**</strong><br> Number of patents granted and certificates of addition in France between 1880 and 1903 by classes of industry <strong>**VARIABLES**</strong> CLASS : the name given is the one of the class of industry that appears in the original source (in French). SUB-CLASS : the name given is the one of the sub-class of industry that appears in the original source (in French). TYPE : Patent (brevets) or certificate of addition YEAR : year of issue<br> <br> NUMBER : the number of patents and certificates of addition granted. <strong>**SOURCES**</strong><br> <em>La propriété industrielle : organe officiel du Bureau international de l'Union pour la protection de la propriété industrielle</em> year 1880 to 1884 : 1885/12, p. 13 ; year 1885 : 1886/8, p. 62 ; year 1886 : 1887/9, p. 72 ; year 1887 : 1889/5, p. 73 ; year 1888 : 1889/6, p. 90 ; year 1889 : 1890/07, p. 86 ; year 1890 : 1891/08, p. 110 ; year 1891 : 1892/08, p. 134 ; year 1892 : 1893/07, p. 100 ; year 1893 : 1894/08, p. 102 ; year 1894 : 1896/05, p. 81; year 1895 : 1897/02, p. 32; year 1896 : 1898/06, p. 100; year 1897 : 1899/01, p. 16 ; year 1898 : 1900/03, p. 55 ; year 1899 : 1900/08, p. 140 ; year 1900 : 1902/02, p. 32 ; year 1901 : 1903/03, p. 52 ; year 1902 : 1904/04, p. 72 ; year 1903 : 1906/03, p. 48.
DOI: 10.5281/zenodo.4007700
title: Patents and certificates of addition granted in France from 1880 to 1903 by class of industry

description: <strong>**TITRE**</strong><br> Etat des brevets d'invention et des certificats d'addition délivrés en France entre 1880 et 1903 par classes d'industrie <strong>**VARIABLES**</strong><br> CLASS : le nom donné est le nom de la classe d'industrie qui apparaît dans la source originale. SUB-CLASS : le nom donné est le nom de la sous-classe d'industrie qui apparaît dans la source originale. TYPE : brevets d'invention ou certificats d'addition YEAR : année de délivrance<br> NUMBER : le nombre de brevets d'invention et de certificats d'addition délivrés. <strong>**SOURCES**</strong> <em>La propriété industrielle : organe officiel du Bureau international de l'Union pour la protection de la propriété industrielle</em> <br> année 1880 à 1884 : 1885/12, p. 13 ; année 1885<em> </em>:<em> </em>1886/8, p. 62 ; année 1886 : 1887/9, p. 72 ; année 1887 : 1889/5, p. 73 ; année 1888 : 1889/6, p. 90 ; année 1889 : 1890/07, p. 86 ; année 1890 : 1891/08, p. 110 ; année 1891 : 1892/08, p. 134 ; année 1892 : 1893/07, p. 100 ; année 1893 : 1894/08, p. 102 ; année 1894 : 1896/05, p. 81; année 1895 : 1897/02, p. 32; année 1896 : 1898/06, p. 100; année 1897 : 1899/01, p. 16 ; année 1898 : 1900/03, p. 55 ; année 1899 : 1900/08, p. 140 ; année 1900 : 1902/02, p. 32 ; année 1901 : 1903/03, p. 52 ; année 1902 : 1904/04, p. 72 ; année 1903 : 1906/03, p. 48. -------------------------------------------------------------------------------------------------- <strong>**TITLE**</strong><br> Number of patents granted and certificates of addition in France between 1880 and 1903 by classes of industry <strong>**VARIABLES**</strong> CLASS : the name given is the one of the class of industry that appears in the original source (in French). SUB-CLASS : the name given is the one of the sub-class of industry that appears in the original source (in French). TYPE : Patent (brevets) or certificate of addition YEAR : year of issue<br> <br> NUMBER : the number of patents and certificates of addition granted. <strong>**SOURCES**</strong><br> <em>La propriété industrielle : organe officiel du Bureau international de l'Union pour la protection de la propriété industrielle</em> year 1880 to 1884 : 1885/12, p. 13 ; year 1885 : 1886/8, p. 62 ; year 1886 : 1887/9, p. 72 ; year 1887 : 1889/5, p. 73 ; year 1888 : 1889/6, p. 90 ; year 1889 : 1890/07, p. 86 ; year 1890 : 1891/08, p. 110 ; year 1891 : 1892/08, p. 134 ; year 1892 : 1893/07, p. 100 ; year 1893 : 1894/08, p. 102 ; year 1894 : 1896/05, p. 81; year 1895 : 1897/02, p. 32; year 1896 : 1898/06, p. 100; year 1897 : 1899/01, p. 16 ; year 1898 : 1900/03, p. 55 ; year 1899 : 1900/08, p. 140 ; year 1900 : 1902/02, p. 32 ; year 1901 : 1903/03, p. 52 ; year 1902 : 1904/04, p. 72 ; year 1903 : 1906/03, p. 48.