cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5833372
title: Cryo-EM maps: Mitoribosomal small subunit maturation involves formation of initiation-like complexes

description: <strong>Final cryo-EM maps for the complexes described in the article <em>Mitoribosomal small subunit maturation involves formation of initiation-like complexes</em></strong> Abstract: Mitochondrial ribosomes (mitoribosomes) play a central role in synthesizing mitochondrial inner membrane proteins responsible for oxidative phosphorylation. Although mitoribosomes from different organisms exhibit considerable structural variations, recent insights into mitoribosome assembly suggest that mitoribosome maturation follows common principles and involves a number of conserved assembly factors. To investigate the steps involved in the assembly of the mitoribosomal small subunit (mt-SSU) we determined the cryo-electron microscopy structures of middle and late assembly intermediates of the Trypanosoma brucei mitochondrial small subunit (mt-SSU) at 3.6 and 3.7 Å resolution, respectively. We identified five novel assembly factors that together with the mitochondrial initiation factor 2 specifically interact with functionally important regions of the rRNA including the decoding center, thereby preventing premature mRNA or large subunit binding. Structural comparison of assembly intermediates with mature mt-SSU combined with RNAi experiments suggests a new, non-canonical role of mitochondrial initiation factor 2 and a stepwise assembly process, where modular exchange of ribosomal proteins and assembly factors together with mt-IF-2 ensure proper 9S rRNA folding and protein maturation during the final steps of assembly.
DOI: 10.5281/zenodo.5833371
title: Cryo-EM maps: Mitoribosomal small subunit maturation involves formation of initiation-like complexes

description: <strong>Final cryo-EM maps for the complexes described in the article <em>Mitoribosomal small subunit maturation involves formation of initiation-like complexes</em></strong> Abstract: Mitochondrial ribosomes (mitoribosomes) play a central role in synthesizing mitochondrial inner membrane proteins responsible for oxidative phosphorylation. Although mitoribosomes from different organisms exhibit considerable structural variations, recent insights into mitoribosome assembly suggest that mitoribosome maturation follows common principles and involves a number of conserved assembly factors. To investigate the steps involved in the assembly of the mitoribosomal small subunit (mt-SSU) we determined the cryo-electron microscopy structures of middle and late assembly intermediates of the Trypanosoma brucei mitochondrial small subunit (mt-SSU) at 3.6 and 3.7 Å resolution, respectively. We identified five novel assembly factors that together with the mitochondrial initiation factor 2 specifically interact with functionally important regions of the rRNA including the decoding center, thereby preventing premature mRNA or large subunit binding. Structural comparison of assembly intermediates with mature mt-SSU combined with RNAi experiments suggests a new, non-canonical role of mitochondrial initiation factor 2 and a stepwise assembly process, where modular exchange of ribosomal proteins and assembly factors together with mt-IF-2 ensure proper 9S rRNA folding and protein maturation during the final steps of assembly.
DOI: 10.5517/ccdc.csd.cc288xfx
title: CCDC 2093939: Experimental Crystal Structure Determination

description: Related Article: T.A. Antonenko, Yu.A. Gracheva, D.B. Shpakovsky, M.A. Vorobyev, V.A. Tafeenko, D.M. Mazur, E.R. Milaeva|2022|J.Organomet.Chem.|960|122191|doi:10.1016/j.jorganchem.2021.122191
DOI: 10.5517/ccdc.csd.cc288xgy
title: CCDC 2093940: Experimental Crystal Structure Determination

description: Related Article: T.A. Antonenko, Yu.A. Gracheva, D.B. Shpakovsky, M.A. Vorobyev, V.A. Tafeenko, D.M. Mazur, E.R. Milaeva|2022|J.Organomet.Chem.|960|122191|doi:10.1016/j.jorganchem.2021.122191
DOI: 10.5517/ccdc.csd.cc288xhz
title: CCDC 2093941: Experimental Crystal Structure Determination

description: Related Article: T.A. Antonenko, Yu.A. Gracheva, D.B. Shpakovsky, M.A. Vorobyev, V.A. Tafeenko, D.M. Mazur, E.R. Milaeva|2022|J.Organomet.Chem.|960|122191|doi:10.1016/j.jorganchem.2021.122191
DOI: 10.5517/ccdc.csd.cc28rf5n
title: CCDC 2107881: Experimental Crystal Structure Determination

description: Related Article: Elena V. Savinkina, Igor A. Karavaev, Mikhail S. Grigoriev, Grigorii A. Buzanov, Margarita N. Davydova|2022|Inorg.Chim.Acta|532|120759|doi:10.1016/j.ica.2021.120759
DOI: 10.5517/ccdc.csd.cc28rf6p
title: CCDC 2107882: Experimental Crystal Structure Determination

description: Related Article: Elena V. Savinkina, Igor A. Karavaev, Mikhail S. Grigoriev, Grigorii A. Buzanov, Margarita N. Davydova|2022|Inorg.Chim.Acta|532|120759|doi:10.1016/j.ica.2021.120759
DOI: 10.5517/ccdc.csd.cc2890vg
title: CCDC 2094045: Experimental Crystal Structure Determination

description: Related Article: Rui-Xue Cheng, Fei-Yang Tian, Li-Xia Chen, Qian-Jiang Zhu, Kai Chen, Zhu Tao|2021|Cryst.Growth Des.|22|747|doi:10.1021/acs.cgd.1c01248
DOI: 10.5281/zenodo.5832026
title: Quasi-distributed fiber optic monitoring of thermo-hydro behavior of frozen loess for frost heave prediction

description: We developed a quasi-distributed fiber optic monitoring technology to investigate the thermo-hydro-mechanical (THM) behaviors of frozen loess. A combined method was proposed to measure in-situ ice content, providing critical parameters for understanding THM coupled effects. To characterize the soil freezing-thawing process, we further carried out subsurface automated multiphysics monitoring at a site located on the Loess Plateau, China, during 2020/2021 winter by employing quasi-distributed fiber optic sensing arrays. The inner mechanism of frost heave was revealed via field monitoring data and correlation analysis, which directly promoted the development of a semiempirical frost heave prediction method. For this study area, the proposed method requiring only temperature data as inputs was validated using our field monitoring results. The data presented here are the monitoring data of in-situ temperature, moisture content, and soil displacement. The results of frost heave prediction based on the field monitoring data are shown in the files.
DOI: 10.5281/zenodo.5832025
title: Quasi-distributed fiber optic monitoring of thermo-hydro behavior of frozen loess for frost heave prediction

description: We developed a quasi-distributed fiber optic monitoring technology to investigate the thermo-hydro-mechanical (THM) behaviors of frozen loess. A combined method was proposed to measure in-situ ice content, providing critical parameters for understanding THM coupled effects. To characterize the soil freezing-thawing process, we further carried out subsurface automated multiphysics monitoring at a site located on the Loess Plateau, China, during 2020/2021 winter by employing quasi-distributed fiber optic sensing arrays. The inner mechanism of frost heave was revealed via field monitoring data and correlation analysis, which directly promoted the development of a semiempirical frost heave prediction method. For this study area, the proposed method requiring only temperature data as inputs was validated using our field monitoring results. The data presented here are the monitoring data of in-situ temperature, moisture content, and soil displacement. The results of frost heave prediction based on the field monitoring data are shown in the files.
DOI: 10.5281/zenodo.3254403
title: AndyData-lab-onePerson

description: This datasets contains motion and force measurements of humans performing various manual tasks, as well as annotations of the actions and postures adopted by the participants. 13 participants performed a series of activities mimicking industrial tasks, such as setting screws at different heights and manipulating loads (15 trials per participant, duration of one trial: between 1.5 and 2 min). Participants' whole-body kinematics and hand contact pressure force were recorded. Whole-body kinematics was recorded both with optical (gold standard) and inertial motion capture systems. Hand pressure force was recorded with a prototype glove equipped with pressure sensors. Videos of the participants performing the activities were then annotated by 3 human annotator, to specify the action performed and the posture adopted in each frame of the video. Posture taxonomy follows the Ergonomic Assessment Worksheet (EAWS) postural grid. Action taxonomy defines elementary actions such as reaching, carrying, picking. All data files are provided in proprietary format (when existing), in standard motion analysis format and in csv format. Annotations are provided in csv format. Videos of a human avatar replaying participants' motion are also provided (annotations were performed on those videos). A detailed description of how the data were collected is available in the paper associated with the dataset: "Human Movement and Ergonomics: an Industry-Oriented Dataset for Collaborative Robotics" (Maurice <em>et al., IJRR, </em>in press) https://hal.archives-ouvertes.fr/hal-02289107/document
description: Acknowledgement: Part of the equipment used to create the database was funded by the CPER IT2MP of Région Grand-Est, France.
DOI: 10.5281/zenodo.1471974
title: AndyData-lab-onePerson

description: This datasets contains motion and force measurements of humans performing various manual tasks, as well as annotations of the actions and postures adopted by the participants. 13 participants performed a series of activities mimicking industrial tasks, such as setting screws at different heights and manipulating loads (15 trials per participant, duration of one trial: between 1.5 and 2 min). Participants' whole-body kinematics and hand contact pressure force were recorded. Whole-body kinematics was recorded both with optical (gold standard) and inertial motion capture systems. Hand pressure force was recorded with a prototype glove equipped with pressure sensors. Videos of the participants performing the activities were then annotated by 3 human annotator, to specify the action performed and the posture adopted in each frame of the video. Posture taxonomy follows the Ergonomic Assessment Worksheet (EAWS) postural grid. Action taxonomy defines elementary actions such as reaching, carrying, picking. All data files are provided in proprietary format (when existing), in standard motion analysis format and in csv format. Annotations are provided in csv format. Videos of a human avatar replaying participants' motion are also provided (annotations were performed on those videos). A detailed description of how the data were collected is available in the paper associated with the dataset: "Human Movement and Ergonomics: an Industry-Oriented Dataset for Collaborative Robotics" (Maurice <em>et al., IJRR, </em>in press) https://hal.archives-ouvertes.fr/hal-02289107/document
description: Acknowledgement: Part of the equipment used to create the database was funded by the CPER IT2MP of Région Grand-Est, France.
DOI: 10.5281/zenodo.5831867
title: Causes for spatiotemporal variation in reproductive performance of Eurasian oystercatchers in a human-dominated landscape

description: These data comprise the data of four chapters from the PhD thesis from Frauendorf (2022) entitled 'Causes for spatiotemporal variation in reproductive performance of Eurasian oystercatchers in a human-dominated landscape’. The thesis focusses on quantifying the anthropogenic impacts on the reproductive performance of oystercatchers across the Netherlands. The dataset contains data from chapter 3, 5 and 6, which were used in the thesis but are not published open access yet. For chapter 3 oystercatchers were caught during winter across the wintering ground of oystercatchers (Wadden sea and Delta estuary) and their condition was measured (physiological measurements through blood and biometric measurements). The data also include resighting data from ringed individuals that were used for mark-recapture survival analysis (state and age matrices). In addition, environmental variables were collected from open source data. Next, the birds were followed from their wintering ground to the breeding ground where we measured their reproductive success. Chapter 5 includes data about the reproductive performance of oystercatchers (available from several different data sources across the Netherlands). Next, we collected data on the environment from different (open access) data sources about for instance habitat type, land use intensity, predation and food availability. In chapter 6, we used data on bill shape as a proxy for feeding specialization based on data from winter catches (chapter 3 in PhD thesis) to illustrate the proportion of birds with different feeding specialization in the studied population.
description: Usage Notes The data consists of a three folders that contains the data of the three chapters of the PhD thesis (Chapters 3, 5 and 6). Chapter 3 and 5 are unpublished chapters that will be published in the future. In chapter 6, the synthesis, data were used and can be found here. However, there are no plans to publish the chapter and the data. Each folder contains data (and code) of the chapter as well as a readme file with information on the provided data. Funding Stichting voor de Technische Wetenschappen, Award: 14638
DOI: 10.5281/zenodo.5831866
title: Causes for spatiotemporal variation in reproductive performance of Eurasian oystercatchers in a human-dominated landscape

description: These data comprise the data of four chapters from the PhD thesis from Frauendorf (2022) entitled 'Causes for spatiotemporal variation in reproductive performance of Eurasian oystercatchers in a human-dominated landscape’. The thesis focusses on quantifying the anthropogenic impacts on the reproductive performance of oystercatchers across the Netherlands. The dataset contains data from chapter 3, 5 and 6, which were used in the thesis but are not published open access yet. For chapter 3 oystercatchers were caught during winter across the wintering ground of oystercatchers (Wadden sea and Delta estuary) and their condition was measured (physiological measurements through blood and biometric measurements). The data also include resighting data from ringed individuals that were used for mark-recapture survival analysis (state and age matrices). In addition, environmental variables were collected from open source data. Next, the birds were followed from their wintering ground to the breeding ground where we measured their reproductive success. Chapter 5 includes data about the reproductive performance of oystercatchers (available from several different data sources across the Netherlands). Next, we collected data on the environment from different (open access) data sources about for instance habitat type, land use intensity, predation and food availability. In chapter 6, we used data on bill shape as a proxy for feeding specialization based on data from winter catches (chapter 3 in PhD thesis) to illustrate the proportion of birds with different feeding specialization in the studied population.
description: Usage Notes The data consists of a three folders that contains the data of the three chapters of the PhD thesis (Chapters 3, 5 and 6). Chapter 3 and 5 are unpublished chapters that will be published in the future. In chapter 6, the synthesis, data were used and can be found here. However, there are no plans to publish the chapter and the data. Each folder contains data (and code) of the chapter as well as a readme file with information on the provided data. Funding Stichting voor de Technische Wetenschappen, Award: 14638
DOI: 10.5281/zenodo.5830531
title: Gone with the wind: The consequences of US drone strikes in Pakistan

description: Mahmood, R. and Jetter, M. (2021). Gone with the wind: The consequences of US drone strikes in Pakistan. <em>The Economic Journal</em> (forthcoming).
DOI: 10.5281/zenodo.5830530
title: Gone with the wind: The consequences of US drone strikes in Pakistan

description: Mahmood, R. and Jetter, M. (2021). Gone with the wind: The consequences of US drone strikes in Pakistan. <em>The Economic Journal</em> (forthcoming).
DOI: 10.5281/zenodo.5827603
title: Replication package for: "The Smoot-Hawley Trade War"

description: Replication package for: Mitchener, K.J., O'Rourke, K.H., and Wandschneider, K. (2022), "The Smoot-Hawley Trade War".
DOI: 10.5281/zenodo.5824456
title: Replication package for: Price Floors and Externality Correction

description: Replication data for Griffith, O'Connell and Smith (2022) "Price Floors and Externality Correction" Economic Journal
DOI: 10.5281/zenodo.5824455
title: Replication package for: Price Floors and Externality Correction

description: Replication data for Griffith, O'Connell and Smith (2022) "Price Floors and Externality Correction" Economic Journal
DOI: 10.5281/zenodo.5827602
title: Replication package for: "The Smoot-Hawley Trade War"

description: Replication package for: Mitchener, K.J., O'Rourke, K.H., and Wandschneider, K. (2022), "The Smoot-Hawley Trade War".
DOI: 10.6084/m9.figshare.18099659
title: RBBH Orthologue Presence/Absence Validation

description: RBBHs to validate presence/absence of orthologues after OrthoFinder analysis.
DOI: 10.6084/m9.figshare.18099659.v1
title: RBBH Orthologue Presence/Absence Validation

description: RBBHs to validate presence/absence of orthologues after OrthoFinder analysis.
DOI: 10.5281/zenodo.5833466
title: Inputs and results of "A qualitative and quantitative analysis of open citations to retracted articles: the Wakefield 1998 et al.'s case"

description: This repository contains the datasets and visualizations generated in our work: <strong>"A qualitative and quantitative analysis of open citations to retracted articles: the Wakefield 1998 et al.’s case"</strong>. <strong>Note:</strong> the data are all contained inside the <strong><em>data.zip</em> </strong>file. You need to unzip the container to get access to all the files and directories listed below. The data (citations) gathered accompanied by their annotated characteristics are stored in <strong><em>data/</em>:</strong> <em><strong>"cits_features.csv": </strong></em>a dataset containing all the entities (rows in the CSV) which have cited the Wakefield et al. retracted article, and a set of features characterizing each citing entity (columns in the CSV). The features included are: DOI ("doi"), year of publication ("year"), the title ("title"), the venue identifier ("source_id"), the title of the venue ("source_title"), yes/no value in case the entity is retracted as well ("retracted"), the subject area ("area"), the subject category ("category"), the sections of the in-text citations ("intext_citation.section"), the value of the reference pointer ("intext_citation.pointer"), the in-text citation function ("intext_citation.intent"), the in-text citation perceived sentiment ("intext_citation.sentiment"), and a yes/no value to denote whether the in-text citation context mentions the retraction of the cited entity ("intext_citation.section.ret_mention").<br> <strong>Note: </strong>this dataset is licensed under a Creative Commons public domain dedication (CC0). <em><strong>"cits_text.csv": </strong>this dataset stores the abstract ("abstract") and the in-text citations context ("intext_citation.context") </em>for each citing entity identified using the DOI value ("doi").<br> <strong>Note: </strong>the data keep their original license (the one provided by their publisher). This dataset is provided in order to favor the reproducibility of the results obtained in our work. <strong>Topic modeling</strong> We run a topic modeling analysis on the textual features gathered (i.e. abstracts and citation contexts). The results are stored inside the <em><strong>topic_modeling/</strong></em> directory. The topic modeling has been done using MITAO, a tool for mashing up automatic text analysis tools and creating a completely customizable visual workflow [1]. The topic modeling results for each textual feature are separated into two different folders, <em><strong>abstract/</strong></em> for the abstracts, and <em><strong>intext_cit/</strong></em> for the in-text citation contexts. Both the directories contain the datasets and visualizations generated using MITAO. <strong>References</strong> [1] Ferri, P., Heibi, I., Pareschi, L., & Peroni, S. (2020). MITAO: A User Friendly and Modular Software for Topic Modelling [JD]. PuntOorg International Journal, 5(2), 135–149. https://doi.org/10.19245/25.05.pij.5.2.3
DOI: 10.5281/zenodo.5833465
title: Inputs and results of "A qualitative and quantitative analysis of open citations to retracted articles: the Wakefield 1998 et al.'s case"

description: This repository contains the datasets and visualizations generated in our work: <strong>"A qualitative and quantitative analysis of open citations to retracted articles: the Wakefield 1998 et al.’s case"</strong>. <strong>Note:</strong> the data are all contained inside the <strong><em>data.zip</em> </strong>file. You need to unzip the container to get access to all the files and directories listed below. The data (citations) gathered accompanied by their annotated characteristics are stored in <strong><em>data/</em>:</strong> <em><strong>"cits_features.csv": </strong></em>a dataset containing all the entities (rows in the CSV) which have cited the Wakefield et al. retracted article, and a set of features characterizing each citing entity (columns in the CSV). The features included are: DOI ("doi"), year of publication ("year"), the title ("title"), the venue identifier ("source_id"), the title of the venue ("source_title"), yes/no value in case the entity is retracted as well ("retracted"), the subject area ("area"), the subject category ("category"), the sections of the in-text citations ("intext_citation.section"), the value of the reference pointer ("intext_citation.pointer"), the in-text citation function ("intext_citation.intent"), the in-text citation perceived sentiment ("intext_citation.sentiment"), and a yes/no value to denote whether the in-text citation context mentions the retraction of the cited entity ("intext_citation.section.ret_mention").<br> <strong>Note: </strong>this dataset is licensed under a Creative Commons public domain dedication (CC0). <em><strong>"cits_text.csv": </strong>this dataset stores the abstract ("abstract") and the in-text citations context ("intext_citation.context") </em>for each citing entity identified using the DOI value ("doi").<br> <strong>Note: </strong>the data keep their original license (the one provided by their publisher). This dataset is provided in order to favor the reproducibility of the results obtained in our work. <strong>Topic modeling</strong> We run a topic modeling analysis on the textual features gathered (i.e. abstracts and citation contexts). The results are stored inside the <em><strong>topic_modeling/</strong></em> directory. The topic modeling has been done using MITAO, a tool for mashing up automatic text analysis tools and creating a completely customizable visual workflow [1]. The topic modeling results for each textual feature are separated into two different folders, <em><strong>abstract/</strong></em> for the abstracts, and <em><strong>intext_cit/</strong></em> for the in-text citation contexts. Both the directories contain the datasets and visualizations generated using MITAO. <strong>References</strong> [1] Ferri, P., Heibi, I., Pareschi, L., & Peroni, S. (2020). MITAO: A User Friendly and Modular Software for Topic Modelling [JD]. PuntOorg International Journal, 5(2), 135–149. https://doi.org/10.19245/25.05.pij.5.2.3
DOI: 10.5281/zenodo.5833462
title: data set regarding to project Optimal assessment of nutritional status in older subjects with the chronic obstructive pulmonary disease – a comparison of three screening tools used in the GLIM diagnostic algorithm

description: data set regarding to project Optimal assessment of nutritional status in older subjects with the chronic obstructive pulmonary disease – a comparison of three screening tools used in the GLIM diagnostic algorithm