cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5792030
title: Papilio gigon decontaminated FSCR

description: .
DOI: 10.5281/zenodo.5792029
title: Papilio gigon decontaminated FSCR

description: .
DOI: 10.5281/zenodo.5338509
title: Input Data for "Assembly and Analysis of Cell-Scale Membrane Envelopes"

description: Input structures for a manuscript, along with selected output data and structures. This directory structure contains a cut-down copy of the directories used to generate the simulation data and the analysis. In order to make this fit into the 50GB Zenodo limit, it was constructed with the following tar command: `tar -zcvf protocellmodeling.tar.gz --exclude="*BAK" --exclude="*#" --exclude="*xtc" --exclude="*gro" --exclude="*trr" --exclude="*js" --exclude="*[0-9].out" --exclude="*old" --exclude="*dcd" --exclude="*tmp" --exclude="*xst" --exclude="*edr" --exclude="*state_prev.cpt" --exclude="*.o[0-9]*" cgDracula`, which intentionally excludes large files. The full 4.8TB dataset that includes trajectories is available upon request. The data is split into multiple subdirectories and largely undocumented, however here are the highlights: The <strong>Analysis</strong> subdirectory is where the analysis in the paper lives. All other directories are related to building or running systems. <strong>getsources.py</strong> in the main directory is the script that downloads the initial structure from MemProtMD. <strong>transform.py</strong> builds the initial protein models from MemProtMD. <strong>vesiclebuilder.py</strong> builds the lipid ball. <strong>protpatchplacer.py</strong> sets up the ultra-coarse grained simulation, which is in the <strong>supercg</strong> directory. <strong>movepatches.py</strong> takes the results from the ultra-coarse grained simulation, and builds the protein ball. <strong>gendx.tcl</strong> generates the density maps from the protein ball. This is used in <strong>lipids/picklipids.py</strong>, which cuts out the pieces of the lipid that need to be removed. The water is added to the system with <strong>addwater/quicksolvate.sh</strong> The system is ionized by <strong>ionize.py</strong> And a topology is written by <strong>writetop.py</strong>
DOI: 10.5281/zenodo.5338508
title: Input Data for "Assembly and Analysis of Cell-Scale Membrane Envelopes"

description: Input structures for a manuscript, along with selected output data and structures. This directory structure contains a cut-down copy of the directories used to generate the simulation data and the analysis. In order to make this fit into the 50GB Zenodo limit, it was constructed with the following tar command: `tar -zcvf protocellmodeling.tar.gz --exclude="*BAK" --exclude="*#" --exclude="*xtc" --exclude="*gro" --exclude="*trr" --exclude="*js" --exclude="*[0-9].out" --exclude="*old" --exclude="*dcd" --exclude="*tmp" --exclude="*xst" --exclude="*edr" --exclude="*state_prev.cpt" --exclude="*.o[0-9]*" cgDracula`, which intentionally excludes large files. The full 4.8TB dataset that includes trajectories is available upon request. The data is split into multiple subdirectories and largely undocumented, however here are the highlights: The <strong>Analysis</strong> subdirectory is where the analysis in the paper lives. All other directories are related to building or running systems. <strong>getsources.py</strong> in the main directory is the script that downloads the initial structure from MemProtMD. <strong>transform.py</strong> builds the initial protein models from MemProtMD. <strong>vesiclebuilder.py</strong> builds the lipid ball. <strong>protpatchplacer.py</strong> sets up the ultra-coarse grained simulation, which is in the <strong>supercg</strong> directory. <strong>movepatches.py</strong> takes the results from the ultra-coarse grained simulation, and builds the protein ball. <strong>gendx.tcl</strong> generates the density maps from the protein ball. This is used in <strong>lipids/picklipids.py</strong>, which cuts out the pieces of the lipid that need to be removed. The water is added to the system with <strong>addwater/quicksolvate.sh</strong> The system is ionized by <strong>ionize.py</strong> And a topology is written by <strong>writetop.py</strong>
DOI: 10.5517/ccdc.csd.cc28wcbw
title: CCDC 2111668: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.5517/ccdc.csd.cc28wccx
title: CCDC 2111669: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.5517/ccdc.csd.cc28wcdy
title: CCDC 2111670: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.5517/ccdc.csd.cc28wcfz
title: CCDC 2111671: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.5517/ccdc.csd.cc28wcg0
title: CCDC 2111672: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.5517/ccdc.csd.cc28wch1
title: CCDC 2111673: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.5517/ccdc.csd.cc28wck3
title: CCDC 2111675: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.5517/ccdc.csd.cc28wcl4
title: CCDC 2111676: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.5517/ccdc.csd.cc28wcm5
title: CCDC 2111677: Experimental Crystal Structure Determination

description: Related Article: Nina Budantseva, Grigory Andreev, Marina Sokolova, Aleksander Fedoseev|2021|Inorg.Chem.|60|18395|doi:10.1021/acs.inorgchem.1c02991
DOI: 10.6084/m9.figshare.17287415
title: AA-Pruebadeposito-BBM.xlsx

description: Práctica Acceso Abierto. Grado en Información y Documentación
DOI: 10.6084/m9.figshare.17287415.v1
title: AA-Pruebadeposito-BBM.xlsx

description: Práctica Acceso Abierto. Grado en Información y Documentación
DOI: 10.5281/zenodo.5792083
title: Data for the article on 'Nominal and pronominal negative concord, through the lens of Belizean and Jamaican Creole' by J. van der Auwera, published in Linguistics

description: Data for the article on 'Nominal and pronominal negative concord, through the lens of Belizean and Jamaican Creole' by J. van der Auwera, published in Linguistics
DOI: 10.5281/zenodo.5792082
title: Data for the article on 'Nominal and pronominal negative concord, through the lens of Belizean and Jamaican Creole' by J. van der Auwera, published in Linguistics

description: Data for the article on 'Nominal and pronominal negative concord, through the lens of Belizean and Jamaican Creole' by J. van der Auwera, published in Linguistics
DOI: 10.5281/zenodo.5792081
title: ARTE experiments replication package

description: This dataset contains the replication package for the paper entitled "ARTE: Automated Generation of Realistic Test Inputs for Web APIs"
DOI: 10.5281/zenodo.5083178
title: ARTE experiments replication package

description: This dataset contains the replication package for the paper entitled "ARTE: Automated Generation of Realistic Test Inputs for Web APIs"
DOI: 10.5281/zenodo.5792115
title: Data and scripts for the article on 'Affectedness and Differential Object Marking in Turkish and Uzbek', published in Linguistics

description: Data and scripts for the article on 'Affectedness and Differential Object Marking in Turkish and Uzbek', published in Linguistics; see the publication for details
DOI: 10.5281/zenodo.5792114
title: Data and scripts for the article on 'Affectedness and Differential Object Marking in Turkish and Uzbek', published in Linguistics

description: Data and scripts for the article on 'Affectedness and Differential Object Marking in Turkish and Uzbek', published in Linguistics; see the publication for details
DOI: 10.5281/zenodo.5747164
title: Critical thermal maximum of male and female ditch shrimps (Palaemon varians) [dataset].

description: Dataset on the upper thermal tolerance limits (Critical Thermal Maximum, CTmax) of male and female<em> Palaemon varians</em> shrimps collected from the salt pan complex of Marinha de Santiago da Fonte, Ria de Aveiro, Portugal (40 ̊ 37’44.5’’N, 08 ̊ 39’37.3’’W). Data on weight and lenght are also included. Temperature data for the sampling site were collected with a HOBO datalogger (water Temp Pro v2 U22-001, Onset, USA) and are also included. Dataset associated to the article https://doi.org/10.1016/j.jtherbio.2021.103151
description: This work was supported by project AquaMMIn (MAR-02.01.01-FEAMP-0038), co- funded by Portugal 2020 and the European Union through Mar2020, the Operational Programme (OP) for the European Maritime and Fisheries Fund (EMFF) in Portugal. MT and MM acknowledge the research grants funded within AquaMMIn project (DBIO/BL-5/AQUAMMIN-2021). Thanks are also due for the financial support to CESAM (UIDP/50017/2020+UIDB/50017/2020), to FCT/MEC through Scientific Employment Stimulus – Individual Call 2018 (CEECIND/01250/2018 to DM) and PhD scholarship call 2021 (2021.04675.BD to JFF), and to the co-funding by the FEDER, within the PT2020 Partnership Agreement and Compete 2020.
DOI: 10.5281/zenodo.5747163
title: Critical thermal maximum of male and female ditch shrimps (Palaemon varians) [dataset].

description: Dataset on the upper thermal tolerance limits (Critical Thermal Maximum, CTmax) of male and female<em> Palaemon varians</em> shrimps collected from the salt pan complex of Marinha de Santiago da Fonte, Ria de Aveiro, Portugal (40 ̊ 37’44.5’’N, 08 ̊ 39’37.3’’W). Data on weight and lenght are also included. Temperature data for the sampling site were collected with a HOBO datalogger (water Temp Pro v2 U22-001, Onset, USA) and are also included. Dataset associated to the article https://doi.org/10.1016/j.jtherbio.2021.103151
description: This work was supported by project AquaMMIn (MAR-02.01.01-FEAMP-0038), co- funded by Portugal 2020 and the European Union through Mar2020, the Operational Programme (OP) for the European Maritime and Fisheries Fund (EMFF) in Portugal. MT and MM acknowledge the research grants funded within AquaMMIn project (DBIO/BL-5/AQUAMMIN-2021). Thanks are also due for the financial support to CESAM (UIDP/50017/2020+UIDB/50017/2020), to FCT/MEC through Scientific Employment Stimulus – Individual Call 2018 (CEECIND/01250/2018 to DM) and PhD scholarship call 2021 (2021.04675.BD to JFF), and to the co-funding by the FEDER, within the PT2020 Partnership Agreement and Compete 2020.
DOI: 10.5281/zenodo.4601024
title: Influence of temperature and salinity on the cellular stress response and energy reserves of Hediste diversicolor.

description: Raw data on survival rates, wet weight, cellular stress response, oxidative stress and energy reserves of the ragworm Hediste diversicolor collected at Ria de Aveiro (Portugal) and subjected to a combination of different temperatures (24, 27 and 30 ºC) and salinities (20 and 30) over time (14 and 28 days). The biomarkers analysed include: heat shock protein 70 kDa, total ubiquitin, catalase, superoxide dismutase, glutathione-S-transferase, total antioxidant capacity, lipid peroxidation, glucose, glycogen, total protein and total lipids.
description: This work was supported by project AquaMMIn [MAR-02.01.01-FEAMP-0038], co-funded by Portugal 2020 and the European Union through Mar2020, the Operational Programme (OP) for the European Maritime and Fisheries Fund (EMFF) in Portugal and by the Integrated Programme of SR&TD "SmartBioR - Smart Valorization of Endogenous Marine Biological Resources Under a Changing Climate" [Centro-01-0145-FEDER-000018], co-funded by Centro 2020 program, Portugal 2020, European Union, through the European Regional Development Fund. This work was also supported by L'Oreal/FCT/UNESCO through the prize L'Oreal Medals of Honour for Women in Science Portugal 2018 awarded to DM. Thanks are also due for the financial support to CESAM [UIDP/50017/2020+UIDB/50017/2020], UCIBIO [UIDP/04378/2020+UIDB/04378/2020], QOPNA [FCT UID/QUI/00062/2019], LAQV/REQUIMTE [UIDB/50006/2020], and RNEM, Portuguese Mass Spectrometry Network [LISBOA-01-0145-FEDER-402-022125], to FCT/MEC through national funds [SFRH/BPD/117491/2016 and CEECIND/01250/2018 to DM], Do*MAR doctoral programme [PD/BD/127989/2016 to DJ] and to the co-funding by the FEDER, within the PT2020 Partnership Agreement and Compete 2020. The funding sources had no role in the study design, data collection and analysis, writing and publication.
DOI: 10.5281/zenodo.4601023
title: Influence of temperature and salinity on the cellular stress response and energy reserves of Hediste diversicolor.

description: Raw data on survival rates, wet weight, cellular stress response, oxidative stress and energy reserves of the ragworm Hediste diversicolor collected at Ria de Aveiro (Portugal) and subjected to a combination of different temperatures (24, 27 and 30 ºC) and salinities (20 and 30) over time (14 and 28 days). The biomarkers analysed include: heat shock protein 70 kDa, total ubiquitin, catalase, superoxide dismutase, glutathione-S-transferase, total antioxidant capacity, lipid peroxidation, glucose, glycogen, total protein and total lipids.
description: This work was supported by project AquaMMIn [MAR-02.01.01-FEAMP-0038], co-funded by Portugal 2020 and the European Union through Mar2020, the Operational Programme (OP) for the European Maritime and Fisheries Fund (EMFF) in Portugal and by the Integrated Programme of SR&TD "SmartBioR - Smart Valorization of Endogenous Marine Biological Resources Under a Changing Climate" [Centro-01-0145-FEDER-000018], co-funded by Centro 2020 program, Portugal 2020, European Union, through the European Regional Development Fund. This work was also supported by L'Oreal/FCT/UNESCO through the prize L'Oreal Medals of Honour for Women in Science Portugal 2018 awarded to DM. Thanks are also due for the financial support to CESAM [UIDP/50017/2020+UIDB/50017/2020], UCIBIO [UIDP/04378/2020+UIDB/04378/2020], QOPNA [FCT UID/QUI/00062/2019], LAQV/REQUIMTE [UIDB/50006/2020], and RNEM, Portuguese Mass Spectrometry Network [LISBOA-01-0145-FEDER-402-022125], to FCT/MEC through national funds [SFRH/BPD/117491/2016 and CEECIND/01250/2018 to DM], Do*MAR doctoral programme [PD/BD/127989/2016 to DJ] and to the co-funding by the FEDER, within the PT2020 Partnership Agreement and Compete 2020. The funding sources had no role in the study design, data collection and analysis, writing and publication.
DOI: 10.6084/m9.figshare.17288588
title: Literature Review Articles.zip

description: The dataset is a collection of articles and books used to write the literature review and propose a conceptual framework.
DOI: 10.6084/m9.figshare.17288588.v1
title: Literature Review Articles.zip

description: The dataset is a collection of articles and books used to write the literature review and propose a conceptual framework.
DOI: 10.6084/m9.figshare.17263835
title: Improving taxonomic practices and enhancing its extensibility - an example from araneology

description: We downloaded nearly all the taxonomic works documented in the WSC during the time period of 2008-2018. Each investigator documented authorship and the number of new species described per publication; our review focused exclusively on newly described taxa during the study time period. Only a few non-English works were omitted from the study for which we were unable to find a translation that allowed confident data scoring. Table 1 below lists the parameters reviewed and how they were scored. Binary scorings were based on interrogative NO/YES (0/1) responses, whereas others were quantitative (documenting absolute numbers of observations or counts). Generally, we assessed the following: 1) what type of data were used to establish species constructs; 2) how species were illustrated; 3) was raw specimen data downloadable; 4) how many specimens were examined for each species; and 5) what sexes were available for each species. The number of specimens available was tabulated as (1), (2), or (&gt;2); &gt;2 is somewhat arbitrary and underestimates the paucity of data associated with some species, but objectively captures the variation in the data set without documenting the absolute number of specimens for all species. A study was classified as ‘integrative’ if morphological data (i.e., genitalic or other) was used in combination with at least one other data source. For species concept, we assessed each paper to determine whether the author stated explicitly what species concept they used to delineate taxa.The data were tabulated in a MS Excel spreadsheet; summary statistics and bar graphs were produced using the base R statistics packages and carried out in R-Studio [29]. <br>
DOI: 10.6084/m9.figshare.17263835.v1
title: Improving taxonomic practices and enhancing its extensibility - an example from araneology

description: We downloaded nearly all the taxonomic works documented in the WSC during the time period of 2008-2018. Each investigator documented authorship and the number of new species described per publication; our review focused exclusively on newly described taxa during the study time period. Only a few non-English works were omitted from the study for which we were unable to find a translation that allowed confident data scoring. Table 1 below lists the parameters reviewed and how they were scored. Binary scorings were based on interrogative NO/YES (0/1) responses, whereas others were quantitative (documenting absolute numbers of observations or counts). Generally, we assessed the following: 1) what type of data were used to establish species constructs; 2) how species were illustrated; 3) was raw specimen data downloadable; 4) how many specimens were examined for each species; and 5) what sexes were available for each species. The number of specimens available was tabulated as (1), (2), or (&gt;2); &gt;2 is somewhat arbitrary and underestimates the paucity of data associated with some species, but objectively captures the variation in the data set without documenting the absolute number of specimens for all species. A study was classified as ‘integrative’ if morphological data (i.e., genitalic or other) was used in combination with at least one other data source. For species concept, we assessed each paper to determine whether the author stated explicitly what species concept they used to delineate taxa.The data were tabulated in a MS Excel spreadsheet; summary statistics and bar graphs were produced using the base R statistics packages and carried out in R-Studio [29]. <br>
DOI: 10.6084/m9.figshare.17288801
title: Source data for Holden et al. (2021)

description: Source data for all figures in the manuscript entitled 'A lineage-specific Exo70 is required for receptor kinase-mediated immunity in barley' by Holden et al. (2021).<br> @font-face {font-family:"Cambria Math"; panose-1:2 4 5 3 5 4 6 3 2 4; mso-font-charset:0; mso-generic-font-family:roman; mso-font-pitch:variable; mso-font-signature:-536870145 1107305727 0 0 415 0;}@font-face {font-family:Calibri; panose-1:2 15 5 2 2 2 4 3 2 4; mso-font-charset:0; mso-generic-font-family:swiss; mso-font-pitch:variable; mso-font-signature:-469750017 -1073732485 9 0 511 0;}p.MsoNormal, li.MsoNormal, div.MsoNormal {mso-style-unhide:no; mso-style-qformat:yes; mso-style-parent:""; margin:0cm; text-align:justify; mso-pagination:widow-orphan; font-size:12.0pt; font-family:"Times New Roman",serif; mso-fareast-font-family:Calibri; mso-fareast-theme-font:minor-latin; mso-bidi-font-family:Arial; mso-bidi-theme-font:minor-bidi;}.MsoChpDefault {mso-style-type:export-only; mso-default-props:yes; font-family:"Calibri",sans-serif; mso-ascii-font-family:Calibri; mso-ascii-theme-font:minor-latin; mso-fareast-font-family:Calibri; mso-fareast-theme-font:minor-latin; mso-hansi-font-family:Calibri; mso-hansi-theme-font:minor-latin; mso-bidi-font-family:Arial; mso-bidi-theme-font:minor-bidi;}div.WordSection1 {page:WordSection1;}@font-face {font-family:"Cambria Math"; panose-1:2 4 5 3 5 4 6 3 2 4; mso-font-charset:0; mso-generic-font-family:roman; mso-font-pitch:variable; mso-font-signature:-536870145 1107305727 0 0 415 0;}@font-face {font-family:Calibri; panose-1:2 15 5 2 2 2 4 3 2 4; mso-font-charset:0; mso-generic-font-family:swiss; mso-font-pitch:variable; mso-font-signature:-469750017 -1073732485 9 0 511 0;}p.MsoNormal, li.MsoNormal, div.MsoNormal {mso-style-unhide:no; mso-style-qformat:yes; mso-style-parent:""; margin:0cm; text-align:justify; mso-pagination:widow-orphan; font-size:12.0pt; font-family:"Times New Roman",serif; mso-fareast-font-family:Calibri; mso-fareast-theme-font:minor-latin; mso-bidi-font-family:Arial; mso-bidi-theme-font:minor-bidi;}.MsoChpDefault {mso-style-type:export-only; mso-default-props:yes; font-family:"Calibri",sans-serif; mso-ascii-font-family:Calibri; mso-ascii-theme-font:minor-latin; mso-fareast-font-family:Calibri; mso-fareast-theme-font:minor-latin; mso-hansi-font-family:Calibri; mso-hansi-theme-font:minor-latin; mso-bidi-font-family:Arial; mso-bidi-theme-font:minor-bidi;}div.WordSection1 {page:WordSection1;}