cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7602444
title: Dataset related to article "GPR120 prevents colorectal adenocarcinoma progression by sustaining the mucosal barrier integrity "

description: This record contains raw data related to article “GPR120 prevents colorectal adenocarcinoma progression by sustaining the mucosal barrier integrity" GPR120 (encoded by FFAR4 gene) is a receptor for long chain fatty acids, activated by ω-3 Polyunsaturated Fatty Acids (PUFAs), and expressed in many cell types. Its role in the context of colorectal cancer (CRC) is still puzzling with many controversial evidences. Here, we explored the involvement of epithelial GPR120 in the CRC development. Both in vitro and in vivo experiments were conducted to mimic the conditional deletion of the receptor from gut epithelium. Intestinal permeability and integrity of mucus layer were assessed by using Evans blue dye and immunofluorescence for MUC-2 protein, respectively. Microbiota composition, presence of lipid mediators and short chain fatty acids were analyzed in the stools of conditional GPR120 and wild type (WT) mice. Incidence and grade of tumors were evaluated in all groups of mice before and after colitis-associated cancer. Finally, GPR120 expression was analyzed in 9 human normal tissues, 9 adenomas, and 17 primary adenocarcinomas. Our work for the first time highlights the role of the receptor in the progression of colorectal cancer. We observed that the loss of epithelial GPR120 in the gut results into increased intestinal permeability, microbiota translocation and dysbiosis, which turns into hyperproliferation of epithelial cells, likely through the activation of β -catenin signaling. Therefore, the loss of GPR120 represents an early event of CRC, but avoid its progression as invasive cancer. these results demonstrate that the epithelial GPR120 receptor is essential to maintain the mucosal barrier integrity and to prevent CRC developing. Therefore, our data pave the way to GPR120 as an useful marker for the phenotypic characterization of CRC lesions and as new potential target for CRC prevention
DOI: 10.5281/zenodo.7602443
title: Dataset related to article "GPR120 prevents colorectal adenocarcinoma progression by sustaining the mucosal barrier integrity "

description: This record contains raw data related to article “GPR120 prevents colorectal adenocarcinoma progression by sustaining the mucosal barrier integrity" GPR120 (encoded by FFAR4 gene) is a receptor for long chain fatty acids, activated by ω-3 Polyunsaturated Fatty Acids (PUFAs), and expressed in many cell types. Its role in the context of colorectal cancer (CRC) is still puzzling with many controversial evidences. Here, we explored the involvement of epithelial GPR120 in the CRC development. Both in vitro and in vivo experiments were conducted to mimic the conditional deletion of the receptor from gut epithelium. Intestinal permeability and integrity of mucus layer were assessed by using Evans blue dye and immunofluorescence for MUC-2 protein, respectively. Microbiota composition, presence of lipid mediators and short chain fatty acids were analyzed in the stools of conditional GPR120 and wild type (WT) mice. Incidence and grade of tumors were evaluated in all groups of mice before and after colitis-associated cancer. Finally, GPR120 expression was analyzed in 9 human normal tissues, 9 adenomas, and 17 primary adenocarcinomas. Our work for the first time highlights the role of the receptor in the progression of colorectal cancer. We observed that the loss of epithelial GPR120 in the gut results into increased intestinal permeability, microbiota translocation and dysbiosis, which turns into hyperproliferation of epithelial cells, likely through the activation of β -catenin signaling. Therefore, the loss of GPR120 represents an early event of CRC, but avoid its progression as invasive cancer. these results demonstrate that the epithelial GPR120 receptor is essential to maintain the mucosal barrier integrity and to prevent CRC developing. Therefore, our data pave the way to GPR120 as an useful marker for the phenotypic characterization of CRC lesions and as new potential target for CRC prevention
DOI: 10.6084/m9.figshare.22004750
title: Visium DLPFC preprocessed .rds

description: Preprocessed .rds data from https://github.com/LieberInstitute/spatialLIBD used for the benchmarking of the spatial clustering methods in CellCharter.
DOI: 10.25403/upresearchdata.21994940
title: Climatic landscape hydrological interactions

description: This data file on stable water isotopes and hydrochemical parameters is fieldwork data collected from August 2019 (dry season) to March 2020 (rainy season) in the Kaleya River Catchment in Southern Zambia. Physical-chemical parameters presented here were collected in 1000 ml bottles and analysed at the Environmental Engineering Laboratory of the University of Zambia, in Lusaka Zambia, using standard procedures for water quality analysis. Samples for δ 2H, δ 18O and δ 3H were collected in 100 ml bottles and analysed at the Environmental Isotope Laboratory at the iThemba LABS in Johannesburg South Africa. Data file on hydrological impacts of climate change and datafile on effects on nature based solutions are based on climate change and hydrological modeling.
DOI: 10.25403/upresearchdata.21994940.v1
title: Climatic landscape hydrological interactions

description: This data file on stable water isotopes and hydrochemical parameters is fieldwork data collected from August 2019 (dry season) to March 2020 (rainy season) in the Kaleya River Catchment in Southern Zambia. Physical-chemical parameters presented here were collected in 1000 ml bottles and analysed at the Environmental Engineering Laboratory of the University of Zambia, in Lusaka Zambia, using standard procedures for water quality analysis. Samples for δ 2H, δ 18O and δ 3H were collected in 100 ml bottles and analysed at the Environmental Isotope Laboratory at the iThemba LABS in Johannesburg South Africa. Data file on hydrological impacts of climate change and datafile on effects on nature based solutions are based on climate change and hydrological modeling.
DOI: 10.5281/zenodo.7093216
title: Output files for Carbon storage in the Earth's deep interior implied by carbonate-silicate-metal melt miscibility

description: Density and speciation output files for Carbon storage in the Earth's deep interior implied by carbonate-silicate-metal melt miscibility.
DOI: 10.5281/zenodo.7093215
title: Output files for Carbon storage in the Earth's deep interior implied by carbonate-silicate-metal melt miscibility

description: Density and speciation output files for Carbon storage in the Earth's deep interior implied by carbonate-silicate-metal melt miscibility.
DOI: 10.5281/zenodo.7602488
title: ActTemp+sMSA dataset of "Biasing AlphaFold2 to predict GPCRs and Kinases with user-defined functional or structural properties"

description: PDB models generated with the protocol described in "Biasing AlphaFold2 to predict GPCRs and Kinases with user-defined functional or structural properties"
DOI: 10.5281/zenodo.7602487
title: ActTemp+sMSA dataset of "Biasing AlphaFold2 to predict GPCRs and Kinases with user-defined functional or structural properties"

description: PDB models generated with the protocol described in "Biasing AlphaFold2 to predict GPCRs and Kinases with user-defined functional or structural properties"
DOI: 10.5281/zenodo.7476697
title: CommonCrawl News Articles by Political Orientation

description: <strong>Dataset description & reproduction steps</strong> The dataset includes news articles gathered from CommonCrawl for media outlets that were selected based on their political orientation. The news articles span publication dates from 2010 to 2021. For more details, please check out our Paper and GitHub repository. The database file containing the news articles has two main tables, <em>article_urls</em> and <em>article_contents</em>. The tables have the following columns: <em>article_urls</em>: <code>uuid</code>: An ID that uniquely identifies this URL entry. This column is used as primary key for the table. <code>url</code>: The plain text URL for the news article, as found in CommonCrawl. <code>outlet_name</code>: The name of the news outlet that published the article. <em>article_contents</em>: <code>uuid</code>: An ID that uniquely identifies this content entry. This column is used as primary key for the table. The key is the same key used in the <em>article_urls</em> table to allow for cross-referencing. <code>date</code>: The automatically extracted publishing date of the article. If it was not possible to automatically extract the date, this field remains empty. <code>content</code>: The plain text content of the article automatically extracted from the crawled HTML document. <code>content_preprocessed</code>: The articles content split by sentences. <code>langauge</code>: The langauge of the article, as identified by the langdetect module (as ISO 639-1 code).
description: The annotations for political orientations of media outlets were provided by allsides.com.
DOI: 10.5281/zenodo.7476696
title: CommonCrawl News Articles by Political Orientation

description: <strong>Dataset description & reproduction steps</strong> The dataset includes news articles gathered from CommonCrawl for media outlets that were selected based on their political orientation. The news articles span publication dates from 2010 to 2021. For more details, please check out our Paper and GitHub repository. The database file containing the news articles has two main tables, <em>article_urls</em> and <em>article_contents</em>. The tables have the following columns: <em>article_urls</em>: <code>uuid</code>: An ID that uniquely identifies this URL entry. This column is used as primary key for the table. <code>url</code>: The plain text URL for the news article, as found in CommonCrawl. <code>outlet_name</code>: The name of the news outlet that published the article. <em>article_contents</em>: <code>uuid</code>: An ID that uniquely identifies this content entry. This column is used as primary key for the table. The key is the same key used in the <em>article_urls</em> table to allow for cross-referencing. <code>date</code>: The automatically extracted publishing date of the article. If it was not possible to automatically extract the date, this field remains empty. <code>content</code>: The plain text content of the article automatically extracted from the crawled HTML document. <code>content_preprocessed</code>: The articles content split by sentences. <code>langauge</code>: The langauge of the article, as identified by the langdetect module (as ISO 639-1 code).
description: The annotations for political orientations of media outlets were provided by allsides.com.
DOI: 10.6084/m9.figshare.22005044
title: Supplementary Material for: Regional Variation of Erythropoiesis-Stimulating Agent Hyporesponsiveness in the Global Daprodustat Dialysis Study (ASCEND-D)

description: Introduction: Hyporesponsiveness to erythropoiesis-stimulating agents (ESAs) affects 10–15% of the chronic dialysis population. We explored baseline characteristics and predictors of ESA hyporesponsiveness in a global randomized cardiovascular outcomes study comparing an investigational hypoxia-inducible factor prolyl hydroxylase inhibitor (HIF-PHI), daprodustat, with conventional ESA treatment. Methods: ASCEND-D (NCT02879305) recruited 2964 chronic dialysis patients receiving ESA treatment (standardized to weekly intravenous [IV] epoetin) who were iron replete at baseline. The primary ESA hyporesponsiveness definition was an ESA Resistance Index (ERI, ESA Units/kg/week/hemoglobin g/l) ≥2 or IV standardized ESA dose ≥450 Units/kg/week. Predictors of ESA hyporesponsiveness were determined using a multivariable regression model. Alternative hyporesponder definitions were explored. Results: Using the primary definition, 354 (12%) patients were ESA hyporesponsive. Geographic region, notably Latin America, lower baseline body mass index and transferrin saturation, younger age, lower albumin concentration, and a higher baseline IV iron dose were identified as strongly associated (P &lt; 0.001) with ESA hyporesponsiveness. Additional predictors of ESA hyporesponsiveness included female sex (P = 0.010), history of heart failure (P = 0.035), longer dialysis vintage (P = 0.077), smoking status (P = 0.247), aspirin use (P = 0.121), and angiotensin-converting enzyme inhibitor/ angiotensin receptor blocker use (P = 0.214). Conclusion: This is the first global HIF-PHI study to report pre-specified definitions and predictors of ESA hyporesponsiveness. While most of the predictors identified in our study have been previously reported, geographic region stands out as an unexpected finding, meriting further investigation.
DOI: 10.6084/m9.figshare.22005044.v1
title: Supplementary Material for: Regional Variation of Erythropoiesis-Stimulating Agent Hyporesponsiveness in the Global Daprodustat Dialysis Study (ASCEND-D)

description: Introduction: Hyporesponsiveness to erythropoiesis-stimulating agents (ESAs) affects 10–15% of the chronic dialysis population. We explored baseline characteristics and predictors of ESA hyporesponsiveness in a global randomized cardiovascular outcomes study comparing an investigational hypoxia-inducible factor prolyl hydroxylase inhibitor (HIF-PHI), daprodustat, with conventional ESA treatment. Methods: ASCEND-D (NCT02879305) recruited 2964 chronic dialysis patients receiving ESA treatment (standardized to weekly intravenous [IV] epoetin) who were iron replete at baseline. The primary ESA hyporesponsiveness definition was an ESA Resistance Index (ERI, ESA Units/kg/week/hemoglobin g/l) ≥2 or IV standardized ESA dose ≥450 Units/kg/week. Predictors of ESA hyporesponsiveness were determined using a multivariable regression model. Alternative hyporesponder definitions were explored. Results: Using the primary definition, 354 (12%) patients were ESA hyporesponsive. Geographic region, notably Latin America, lower baseline body mass index and transferrin saturation, younger age, lower albumin concentration, and a higher baseline IV iron dose were identified as strongly associated (P &lt; 0.001) with ESA hyporesponsiveness. Additional predictors of ESA hyporesponsiveness included female sex (P = 0.010), history of heart failure (P = 0.035), longer dialysis vintage (P = 0.077), smoking status (P = 0.247), aspirin use (P = 0.121), and angiotensin-converting enzyme inhibitor/ angiotensin receptor blocker use (P = 0.214). Conclusion: This is the first global HIF-PHI study to report pre-specified definitions and predictors of ESA hyporesponsiveness. While most of the predictors identified in our study have been previously reported, geographic region stands out as an unexpected finding, meriting further investigation.
DOI: 10.5517/ccdc.csd.cc29y75p
title: CCDC 2143252: Experimental Crystal Structure Determination

description: Related Article: Timothy J. Boyle, Paris C. Reuel, Dora K. Wiemann, Taylor Settecerri, Michael A. Omana, Roger E. Cramer|2022|Polyhedron|223|115958|doi:10.1016/j.poly.2022.115958
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2b6szb
title: CCDC 2151492: Experimental Crystal Structure Determination

description: Related Article: Wenbin Huang, Chunya Fu, Zhiwei Liang, Kang Zhou, Zikai He|2022|Angew.Chem.,Int.Ed.|61|e202202977|doi:10.1002/anie.202202977
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7s4k
title: CCDC 2182218: Experimental Crystal Structure Determination

description: Related Article: Jie Lei, Jia Xu, Ya-Fei Luo, Jie Li, Jing-Ya Wang, Hong-yu Li, Zhi-Gang Xu, Zhong-Zhu Chen|2023|Org.Chem.Front.|10|786|doi:10.1039/D2QO01642G
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c8zsf
title: CCDC 2183385: Experimental Crystal Structure Determination

description: Related Article: Gonca Özdemir Tarı, Ercan Aydemir|2023|J.Mol.Struct.|1277|134880|doi:10.1016/j.molstruc.2022.134880
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c9h17
title: CCDC 2183858: Experimental Crystal Structure Determination

description: Related Article: Sergey M. Ivanov, Denis S. Koltun|2022|Tetrahedron Lett.|107|154097|doi:10.1016/j.tetlet.2022.154097
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c9hkr
title: CCDC 2183874: Experimental Crystal Structure Determination

description: Related Article: Sergey M. Ivanov, Denis S. Koltun|2022|Tetrahedron Lett.|107|154097|doi:10.1016/j.tetlet.2022.154097
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c9hls
title: CCDC 2183875: Experimental Crystal Structure Determination

description: Related Article: Sergey M. Ivanov, Denis S. Koltun|2022|Tetrahedron Lett.|107|154097|doi:10.1016/j.tetlet.2022.154097
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c9hmt
title: CCDC 2183876: Experimental Crystal Structure Determination

description: Related Article: Sergey M. Ivanov, Denis S. Koltun|2022|Tetrahedron Lett.|107|154097|doi:10.1016/j.tetlet.2022.154097
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c9y1p
title: CCDC 2184292: Experimental Crystal Structure Determination

description: Related Article: Cunzhi Chen|2022|CSD Communication|||
description: Related Article: Cunzhi Chen, Shuyan Fang, Mingwu Yu, Jiaxi Xu, Zhanhui Yang|2023|Org.Chem.Front.|10|661|doi:10.1039/D2QO01662A
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.7602558
title: CLIMOVE- Climate induced Displacement Data Analysis

description: CLIMOVE addresses the challenging socio-legal avenues for the European Union (EU) to respond the climate migration from a gender perspective. The objectives of the project will increase the most innovative and diversified social scientific skills to explore, recognize and understand the complex experience of migrant women in the context of climate change and of EU migration crisis: female migration still often clashes with censorship, patriarchal laws or lack of diversity or equality in countries of origin and even destination. As part of this project, a report has been produced analyzing and processing available official data on climate change-induced displacement. A part of this analysis is presented here.
DOI: 10.5281/zenodo.7602557
title: CLIMOVE- Climate induced Displacement Data Analysis

description: CLIMOVE addresses the challenging socio-legal avenues for the European Union (EU) to respond the climate migration from a gender perspective. The objectives of the project will increase the most innovative and diversified social scientific skills to explore, recognize and understand the complex experience of migrant women in the context of climate change and of EU migration crisis: female migration still often clashes with censorship, patriarchal laws or lack of diversity or equality in countries of origin and even destination. As part of this project, a report has been produced analyzing and processing available official data on climate change-induced displacement. A part of this analysis is presented here.
DOI: 10.34740/kaggle/dsv/4941333
title: YouTube Daily
DOI: 10.6084/m9.figshare.22005059
title: Replication Package for ESEC/FSE 2023 Submission "Characterizing Deep Learning Package Supply Chains in PyPI: Domains, Clusters, and Deprecations"

description: This is the replication package for our ESEC/FSE 2023 Submission <em>*Characterizing Deep Learning Package Supply Chains in PyPI: Domains, Clusters, and Deprecations*</em>. It can be used to replicate all three research questions in the paper using our preprocessed and manually labeled data.
DOI: 10.25704/jd07-sv9
title: SOCIB Glider - Canales Endurance Line

description: SOCIB Glider Missions - Canales Endurance Line - was initiated in 2011, with in kind collaboration of CSIC (IMEDEA), covering both the Mallorca and Ibiza channel in a semi-continuous operational mode and sampling physical and biogeochemical observations. The Ibiza channel is a well-established biodiversity hotspot and accordingly more intensive monitoring of the Ibiza channel is carried out to capture the mesoscale and submesoscale structures and their relation to the weekly to seasonal and annual/inter-annual variability. On the canales endurance line, ocean gliders making repeated dives from the surface to 1000 m interior of the ocean, repeating the cycle every ~5 hours, and traveling ~5 km in the horizontal during each dive. The canales endurance line is covering both the Mallorca and Ibiza channel in a semi-continuous operational mode. The glider missions typically last about 60 to 90 days, providing 6-10 sections of the Ibiza channel and 2 sections of the Mallorca channel. Since 2011 the Canales Endurance line has completed 108 glider missions, covered 53000 km over the ground, and has more than 97000 physical and biogeochemical profiles.
DOI: 10.5281/zenodo.7602476
title: Silva.nr_v138_1.V4

description: Ref file for mothur pipeline
DOI: 10.5281/zenodo.7602475
title: Silva.nr_v138_1.V4

description: Ref file for mothur pipeline