cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10609655
title: Dataset related to the article: HCG18, LEF1AS1 and lncCEACAM21 as biomarkers of disease severity in the peripheral blood mononuclear cells of COVID-19 patients

description: Abstract

Background

Even after 3 years from SARS-CoV-2 identification, COVID-19 is still a persistent and dangerous global infectious disease. Significant improvements in our understanding of the disease pathophysiology have now been achieved. Nonetheless, reliable and accurate biomarkers for the early stratification of COVID-19 severity are still lacking. Long noncoding RNAs (LncRNAs) are ncRNAs longer than 200 nucleotides, regulating the transcription and translation of protein‐coding genes and they can be found in the peripheral blood, thus holding a promising biomarker potential. Specifically, peripheral blood mononuclear cells (PBMCs) have emerged as a source of indirect biomarkers mirroring the conditions of tissues: they include monocytes, B and T lymphocytes, and natural killer T cells (NKT), being highly informative for immune-related events.




Methods

We profiled by RNA-Sequencing a panel of 2906 lncRNAs to investigate their modulation in PBMCs of a pilot group of COVID-19 patients, followed by qPCR validation in 111 hospitalized COVID-19 patients.




Results

The levels of four lncRNAs were found to be decreased in association with COVID-19 mortality and disease severity: HLA Complex Group 18-242 and -244 (HCG18-242 and HCG18-244), Lymphoid Enhancer Binding Factor 1-antisense 1 (LEF1-AS1) and lncCEACAM21 (i.e. ENST00000601116.5, a lncRNA in the CEACAM21 locus). Interestingly, these deregulations were confirmed in an independent patient group of hospitalized patients and by the re-analysis of publicly available single-cell transcriptome datasets. The identified lncRNAs were expressed in all of the PBMC cell types and inversely correlated with the neutrophil/lymphocyte ratio (NLR), an inflammatory marker. In vitro, the expression of LEF1-AS1 and lncCEACAM21 was decreased upon THP-1 monocytes exposure to a relevant stimulus, hypoxia.




Conclusion

The identified COVID-19-lncRNAs are proposed as potential innovative biomarkers of COVID-19 severity and mortality.
DOI: 10.5281/zenodo.10589137
title: Urban Sound Propagation

description: This dataset is assembled for research into urban sound propagation, comprising 25,000 data points across 10 diverse cities. Each city is represented by 2,500 locations, offering a comprehensive analysis of various urban configurations. The dataset utilizes OpenStreetMap (OSM) imagery to detail the urban layout within a 500m x 500m area for each location, where buildings are delineated with black pixels and open spaces with white pixels.

Supplementing the urban structural images, the dataset includes sound distribution maps at resolutions of 512x512 and 256x256. These maps are precisely generated through the NoiseModelling v4.0 framework, an advanced simulation tool engineered for accurate modeling of sound dynamics within urban environments.

The data collection methodology involves sourcing information via the Overpass API, subsequently refined and verified using GeoPandas to ensure the dataset's integrity and consistency. For researchers and experts interested in exploring the intricacies of sound simulation, additional insights can be obtained from the NoiseModelling framework documentation.
DOI: 10.5281/zenodo.10589136
title: Urban Sound Propagation

description: This dataset is assembled for research into urban sound propagation, comprising 25,000 data points across 10 diverse cities. Each city is represented by 2,500 locations, offering a comprehensive analysis of various urban configurations. The dataset utilizes OpenStreetMap (OSM) imagery to detail the urban layout within a 500m x 500m area for each location, where buildings are delineated with black pixels and open spaces with white pixels.

Supplementing the urban structural images, the dataset includes sound distribution maps at resolutions of 512x512 and 256x256. These maps are precisely generated through the NoiseModelling v4.0 framework, an advanced simulation tool engineered for accurate modeling of sound dynamics within urban environments.

The data collection methodology involves sourcing information via the Overpass API, subsequently refined and verified using GeoPandas to ensure the dataset's integrity and consistency. For researchers and experts interested in exploring the intricacies of sound simulation, additional insights can be obtained from the NoiseModelling framework documentation.
DOI: 10.5281/zenodo.10609793
title: Urban Sound Propagation

description: This dataset is assembled for research into urban sound propagation, comprising 25,000 data points across 10 diverse cities. Each city is represented by 2,500 locations, offering a comprehensive analysis of various urban configurations. The dataset utilizes OpenStreetMap (OSM) imagery to detail the urban layout within a 500m x 500m area for each location, where buildings are delineated with black pixels and open spaces with white pixels.

Supplementing the urban structural images, the dataset includes sound distribution maps at resolutions of 512x512 and 256x256. These maps are precisely generated through the NoiseModelling v4.0 framework, an advanced simulation tool engineered for accurate modeling of sound dynamics within urban environments.

The data collection methodology involves sourcing information via the Overpass API, subsequently refined and verified using GeoPandas to ensure the dataset's integrity and consistency. For researchers and experts interested in exploring the intricacies of sound simulation, additional insights can be obtained from the NoiseModelling framework documentation.
DOI: 10.25345/c5h12vj8n
title: MassIVE MSV000094006 - 3day bee affected by VarroaDWV
title: We performed a manipulative experiment in which healthy honey bees collected at the time of emergence were exposed to Varroa destructor or left untreated (control) for 72 hours. A total of 10 control and 10 Varroa-treated bees were used for label-free nano-liquid chromatography (LC)MS/MS proteomic analysis. (k01 to k10: control; w01 to w10: Varroa exposed).
DOI: 10.6084/m9.figshare.16779903
title: Additional file 9 of Combined nanopore adaptive sequencing and enzyme-based host depletion efficiently enriched microbial sequences and identified missing respiratory pathogens

description: Additional file 9: Table S4. Taxonomy classification results of the top 50 microorganisms in each sample obtained using normalized fastq files. For samples with the number of microbial species less than 50, all their microbial classification results were shown.
DOI: 10.6084/m9.figshare.16779903.v1
title: Additional file 9 of Combined nanopore adaptive sequencing and enzyme-based host depletion efficiently enriched microbial sequences and identified missing respiratory pathogens

description: Additional file 9: Table S4. Taxonomy classification results of the top 50 microorganisms in each sample obtained using normalized fastq files. For samples with the number of microbial species less than 50, all their microbial classification results were shown.
DOI: 10.17036/researchdata.aston.ac.uk.00000627
title: Classification images for aerial images capture visual expertise for binocular disparity and a prior for lighting from above
DOI: 10.4121/01ea8119-b6c9-40d6-b8c7-85c47ed3c7db
title: Data underlying the publication: Settlement success of European flat oyster (Ostrea edulis) on different types of hard substrate to support reef development in offshore wind farms.

description: Data collected to determine settlement success of flat oyster larvae on nine different types of hard substrate. These substrate types include granite, sandstone, flint, conventional concrete, concrete with natural adhesives (ECOncrete), galvanized steel, biodegradable plastic (BESE), mussel shell, and clay roof tile. The experiments took place at two different locations in Ireland, i.e. in an oyster spatting pond (controlled conditions; New Quay) and near a wild population of oysters (natural environment; Tralee Bay).The substrates were contained in polyethylene baskets (diameter 15cm, height 40cm) with a 2x2cm mesh size. Weight and volume of the content in each basket was determined prior to deployment. At both locations, the substrate baskets (n=5 per substrate type) were suspended 20-30cm below the water surface, approximately 30cm apart. The sequence of the substrate baskets was randomly assigned.After retrieval of the substrate baskets, the substrates in each basket were weighed, biofouling was removed, and if necessary, the substrate was cleaned using filtered seawater. Then, the total number of oyster spat on the substrate was counted. In order to assess the initial settlement preference, the total number of spat included both living and dead spat, which was recorded separately. In order to compare the spat densities on the different substrate types, the three-dimensional surface area of the different substrates was estimated using a combination of double wax dipping and 3D scanning. To determine which substrate collected the highest numbers of spat, the total numbers of spat were compared between the two locations and between different substrate types. Spat density was taken as an indicator for settlement preference, calculated by dividing total spat by the available settlement surface in cm2. Spat survival was calculated as the fraction of living spat out of the total spat counted after retrieval, and also compared between locations and substrate types.For further information see manuscript
DOI: 10.4121/01ea8119-b6c9-40d6-b8c7-85c47ed3c7db.v1
title: Data underlying the publication: Settlement success of European flat oyster (Ostrea edulis) on different types of hard substrate to support reef development in offshore wind farms.

description: Data collected to determine settlement success of flat oyster larvae on nine different types of hard substrate. These substrate types include granite, sandstone, flint, conventional concrete, concrete with natural adhesives (ECOncrete), galvanized steel, biodegradable plastic (BESE), mussel shell, and clay roof tile. The experiments took place at two different locations in Ireland, i.e. in an oyster spatting pond (controlled conditions; New Quay) and near a wild population of oysters (natural environment; Tralee Bay).The substrates were contained in polyethylene baskets (diameter 15cm, height 40cm) with a 2x2cm mesh size. Weight and volume of the content in each basket was determined prior to deployment. At both locations, the substrate baskets (n=5 per substrate type) were suspended 20-30cm below the water surface, approximately 30cm apart. The sequence of the substrate baskets was randomly assigned.After retrieval of the substrate baskets, the substrates in each basket were weighed, biofouling was removed, and if necessary, the substrate was cleaned using filtered seawater. Then, the total number of oyster spat on the substrate was counted. In order to assess the initial settlement preference, the total number of spat included both living and dead spat, which was recorded separately. In order to compare the spat densities on the different substrate types, the three-dimensional surface area of the different substrates was estimated using a combination of double wax dipping and 3D scanning. To determine which substrate collected the highest numbers of spat, the total numbers of spat were compared between the two locations and between different substrate types. Spat density was taken as an indicator for settlement preference, calculated by dividing total spat by the available settlement surface in cm2. Spat survival was calculated as the fraction of living spat out of the total spat counted after retrieval, and also compared between locations and substrate types.For further information see manuscript
DOI: 10.24403/jp.1316608
title: Anmerkungen zu einigen Noccaea-Arten Nordasiens / Friedrich Karl Meyer
DOI: 10.5281/zenodo.10617597
title: Supplementary material related to study "Paradox lens on sustainable offshore wind development – A systematic literature review"

description: The supplementary material contains the qualitative dataset related to the study "Paradox lens on sustainable offshore wind development – A systematic literature review". It provides a detailed description of identified  tensions considering a triple-bottom-line approach.
DOI: 10.5281/zenodo.10617598
title: Supplementary material related to study "Paradox lens on sustainable offshore wind development – A systematic literature review"

description: The supplementary material contains the qualitative dataset related to the study "Paradox lens on sustainable offshore wind development – A systematic literature review". It provides a detailed description of identified  tensions considering a triple-bottom-line approach.
DOI: 10.4121/b27152e4-4237-40f9-a72c-e6a1ca916960
title: Data underlying the publication: PowerFlowNet: Leveraging Message Passing GNNs for Improved Power Flow Approximation

description: Synthetic power flow dataset consist of three cases: 14-bus, 118-bus and 6470-bus. The line parameters, generator/load injections, voltage setpoints are randomly sampled based on the standard scenario. The 14-bus case consists of 100000 scenarios, 118-bus 50000 scenarios, and 6470-bus 30000 scenarios.<br>If you use parts of this dataset, please cite as:<br>@misc{lin2023powerflownet,   title={PowerFlowNet: Leveraging Message Passing GNNs for Improved Power Flow Approximation},    author={Nan Lin and Stavros Orfanoudakis and Nathan Ordonez Cardenas and Juan S. Giraldo and Pedro P. Vergara},   year={2023},   eprint={2311.03415},   archivePrefix={arXiv},   primaryClass={cs.LG}}
DOI: 10.4121/b27152e4-4237-40f9-a72c-e6a1ca916960.v1
title: Data underlying the publication: PowerFlowNet: Leveraging Message Passing GNNs for Improved Power Flow Approximation

description: Synthetic power flow dataset consist of three cases: 14-bus, 118-bus and 6470-bus. The line parameters, generator/load injections, voltage setpoints are randomly sampled based on the standard scenario. The 14-bus case consists of 100000 scenarios, 118-bus 50000 scenarios, and 6470-bus 30000 scenarios.<br>If you use parts of this dataset, please cite as:<br>@misc{lin2023powerflownet,   title={PowerFlowNet: Leveraging Message Passing GNNs for Improved Power Flow Approximation},    author={Nan Lin and Stavros Orfanoudakis and Nathan Ordonez Cardenas and Juan S. Giraldo and Pedro P. Vergara},   year={2023},   eprint={2311.03415},   archivePrefix={arXiv},   primaryClass={cs.LG}}
DOI: 10.5281/zenodo.10606514
title: Highly durable spray-coated plate catalyst for the dehydrogenation of perhydro benzyltoluene

description: Data Set to the corresponding Paper:

Nathrath et al., 2024, Highly durable spray-coated plate catalyst for the dehydrogenation of perhydro benzyltoluene

https://doi.org/10.1039/D3CY01158E
DOI: 10.5281/zenodo.10606515
title: Highly durable spray-coated plate catalyst for the dehydrogenation of perhydro benzyltoluene

description: Data Set to the corresponding Paper:

Nathrath et al., 2024, Highly durable spray-coated plate catalyst for the dehydrogenation of perhydro benzyltoluene

https://doi.org/10.1039/D3CY01158E
DOI: 10.6084/m9.figshare.12585612
title: All the raw data in this study. from Hydrolysis-resistant and stress-buffering bifunctional polyurethane adhesive for durable dental composite restoration

description: All data from this study are included in this document.
DOI: 10.6084/m9.figshare.12585612.v1
title: All the raw data in this study. from Hydrolysis-resistant and stress-buffering bifunctional polyurethane adhesive for durable dental composite restoration

description: All data from this study are included in this document.
DOI: 10.6084/m9.figshare.12585612.v2
title: All the raw data in this study. from Hydrolysis-resistant and stress-buffering bifunctional polyurethane adhesive for durable dental composite restoration

description: All data from this study are included in this document.
DOI: 10.6084/m9.figshare.7867034
title: Additional file 2: of Development of drug-inducible CRISPR-Cas9 systems for large-scale functional screening

description: Table S2. Raw NGS count table for FACS-based CRISPR screening using constitutive sgRNA expression vector. (TXT 5224 kb)
DOI: 10.6084/m9.figshare.7867034.v1
title: Additional file 2: of Development of drug-inducible CRISPR-Cas9 systems for large-scale functional screening

description: Table S2. Raw NGS count table for FACS-based CRISPR screening using constitutive sgRNA expression vector. (TXT 5224 kb)
DOI: 10.6084/m9.figshare.19925659
title: Fluorofenidone inhibits epithelial-mesenchymal transition in human lens epithelial cell line FHL 124: a promising therapeutic strategy against posterior capsular opacification

description: ABSTRACT Purpose: The present study aimed to investigate the inhibitory effect of fluorofenidone against transforming growth factor β2-induced proliferation and epithelial-mesenchymal transition in human lens epithelial cell line FHL 124 and its potential mechanism. Methods: We evaluated the effect of fluorofenidone on proliferation and epithelial-mesenchymal transition of human lens epithelial cell line FHL 124 in vitro. After treatment with 0, 0.1, 0.2, 0.4, 0.6, and 1.0 mg/mL fluorofenidone, cell proliferation was measured via MTT assay. Cell viability was evaluated by lactate dehydrogenase activity from damaged cells. FHL 124 cells were treated with different transforming growth factor β2 concentrations (0-10 ng/mL) for 24 h and the expression of CTGF, α-SMA, COL-I, E-cadherin, and Fn were detected via quantitative polymerase chain reaction and Western blot analysis. After treatment with 0, 0.2, and 0.4 mg/ml fluorofenidone, the expressions of transforming growth factor β2 and SMADs were detected with real-time polymerase chain reaction and Western blot analysis. Expressions of CTGF, α-SMA, COL-I, and Fn were analyzed by immunocytochemistry assay. Results: The viability of FHL 124 cells was not inhibited when the fluorofenidone concentration was ≤0.4 mg/mL after the 24h treatment. Cytotoxicity was not detected via lactate dehydrogenase assay after the 24h and 36h treatment with 0.2 and 0.4 mg/mL fluorofenidone. Transforming growth factor β2 increased mRNA and protein expression of CTGF, α-SMA, COL-I, and Fn. However, fluorofenidone significantly suppressed expression of SMADs, CTGF, α-SMA, COL-I, and Fn in the absence or presence of transforming growth factor β2 stimulation. Conclusions: Fluorofenidone significantly inhibited expression of SMADs, CTGF, α-SMA, COL-I, and Fn in FHL 124 cells. Due to noncompliance in infants, fluorofenidone may become a novel therapeutic drug against posterior capsular opacification in infants.
DOI: 10.6084/m9.figshare.19925659.v1
title: Fluorofenidone inhibits epithelial-mesenchymal transition in human lens epithelial cell line FHL 124: a promising therapeutic strategy against posterior capsular opacification

description: ABSTRACT Purpose: The present study aimed to investigate the inhibitory effect of fluorofenidone against transforming growth factor β2-induced proliferation and epithelial-mesenchymal transition in human lens epithelial cell line FHL 124 and its potential mechanism. Methods: We evaluated the effect of fluorofenidone on proliferation and epithelial-mesenchymal transition of human lens epithelial cell line FHL 124 in vitro. After treatment with 0, 0.1, 0.2, 0.4, 0.6, and 1.0 mg/mL fluorofenidone, cell proliferation was measured via MTT assay. Cell viability was evaluated by lactate dehydrogenase activity from damaged cells. FHL 124 cells were treated with different transforming growth factor β2 concentrations (0-10 ng/mL) for 24 h and the expression of CTGF, α-SMA, COL-I, E-cadherin, and Fn were detected via quantitative polymerase chain reaction and Western blot analysis. After treatment with 0, 0.2, and 0.4 mg/ml fluorofenidone, the expressions of transforming growth factor β2 and SMADs were detected with real-time polymerase chain reaction and Western blot analysis. Expressions of CTGF, α-SMA, COL-I, and Fn were analyzed by immunocytochemistry assay. Results: The viability of FHL 124 cells was not inhibited when the fluorofenidone concentration was ≤0.4 mg/mL after the 24h treatment. Cytotoxicity was not detected via lactate dehydrogenase assay after the 24h and 36h treatment with 0.2 and 0.4 mg/mL fluorofenidone. Transforming growth factor β2 increased mRNA and protein expression of CTGF, α-SMA, COL-I, and Fn. However, fluorofenidone significantly suppressed expression of SMADs, CTGF, α-SMA, COL-I, and Fn in the absence or presence of transforming growth factor β2 stimulation. Conclusions: Fluorofenidone significantly inhibited expression of SMADs, CTGF, α-SMA, COL-I, and Fn in FHL 124 cells. Due to noncompliance in infants, fluorofenidone may become a novel therapeutic drug against posterior capsular opacification in infants.
DOI: 10.6084/m9.figshare.7867043
title: Additional file 1: of Favorable alleles mining for gelatinization temperature, gel consistency and amylose content in Oryza sativa by association mapping

description: Table S1. Rice accessions geographical origin, their membership probabilities corresponding to each subpopulation, and the mean value of phenotypic data in five environments for GT, GC and AC. (XLSX 207 kb)
DOI: 10.6084/m9.figshare.7867043.v1
title: Additional file 1: of Favorable alleles mining for gelatinization temperature, gel consistency and amylose content in Oryza sativa by association mapping

description: Table S1. Rice accessions geographical origin, their membership probabilities corresponding to each subpopulation, and the mean value of phenotypic data in five environments for GT, GC and AC. (XLSX 207 kb)
DOI: 10.6084/m9.figshare.7867067
title: Additional file 6: of Favorable alleles mining for gelatinization temperature, gel consistency and amylose content in Oryza sativa by association mapping

description: Table S5. Summary statistics for the 262 SSR markers used in this study. (XLS 63 kb)
DOI: 10.6084/m9.figshare.7867067.v1
title: Additional file 6: of Favorable alleles mining for gelatinization temperature, gel consistency and amylose content in Oryza sativa by association mapping

description: Table S5. Summary statistics for the 262 SSR markers used in this study. (XLS 63 kb)
DOI: 10.6084/m9.figshare.13634269
title: Additional file 3 of Identification and validation of obesity-related gene LEP methylation as a prognostic indicator in patients with acute myeloid leukemia

description: Additional file 3. Different expressed microRNAs between lower and higher LEP expression groups.
DOI: 10.6084/m9.figshare.13634269.v1
title: Additional file 3 of Identification and validation of obesity-related gene LEP methylation as a prognostic indicator in patients with acute myeloid leukemia

description: Additional file 3. Different expressed microRNAs between lower and higher LEP expression groups.
DOI: 10.6084/m9.figshare.13634272
title: Additional file 4 of Identification and validation of obesity-related gene LEP methylation as a prognostic indicator in patients with acute myeloid leukemia

description: Additional file 4. Venn results of microRNAs targeting LEP.
DOI: 10.6084/m9.figshare.13634272.v1
title: Additional file 4 of Identification and validation of obesity-related gene LEP methylation as a prognostic indicator in patients with acute myeloid leukemia

description: Additional file 4. Venn results of microRNAs targeting LEP.
DOI: 10.6084/m9.figshare.13634299
title: Additional file 2 of PARP inhibitor Olaparib overcomes Sorafenib resistance through reshaping the pluripotent transcriptome in hepatocellular carcinoma

description: Additional file 2.
DOI: 10.6084/m9.figshare.13634299.v1
title: Additional file 2 of PARP inhibitor Olaparib overcomes Sorafenib resistance through reshaping the pluripotent transcriptome in hepatocellular carcinoma

description: Additional file 2.