cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/vcg2xx4pnc.1
title: Individual genotyping of red fox field stools from the analysis of 14 microsatellite targets and one sex marker and the research of Echinococcus multilocularis DNA presence.

description: Individual genotyping of red fox stools sampled on the field, from the analysis of 14 microsatellite targets (AHT121, AHT137, C01.424, INU055, AHTh171, C08.618, CPH2, FH2010, C04.140, CXX0279, FH2848, REN169O18, CPH11, FH2457) and one sex marker (K9-AMELO). Em(+): Echinococcus multilocularis DNA detection in faeces, qPCRVv: qPCR for Vulpes Vulpes DNA detection on part of the CytB gene (Knapp et al., 2016) and Cq values, ND: no data. First the fox faeces were identified using a host faecal qPCR technique from total copro-DNA extracts, as previously described (Knapp et al., 2016).

The study was conducted from March 2017 to January 2020 in a grassland area of 3.18 Km² in the village of Les Alliés (006°26’46”E, 46°56’53”N, Fig. 1) in eastern France, at an average altitude of 971 m above sea level.

The QIAmp Fast DNA Stool kit (Qiagen, Hilden, Germany) was used to extract genomic DNA from faecal samples.
Fragment size analyses were performed to obtained allele size quantification for the 14 microsatellites and the sex marker, by using a SeqStudio Genetic Analyzer (Applied Biosystems, Foster City, CA). Genetic profiles were determined using the Microsatellite Analysis module available on the Thermo Fisher cloud (https://apps.thermofisher.com/editor-web/#/app/app-microsatellites-web).
Copro-DNA extracts from foxes were tested for the presence of E. multilocularis (Em(+)) using a specific E. multilocularis-qPCR, as previously described.

References
Breen, M., Jet al., 2001. Chromosome-specific single-locus FISH probes allow anchorage of an 1800-marker integrated radiation-hybrid/linkage map of the domestic dog genome to all chromosomes. Genome Res. 11, 1784–1795. 
Fredholm, M., Winterø, A.K., 1995. Variation of short tandem repeats within and between species belonging to the Canidae family. Mamm. Genome Off. J. Int. Mamm. Genome Soc. 6, 11–18. 
Holmes, N.G., et al., 1995. Eighteen canine microsatellites. Anim. Genet. 26, 132–133. 
Ichikawa, Y., et al., 2002. Identification and characterization of 40 dinucleotide microsatellites in the dog genome. Anim. Genet. 33, 400–401. 
Knapp, J., et al., 2016. Development of a Real-Time PCR for a Sensitive One-Step Coprodiagnosis Allowing both the Identification of Carnivore Feces and the Detection of Toxocara spp. and Echinococcus multilocularis. Appl. Environ. Microbiol. 82, 2950–2958.
Moore, M., et al., 2010. Thirty-one short red fox (Vulpes vulpes) microsatellite markers. Mol. Ecol. Resour. 10, 404–408. 
Ostrander, E.A., et al., 1993. Identification and characterization of dinucleotide repeat (CA)n markers for genetic mapping in dog. Genomics 16, 207–213.
DOI: 10.17632/pnnbb847r8.1
title: Benchmarking digital displays (monitors) for histological diagnoses: the Nephropathology use case

description: Granular data from the assessment of non-inferiority of different monitors/scanners combination for the evaluation of whole slide images (WSI) for the primary diagnosis of renal diseases on histology following the College of American Pathologists (CAP) guidelines.
DOI: 10.17632/pnnbb847r8.2
title: Benchmarking digital displays (monitors) for histological diagnoses: the Nephropathology use case

description: Granular data from the assessment of non-inferiority of different monitors/scanners combination for the evaluation of whole slide images (WSI) for the primary diagnosis of renal diseases on histology following the College of American Pathologists (CAP) guidelines.
DOI: 10.17632/pnnbb847r8.3
title: Benchmarking digital displays (monitors) for histological diagnoses: the Nephropathology use case

description: Granular data from the assessment of non-inferiority of different monitors/scanners combination for the evaluation of whole slide images (WSI) for the primary diagnosis of renal diseases on histology following the College of American Pathologists (CAP) guidelines.
DOI: 10.17632/g73sdncgxg.1
title: The State of Carbon Neutrality in the Greater Toronto Hamilton Area for 2016

description: A methodology was developed for creating municipality-scale emission inventories using publicly available online data. A bottom-up emissions inventory of prominent greenhouse gases (carbon dioxide, methane, and nitrous oxide) and criteria air contaminants (carbon monoxide and oxides of nitrogen) in the Greater Toronto Hamilton Area (GTHA) was developed for the year 2016. Emissions from agriculture, buildings, ecosystems, industries, and transportation were estimated in layers and then summed in each individual grid square. The inventory used non-proprietary data and was distributed on a fine grid (four square kilometre grid cells). It was estimated that the GTHA produced 58.6 megatonnes of carbon dioxide equivalent, 194,460 tonnes of carbon monoxide, and 106,140 tonnes of nitrogen oxides for the study year. Traffic produced the most of all pollutants except methane, which was dominated by waste (landfills). The inventory was validated against published inventories from Environment and Climate Change Canada (ECCC) and The Atmospheric Fund. The developed methodology can be used by other municipalities to assess their state of carbon neutrality and air pollution.
This dataset includes the emissions found for each grid cell, located by latitude and longitude. The exact area of each grid cell is included along with the values of carbon monoxide, nitrogen oxides, carbon dioxide, methane, and nitrous oxide. The values are normalized by population and area, respectively. Greenhouse gases are combined into megatonnes of carbon dioxide equivalent per square kilometre. A shapefile of the data distributed in grid cells over the Greater Toronto Hamilton Area in Ontario, Canada is included to aid visualization.
DOI: 10.17632/g73sdncgxg.2
title: The State of Carbon Neutrality in the Greater Toronto Hamilton Area for 2016

description: A methodology was developed for creating municipality-scale emission inventories using publicly available online data. A bottom-up emissions inventory of prominent greenhouse gases (carbon dioxide, methane, and nitrous oxide) and criteria air contaminants (carbon monoxide and oxides of nitrogen) in the Greater Toronto Hamilton Area (GTHA) was developed for the year 2016. Emissions from agriculture, buildings, ecosystems, industries, and transportation were estimated in layers and then summed in each individual grid square. The inventory used non-proprietary data and was distributed on a fine grid (four square kilometre grid cells). It was estimated that the GTHA produced 58.6 megatonnes of carbon dioxide equivalent, 194,460 tonnes of carbon monoxide, and 106,140 tonnes of nitrogen oxides for the study year. Traffic produced the most of all pollutants except methane, which was dominated by waste (landfills). The inventory was validated against published inventories from Environment and Climate Change Canada (ECCC) and The Atmospheric Fund. The developed methodology can be used by other municipalities to assess their state of carbon neutrality and air pollution.
This dataset includes the emissions found for each grid cell, located by latitude and longitude. The exact area of each grid cell is included along with the values of carbon monoxide, nitrogen oxides, carbon dioxide, methane, and nitrous oxide. The values are normalized by population and area, respectively. Greenhouse gases are combined into megatonnes of carbon dioxide equivalent per square kilometre. A shapefile of the data distributed in grid cells over the Greater Toronto Hamilton Area in Ontario, Canada is included to aid visualization.
DOI: 10.17632/9ghcvh2dmb.2
title: Net-zero emissions chemical industry in a world of limited resources

description: Unprocessed data for scientific article: Net-zero emissions chemical industry in a world of limited resources.

Authors of the article: Paolo Gabrielli, Lorenzo Rosa, Matteo Gazzani, Raoul Meys, André Bardow, Marco Mazzotti, Giovanni Sansavini

The article is published on One Earth and can be cited as:
Gabrielli, P. et al. (2023) Net-zero emissions chemical industry in a world of limited resources, One Earth 6, https://doi.org/10.1016/j.oneear.2023.05.006

Data creator and curator: Paolo Gabrielli
DOI: 10.17632/93tj5gwh3j.2
title: turboLysis: A low-cost, small footprint alternative to commercial bead beaters for cell lysis.

description: turboLysis is a novel mechanical cell lysis device that utilizes small beads to efficiently lyse tough cells like Mycobacterium, Saccharomyces, and Arabidopsis. We compared turboLysis to bead beating using the BeadBug 6 for several concentrations of Mycobacterium tuberculosis roughly correlated to the bacterial load commonly seen in patient samples. turboLysis performed similarly to the BeadBug at low bacterial concentrations and outperformed it at high concentrations above 2x105 CFU/ml (p&lt;0.005). Thus, turboLysis offers good cell lytic performance in a small form factor at a low cost.
DOI: 10.17632/wnxv7wbfsx.4
title: Ardulake temperature profiler: an open-source, low-cost, automated monitoring system to unravel the mixing behavior of lakes. (published in HardwareX)

description: Understanding the thermal classification of lakes based on mixing regimes is fundamental in limnology. Although this classification has traditionally been considered well-established, recent studies highlight variations in the mixing behaviors of ponds and shallow lakes. This paper introduces the Ardulake temperature profiler, an innovative, simple, and autonomous high-frequency temperature monitoring system designed for shallow to moderately deep lakes (3.5 to 10 meters). Utilizing Arduino technology and GPRS telemetry, the system is cost-effective, with electronic components and sensors costing approximately USD 250 and buoy construction and deployment around USD 1000. The Ardulake enables real-time environmental temperature monitoring and data storage on an online platform for subsequent analysis and visualization. The collected data supports ecosystem research and the numerical modeling of thermal behavior in lakes. Key strengths of the system include low production and maintenance costs, replicability, and customization capabilities. Challenges, such as interference from animal activity, are addressed with recommended preventive measures tailored to specific fauna. Overall, the Ardulake temperature profiler offers a practical tool for advancing limnological research, with potential for modification to various environmental monitoring objectives.
DOI: 10.17632/wnxv7wbfsx.5
title: Ardulake temperature profiler: an open-source, low-cost, automated monitoring system to unravel the mixing behavior of lakes. (published in HardwareX)

description: Understanding the thermal classification of lakes based on mixing regimes is fundamental in limnology. Although this classification has traditionally been considered well-established, recent studies highlight variations in the mixing behaviors of ponds and shallow lakes. This paper introduces the Ardulake temperature profiler, an innovative, simple, and autonomous high-frequency temperature monitoring system designed for shallow to moderately deep lakes (3.5 to 10 meters). Utilizing Arduino technology and GPRS telemetry, the system is cost-effective, with electronic components and sensors costing approximately USD 250 and buoy construction and deployment around USD 1000. The Ardulake enables real-time environmental temperature monitoring and data storage on an online platform for subsequent analysis and visualization. The collected data supports ecosystem research and the numerical modeling of thermal behavior in lakes. Key strengths of the system include low production and maintenance costs, replicability, and customization capabilities. Challenges, such as interference from animal activity, are addressed with recommended preventive measures tailored to specific fauna. Overall, the Ardulake temperature profiler offers a practical tool for advancing limnological research, with potential for modification to various environmental monitoring objectives.
DOI: 10.17632/wnxv7wbfsx.1
title: Guillermo & García-Climent - Ardulake temperature profiler: an open-source, low-cost, automated monitoring system for unraveling the mixing behavior of lakes. (submitted to HardwareX)

description: The thermal classification of lakes according to their mixing regime is a piece of classical limnology. The topic seemed to be scientifically settled, but new knowledge is emerging about differences in mixing regimes still for ponds and shallow lakes. The present article presents the technological development of an original, simple, and autonomous high-frequency temperature monitoring system at various depths applied to research of thermal behavior of intermediate depth lakes. The proposal, named Ardulake temperature profiler, was based on Arduino technology and utilized telemetry via GPRS. Not only the development of the equipment but also installation criteria and performance evaluation after more than two years are analyzed. The monitoring system was useful for real-time high frequency monitoring of environmental temperature as well as storing the data on an online platform for further analysis or visualization. The generated data is being used to numerically model the thermic behavior of a subtropical urban lake. The main strengths of the system are low production and maintenance costs, replicability, and customization possibilities. Advice for the development of projects with similar characteristics is given. Possibilities of adapting to other objectives, main identified cautions, and perspectives for improvement are also addressed.
DOI: 10.17632/wnxv7wbfsx.2
title: Ardulake temperature profiler: an open-source, low-cost, automated monitoring system for unraveling the mixing behavior of lakes. (submitted to HardwareX)

description: The thermal classification of lakes according to their mixing regime is a piece of classical limnology. The topic seemed to be scientifically settled, but new knowledge is emerging about differences in mixing regimes still for ponds and shallow lakes. The present article presents the technological development of an original, simple, and autonomous high-frequency temperature monitoring system at various depths applied to research of thermal behavior of intermediate depth lakes. The proposal, named Ardulake temperature profiler, was based on Arduino technology and utilized telemetry via GPRS. Not only the development of the equipment but also installation criteria and performance evaluation after more than two years are analyzed. The monitoring system was useful for real-time high frequency monitoring of environmental temperature as well as storing the data on an online platform for further analysis or visualization. The generated data is being used to numerically model the thermic behavior of a subtropical urban lake. The main strengths of the system are low production and maintenance costs, replicability, and customization possibilities. Advice for the development of projects with similar characteristics is given. Possibilities of adapting to other objectives, main identified cautions, and perspectives for improvement are also addressed.
DOI: 10.17632/gdk9bwwtsx.1
title: LINF_350058400

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/92x94m2mkr.1
title: LINF_350058800

description: SAC3/GANP/THP3-like protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/nxncbzzz38.2
title: Vertical Two-Phase Flow Regimes in an Annulus Image Dataset - Texas A&M University

description: The Vertical Two-Phase Flow Regimes in an annulus Image Dataset, generated at Texas A&M University, presents an extensive collection of high-resolution images capturing various gas-liquid two-phase flow dynamics within a vertical flow setup. This dataset results from meticulous experimental work in the 140 ft Tower Lab, utilizing a combination of water and air flows to simulate real-world conditions and employing high-quality video recordings to document flow regime transitions. Designed to support research in fluid dynamics, machine vision, and computational modeling, the dataset offers valuable resources for developing machine vision models for accurate regime detection and differentiation, enhancing the fidelity of computational fluid dynamics simulations, and facilitating the estimation of critical flow parameters. Despite its comprehensive nature, the dataset notes limitations such as the absence of annular flow regime images and its exclusive focus on vertical flow conditions.
DOI: 10.17632/g8yh339t9v.1
title: GEO2R Analysis of Depression-Related Co-expression Differential Genes Reveals Close Associations with Multiple Nutrients

description: Objective: To elucidate the pathophysiological mechanisms of depression at the genetic level and its correlation with various nutrients by analyzing raw data from open databases.
Methods: Studies supporting GEO2R analysis of human depression-related gene analyses in the GEO database were retrieved. Co-DEGs were screened for functional and pathway enrichment, PPI, and HUB gene analyses.
Results: 3,039 studies on human depression-related gene analysis in the GEO database were identified. After screening, 5 sets of gene core DEGs (Padj &lt; 0.05 & |FC| &gt; 1.2) were obtained, and Venn analysis yielded 2 sets of Co-DEGs (108 up-regulated, 112 downregulated). Functional enrichment showed that Co-DEGs are involved in protein synthesis, signal transduction, RNA regulation, enzymatic reaction regulation, and ATP metabolism; pathway enrichment was found in cell membrane function, inflammatory response, with multiple pathways involving calcium ion homeostasis imbalance, GSK3β, Wnt/β-catenin. PPI analysis identified 10 proteins with high centrality (node degree ≥ 3): TGFA, ITGA1, ITGA2, ITGA2B, RTCA, TRMT13, CCND1, GPSM3, KLRG1, and NSUN6; Cytoscape software analysis identified 10 HUB genes: ITGA2B, ITGA5, ITGA1, ITGA2, TRMT13, NSUN6, TRMT10C, KLRG1, RTCA, and CCR1. The integrin family among these proteins and genes has complex and close connections with nutrients, including amino acids, vitamins, and trace minerals, especially tryptophan associated with the platelet subunit encoded by ITGA2B; non-integrin genes TRMT10C, TRMT13, and NSUN6 encode SAM-dependent methyltransferases, and the G-protein function encoded by GPSM3 is modified by n-3.
Conclusion: The pathophysiological mechanisms at the genetic level of depression suggest that the onset, progression, and intervention of the disease are closely related to various nutrients. Targeted research and clinical strategies may contribute to progress in the fields of depression and nutrition.
DOI: 10.17632/xybfnkrmsx.1
title: Image of particles from marine sediment samples collected in Kg Tekek, Tioman Island in July 2023

description: 146 Image of particles from marine sediment samples collected in Kg Tekek, Tioman Island in July 2023
DOI: 10.17632/prdgmjcg69.2
title: Dataset for the paper: Assessing the impact of forest management and climate on a peatland under Scots pine monoculture using a multidisciplinary approach

description: This data set includes palaeoecological data from Okoniny peatland that were published in the paper:
Bąk, M., Lamentowicz, M., Kołaczek, P., Wochal, D., Matulewski, P., Kopeć, D., Wietecha, M., Jaster, D., Marcisz, K., 2024. Assessing the impact of forest management and climate on a peatland under Scots pine monoculture using a multidisciplinary approach.
Publication available under a link: https://doi.org/10.5194/egusphere-2024-1308

The study was funded by the National Science Centre, Poland, grant 2020/39/D/ST10/00641. Remote sensing data collection and visualization were done within the scope of the project “Protection of Valuable Ecosystems of Tuchola Forest" funded by the European Economic Area Financial Mechanism 2014-2021 within the framework of the Environment, Energy and Climate Change Programme MF EEA 2014-2021 "Implementation of Ecosystem Management Plans".

The data set includes several proxies: 
- 14C dates and peat accumulation rates, bulk density
- Testate amoebae and depth to water table reconstruction
- Pollen and NPP
- Plant macrofossils
- Macroscopic and microscopic charcoal
- Dendroclimatic data
DOI: 10.17632/ygjbckrx34.2
title: Data of experimental investigation on the brittle-ductile transition of natural mafic granulite

description: The data set contains corrected stress-strain data of natural mafic granulite samples experimentally deformed in triaxial compression at temperatures of 950 – 1150°C and a confining pressure of 300 MPa, at varying strain rates between 10-4 s-1 and 10-6 s-1, and other relevant data of the figures in the paper. Depending on the applied conditions, which are nominally in the semi-brittle and ductile deformation regimes of mafic granulite, we observed the deformation characteristics of the brittle-ductile transition of natural mafic granulite. The experiments were performed on the cylindrical samples using a gas (argon) confining medium apparatus at State Key Laboratory of Earthquake Dynamics, Institute of Geology, China Earthquake Administration, Beijing, China.
The zip-file ‘Data’ contains the raw data files recorded during deformation experiments. The calculated stress–strain data is show in the excel file named after Stress-Strain.xlsx.
DOI: 10.17632/pf7msnd8d4.1
title: Infrared spectra of particles were obtained from marine sediment samples in September 2023 using the Alpha, Lumos, and Invenio-R spectrometers

description: 127 Infrared spectra of particles were obtained from marine sediment samples in September 2023 using the Alpha, Lumos, and Invenio-R spectrometers
DOI: 10.17632/b2xbcrp337.1
title: Sampling permit from Department of Fisheries Malaysia

description: Sampling permit from Department of Fisheries Malaysia
DOI: 10.15468/dl.ty79nu
title: Occurrence Download

description: A dataset containing 186 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Colobus vellerosus (I.Geoffroy Saint-Hilaire, 1834)"
 ]
}

 The dataset includes 186 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004229-250117142028555/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/njc43t58gt.1
title: Map of Tioman Island showing the location of 22 sampling sites in KML format

description: Map of Tioman Island showing the location of 22 sampling sites in KML format