cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21293769
title: Lactobacillus rhamnosus GG ameliorates osteoporosis in ovariectomized rats by regulating the Th17/Treg balance and gut microbiota structure

description: The experimental animal license number is SCXK (Zhejiang) 2019-0002, and the Experimental Animal Ethics number is 202109A025. In this study, LGG was used to treat the rat model of osteoporosis induced by ovariectomies. The effects of LGG on bone microstructure, bone biomechanics, bone biochemical indexes and gut-bone TH17 and Treg imbalance in the ovariectomized model were studied, and LGG treatment could regulate the structure of the whole gut microbiota. All statistical analyses were performed using GraphPad Prism 8.2.1 (GraphPad Software Inc.), correlation analysis of the heat map at http://vip.sangerbox.com/ and intestinal flora data analysis and drawing on http://login.majorbio.com/. The graphic summary was produced using the website https://biorender.com/ .
DOI: 10.5281/zenodo.5531347
title: Determining the photostability of avobenzone in sunscreen formulation models using ultrafast spectroscopy

description: Avobenzone is an ultraviolet (UV) filter that is often included in sunscreen formulations despite its lack of photostability. Its inclusion is necessary due to few existing alternatives for photoprotection in the UVA region (320 – 400 nm). To better understand and predict the photostability of avobenzone, ultrafast transient electronic absorption spectroscopy (TEAS) has been used to study the effects of solvent (including emollients), concentration and skin surface temperature on its excited-state relaxation mechanism, following photoexcitation with UVA radiation (~350 nm). Subtle differences between the excited-state lifetimes were found between the systems, but the TEAS spectral features were qualitatively the same for all solution and temperature combinations. Alongside TEAS measurements, UV filter/emollient blends containing avobenzone were irradiated using simulated solar light and their degradation tracked using steady-state UV-visible spectroscopy. Sun protection factor (SPF) and UVA protection factor (UVA-PF) assessments were also carried out on representative oil phases (higher concentration blends), which could be used to formulate oil-in-water sunscreens. It was found that there was an apparent concentration dependence on the long-term photoprotective efficacy of these mixtures, which could be linked to the ultrafast photodynamics by the presence of a ground-state bleach offset. This combination of techniques show potential for correlating long-term behaviours (minutes to hours) of avobenzone with its ultrafast photophysics (femtoseconds to nanoseconds), bridging the gap between fundamental photophysics/photochemistry and commercial sunscreen design.
DOI: 10.5281/zenodo.5531346
title: Determining the photostability of avobenzone in sunscreen formulation models using ultrafast spectroscopy

description: Avobenzone is an ultraviolet (UV) filter that is often included in sunscreen formulations despite its lack of photostability. Its inclusion is necessary due to few existing alternatives for photoprotection in the UVA region (320 – 400 nm). To better understand and predict the photostability of avobenzone, ultrafast transient electronic absorption spectroscopy (TEAS) has been used to study the effects of solvent (including emollients), concentration and skin surface temperature on its excited-state relaxation mechanism, following photoexcitation with UVA radiation (~350 nm). Subtle differences between the excited-state lifetimes were found between the systems, but the TEAS spectral features were qualitatively the same for all solution and temperature combinations. Alongside TEAS measurements, UV filter/emollient blends containing avobenzone were irradiated using simulated solar light and their degradation tracked using steady-state UV-visible spectroscopy. Sun protection factor (SPF) and UVA protection factor (UVA-PF) assessments were also carried out on representative oil phases (higher concentration blends), which could be used to formulate oil-in-water sunscreens. It was found that there was an apparent concentration dependence on the long-term photoprotective efficacy of these mixtures, which could be linked to the ultrafast photodynamics by the presence of a ground-state bleach offset. This combination of techniques show potential for correlating long-term behaviours (minutes to hours) of avobenzone with its ultrafast photophysics (femtoseconds to nanoseconds), bridging the gap between fundamental photophysics/photochemistry and commercial sunscreen design.
description: This Version includes a pdf copy of the manuscript to which the data refers. There have been no changes made to the raw data in this Version, compared to Version 1.
DOI: 10.5281/zenodo.7156148
title: Determining the photostability of avobenzone in sunscreen formulation models using ultrafast spectroscopy

description: Avobenzone is an ultraviolet (UV) filter that is often included in sunscreen formulations despite its lack of photostability. Its inclusion is necessary due to few existing alternatives for photoprotection in the UVA region (320 – 400 nm). To better understand and predict the photostability of avobenzone, ultrafast transient electronic absorption spectroscopy (TEAS) has been used to study the effects of solvent (including emollients), concentration and skin surface temperature on its excited-state relaxation mechanism, following photoexcitation with UVA radiation (~350 nm). Subtle differences between the excited-state lifetimes were found between the systems, but the TEAS spectral features were qualitatively the same for all solution and temperature combinations. Alongside TEAS measurements, UV filter/emollient blends containing avobenzone were irradiated using simulated solar light and their degradation tracked using steady-state UV-visible spectroscopy. Sun protection factor (SPF) and UVA protection factor (UVA-PF) assessments were also carried out on representative oil phases (higher concentration blends), which could be used to formulate oil-in-water sunscreens. It was found that there was an apparent concentration dependence on the long-term photoprotective efficacy of these mixtures, which could be linked to the ultrafast photodynamics by the presence of a ground-state bleach offset. This combination of techniques show potential for correlating long-term behaviours (minutes to hours) of avobenzone with its ultrafast photophysics (femtoseconds to nanoseconds), bridging the gap between fundamental photophysics/photochemistry and commercial sunscreen design.
description: This Version includes a pdf copy of the manuscript to which the data refers. There have been no changes made to the raw data in this Version, compared to Version 1.
DOI: 10.6084/m9.figshare.20634572
title: Geochemical and health risk assessment of potentially toxic trace elements and nitrate <i>via</i> groundwater in agro-ecosystem of alluvial plain Punjab, India

description: Sporadic rainfall and limited surface water sources have increased dependency on groundwater in semi-arid region of Punjab. The present paper is comprehensive study carried out in an intensive agricultural region of southwest Punjab to examine the quality and extent of contamination due to trace elements and nitrate in the aquifer system. Total 15 toxic elements are analyzed in groundwater samples (<i>N</i> = 129) covering both the shallow (&lt;60 m) and deeper aquifers (&gt;60 m). Elements such as As, B, Cd, Li, Mn, Pb, Sr, and Se exceed the prescribed limits. Overall, 68 and 13% of samples exceed the NO<sub>3</sub><sup>−</sup> permissible limit (45 ppm) in shallow and deep aquifers, respectively. Contaminants concentration increases toward groundwater flow direction, that is, from northeast to southwest possibly due to arid climatic conditions. Relatively, shallow aquifer is more contaminated than deeper aquifer due to fertilizers input and irrigation return flow. Drinking water quality indices (DWQI) reveal that groundwater is unfit for drinking at most locations. Further, health risk indicate that comparatively, children are at higher risk in terms of non-carcinogenic risk posed by nitrate, and higher carcinogenic risk for As, Cr, and Cd is seen in all age groups. Multivariate analysis reveals the influence of anthropogenic activities on NO<sub>3</sub><sup>−</sup>, Mn, Ni, and Zn levels, while geogenic factors control the, As and Mo concentrations. Present findings suggest regular monitoring of wells to lower the public health risk.
DOI: 10.6084/m9.figshare.20634572.v1
title: Geochemical and health risk assessment of potentially toxic trace elements and nitrate <i>via</i> groundwater in agro-ecosystem of alluvial plain Punjab, India

description: Sporadic rainfall and limited surface water sources have increased dependency on groundwater in semi-arid region of Punjab. The present paper is comprehensive study carried out in an intensive agricultural region of southwest Punjab to examine the quality and extent of contamination due to trace elements and nitrate in the aquifer system. Total 15 toxic elements are analyzed in groundwater samples (<i>N</i> = 129) covering both the shallow (&lt;60 m) and deeper aquifers (&gt;60 m). Elements such as As, B, Cd, Li, Mn, Pb, Sr, and Se exceed the prescribed limits. Overall, 68 and 13% of samples exceed the NO<sub>3</sub><sup>−</sup> permissible limit (45 ppm) in shallow and deep aquifers, respectively. Contaminants concentration increases toward groundwater flow direction, that is, from northeast to southwest possibly due to arid climatic conditions. Relatively, shallow aquifer is more contaminated than deeper aquifer due to fertilizers input and irrigation return flow. Drinking water quality indices (DWQI) reveal that groundwater is unfit for drinking at most locations. Further, health risk indicate that comparatively, children are at higher risk in terms of non-carcinogenic risk posed by nitrate, and higher carcinogenic risk for As, Cr, and Cd is seen in all age groups. Multivariate analysis reveals the influence of anthropogenic activities on NO<sub>3</sub><sup>−</sup>, Mn, Ni, and Zn levels, while geogenic factors control the, As and Mo concentrations. Present findings suggest regular monitoring of wells to lower the public health risk.
DOI: 10.17632/2yy9h3v44s.1
title: Quantum accelerator research, DR Sammuel Bekket notes

description: An embargo is a government order that restricts commerce with a specified country or the exchange of specific goods. An embargo is usually created as a result of unfavorable political or economic circumstances between nations. It is designed to isolate a country and create difficulties for its governing body, forcing it to act on the issue that led to the embargo.
DOI: 10.17632/7yhdmmpf6h.1
title: Measurement of Grain Bulk Modulus on Sandstone Samples from the Norwegian Continental Shelf

description: The data include 38 sandstone samples in three fields from the Norwegian continental shelf. Grain bulk modulus is measured at the unjacketed condition. Raw strain-stress data can be found in "Strain_stress_unjacketed_38_sandstone_samples.csv". Measured grain bulk modulus (GPa) with sample porosity (V/V), density (g/cm3), air permeability (10^(-15) m^2 or micro Darcy), and formation temperature (Celcius degree) are compiled in "Grain_bulk_modulus_38_sandstone.csv". Mineralogic composition by weight is provided for 9 sandstone samples in "XRD_9_sandstone_samples.csv".
DOI: 10.17632/82zygyrsk3.1
title: Child schooling/ Out of school children in Kwara state, Nigeria

description: This data is primary data collected with the use of a questionnaire for the purpose of analysing the situation of child schooling in Kwara State Nigeria. This data has been coded and the data was collected from three locations of Ilorin, Offa and Patigi which represent the three senatorial districts in the state, that is Kwara Central, Kwara South and Kwara North.
This work has been granted approval by the Ethics committee of the Universiti Sains Malaysia (JEPEM), and all the conditions were strictly adhered to in the process of data collection.
This data was collected from about 1120 households across five local governments within the three senatorial districts and it is representative of the state.
Attached with the data set is a table describing the data set.
DOI: 10.17632/82zygyrsk3.2
title: Dataset for Child schooling/ Out of school children in Kwara state, Nigeria

description: This data is a primary data collected with the use of a questionnaire for the purpose of analysing the situation of child schooling in Kwara State Nigeria. This data has been coded and the data was collected from three locations of Ilorin, Offa and Patigi which represent the three senatorial districts in the state, that is Kwara Central, Kwara South and Kwara North.
This work has been granted approval by the Ethics committee of the Universiti Sains Malaysia (JEPEM), and all the conditions were strictly adhered to in the process of data collection.
This data was collected from about 1120 households across five local governments within the three senatorial districts and it is representative of the state.
Attached with the data set is a table describing the dataset, and the questionnaire with informed consent form.
DOI: 10.17632/shrtrdfhyt.1
title: Mechanisms and significance of tissue-specific MICU regulation of the mitochondrial calcium uniporter complex. Tsai et al.

description: Unprocessed raw images in Tsai et al., Molecular Cell, 2022.
DOI: 10.57826/keen/nyynal
title: Dataverse Tutorial Material

description: Material to lern how to configure and use Dataverse.
DOI: 10.25440/smu.21276039
title: Food dataset for "SibNet: Food instance counting and segmentation"

description: These three datasets cover Western, Chinese and Japanese food used for food instance counting and segmentation evaluation. This dataset consists of 3 folders, storing images, instance segmentation masks and the splits of training, testing, and validation. This record includes the data and source code for the paper <em>SibNet: Food instance counting and segmentation</em>. <br> Food computing has recently attracted considerable research attention due to its significance for health risk analysis. In the literature, the majority of research efforts are dedicated to food recognition. Relatively few works are conducted for food counting and segmentation, which are essential for portion size estimation. This paper presents a deep neural network, named SibNet, for simultaneous counting and extraction of food instances from an image. The problem is challenging due to varying size and shape of food as well as arbitrary viewing angle of camera, not to mention that food instances often occlude each other. SibNet is novel for proposal of learning seed map to minimize the overlap between instances. The map facilitates counting and can be completed as an instance segmentation map that depicts the arbitrary shape and size of individual instance under occlusion. To this end, a novel sibling relation sub-network is proposed for pixel connectivity analysis. Along with this paper, three new datasets covering Western, Chinese and Japanese food are also constructed for performance evaluation.
DOI: 10.25440/smu.21276039.v1
title: Food dataset for "SibNet: Food instance counting and segmentation"

description: These three datasets cover Western, Chinese and Japanese food used for food instance counting and segmentation evaluation. This dataset consists of 3 folders, storing images, instance segmentation masks and the splits of training, testing, and validation. This record includes the data and source code for the paper <em>SibNet: Food instance counting and segmentation</em>. <br> Food computing has recently attracted considerable research attention due to its significance for health risk analysis. In the literature, the majority of research efforts are dedicated to food recognition. Relatively few works are conducted for food counting and segmentation, which are essential for portion size estimation. This paper presents a deep neural network, named SibNet, for simultaneous counting and extraction of food instances from an image. The problem is challenging due to varying size and shape of food as well as arbitrary viewing angle of camera, not to mention that food instances often occlude each other. SibNet is novel for proposal of learning seed map to minimize the overlap between instances. The map facilitates counting and can be completed as an instance segmentation map that depicts the arbitrary shape and size of individual instance under occlusion. To this end, a novel sibling relation sub-network is proposed for pixel connectivity analysis. Along with this paper, three new datasets covering Western, Chinese and Japanese food are also constructed for performance evaluation.
DOI: 10.25388/nwu.19144562
title: Untitled ItemCaecal microbial communities, functional diversity, and metabolic pathways in Ross 308 broiler chickens fed with diets containing different levels of Marama (Tylosema esculentum) bean meal

description: The caecum of a chicken harbours complex microbial communities that play vital roles in feed digestion, nutrient absorption, and bird health. Understanding the caecal microbial communities could help improve feed utilisation efficiency and chicken product quality and, ultimately, deliver sustainable poultry production systems. Thus, this study assessed the caecal microbial communities and their functional diversity and metabolic pathways in broilers reared on diets containing different levels of marama (<em>Tylosema esculentum</em>) bean meal (MBM). A total of 350, day-old male Ross 308 broiler chicks were randomly allocated to 5 dietary treatments formulated as follows: a soybean-based standard broiler diet (Con_BC); Con_BC in which soybean products were substituted with 7 (M7_BC), 14 (M14_BC), 21 (M21_BC), and 28 % (M28_BC) MBM. The dietary treatments were distributed to 35 replicate pens (10 birds each). After 42 days of feeding, the birds were slaughtered and thereafter caecal samples were collected from each replicate pen. Subsequently, the samples were pooled per treatment group for metagenomics sequence analysis. The results revealed that the bacteria domain (99.11 %), with Bacteroides, Firmicutes and Proteobacteria being the most prominent phyla (48.28, 47.52 and 4.86 %, respectively). Out of 846 genera obtained, the most abundant genera were <em>Bacteroides</em>,<em> Clostridium</em>,<em> Alistipes</em>,<em> Faecalibacterium</em>,<em> Ruminococcus</em>,<em> Eubacterium</em>, and<em> Parabacterioides.</em> At the genus level, the alpha-diversity showed significant (P &lt; 0.05) difference across all treatment groups. Based on the SEED subsystem, 28 functional categories that include carbohydrates (14.65 %), clustering-based subsystems (13.01 %), protein metabolism (10.12 %) were obtained. The KO analysis revealed 183 endogenous pathways, with 100 functional pathways associated with the metabolism category. Moreover, 15 pathways associated with carbohydrates were observed. The glycolysis/gluconeogenesis, galactose metabolism, pyruvate metabolism (15.32, 12.63 and 11.93 %) were the most abundant pathways. Moreover, glycoside hydrolases (GH1, GH5, and GH13) were the most prominent carbohydrates-active enzymes. Therefore, results presented in this study suggest that dietary MB meal can improve microbial communities and their functional and metabolic pathways, which may help increase poultry production.
DOI: 10.25388/nwu.19144562.v1
title: Untitled ItemCaecal microbial communities, functional diversity, and metabolic pathways in Ross 308 broiler chickens fed with diets containing different levels of Marama (Tylosema esculentum) bean meal

description: The caecum of a chicken harbours complex microbial communities that play vital roles in feed digestion, nutrient absorption, and bird health. Understanding the caecal microbial communities could help improve feed utilisation efficiency and chicken product quality and, ultimately, deliver sustainable poultry production systems. Thus, this study assessed the caecal microbial communities and their functional diversity and metabolic pathways in broilers reared on diets containing different levels of marama (<em>Tylosema esculentum</em>) bean meal (MBM). A total of 350, day-old male Ross 308 broiler chicks were randomly allocated to 5 dietary treatments formulated as follows: a soybean-based standard broiler diet (Con_BC); Con_BC in which soybean products were substituted with 7 (M7_BC), 14 (M14_BC), 21 (M21_BC), and 28 % (M28_BC) MBM. The dietary treatments were distributed to 35 replicate pens (10 birds each). After 42 days of feeding, the birds were slaughtered and thereafter caecal samples were collected from each replicate pen. Subsequently, the samples were pooled per treatment group for metagenomics sequence analysis. The results revealed that the bacteria domain (99.11 %), with Bacteroides, Firmicutes and Proteobacteria being the most prominent phyla (48.28, 47.52 and 4.86 %, respectively). Out of 846 genera obtained, the most abundant genera were <em>Bacteroides</em>,<em> Clostridium</em>,<em> Alistipes</em>,<em> Faecalibacterium</em>,<em> Ruminococcus</em>,<em> Eubacterium</em>, and<em> Parabacterioides.</em> At the genus level, the alpha-diversity showed significant (P &lt; 0.05) difference across all treatment groups. Based on the SEED subsystem, 28 functional categories that include carbohydrates (14.65 %), clustering-based subsystems (13.01 %), protein metabolism (10.12 %) were obtained. The KO analysis revealed 183 endogenous pathways, with 100 functional pathways associated with the metabolism category. Moreover, 15 pathways associated with carbohydrates were observed. The glycolysis/gluconeogenesis, galactose metabolism, pyruvate metabolism (15.32, 12.63 and 11.93 %) were the most abundant pathways. Moreover, glycoside hydrolases (GH1, GH5, and GH13) were the most prominent carbohydrates-active enzymes. Therefore, results presented in this study suggest that dietary MB meal can improve microbial communities and their functional and metabolic pathways, which may help increase poultry production.
DOI: 10.5258/soton/d1999
title: Dataset to support the journal article 'Thermo-optic tuning of silicon nitride microring resonators with low loss non-volatile Sb2S3 phase change material'

description: Dataset supports Stefan Ilie et al. (2022). "Thermo-optic tuning of silicon nitride microring resonators with low loss non-volatile Sb2S3 phase change material" published in Scientific Reports
DOI: 10.5281/zenodo.7156117
title: Molecular dynamics trajectories obtained from simulations of mechanically-controlled break-junctions and associated zero-bias conductance.

description: This data set contains structural information and the associated zero-bias conductance of mechanically-controlled break-junction experiments. It contains: Six (multi) xyz files (trajectory_0X.xyz), which contain different trajectories produced by molecular dynamic simulations (using LAMMPS and reactive force fields) of a mechanically-controlled break-junction. These simulations start from a gold wire with attached molecules. One side of the wire is slowly pulled away, until the gold wire is broken apart and a molecular junction is formed. The outermost six layers of the goldwire are frozen in the simulation. The temperature of the simulation was set to 300K. Six files (transmission_0X.dat) with the calculated zero-bias conductance (G/G<sub>0</sub>). Each entry corresponds to the zero-bias conductance of the corresponding structure from the xyz files. The zero-bias conductance was calculated using non-scc DFTB+, as, e.g., described here. For more information see dx.doi.org/XXXXXXX.
description: This work is supported by the Cluster of Excellence "Advanced Imaging of Matter" of the Deutsche Forschungsgemeinschaft (DFG) - EXC 2056 - project ID 390715994.