cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3408877.v1
title: Dietary exposure to mycotoxins of the Hong Kong adult population from a Total Diet Study

description: Dietary exposure of Hong Kong adults to mycotoxins and their metabolites including aflatoxins (AFs), ochratoxin A (OTA), fumonisins (FNs), deoxynivalenol (DON), acetyldeoxynivalenols (AcDONs) and zearalenone (ZEA) was estimated using the Total Diet Study (TDS) approach to assess the associated health risk to the local people. Sixty commonly consumed food items, collected in four seasons, were sampled and prepared as consumed. These mycotoxins were primarily found at low levels. The highest mean levels (upper bound) were: AFs, 1.50 µg kg<sup>–</sup><sup>1</sup> in legumes, nuts and seed; OTA, 0.22 µg kg<sup>–</sup><sup>1</sup> in sugars and confectionery; FNs, 9.76 µg kg<sup>–</sup><sup>1</sup> in cereals and their products; DON and AcDONs, 33.1 µg kg<sup>–</sup><sup>1</sup> in cereals and their products; and ZEA, 53.8 µg kg<sup>–</sup><sup>1</sup> in fats and oils. The estimated dietary exposures of Hong Kong adults to the mycotoxins analysed were well below the respective health-based guidance values, where available. For AFs, the upper-bound exposure for high consumers is 0.0049 µg kg bw<sup>–</sup><sup>1</sup> day<sup>–</sup><sup>1</sup>, which was estimated to contribute to about 7.7 (&lt; 1%) of liver cancer cases when compared with 1222 liver cancer cases per year in Hong Kong. The percentage contributions of the estimated 95th percentile dietary exposures (lower and upper bound) to the health-based guidance values of individual mycotoxins were: ochratoxin A, 3.6–9.2%; fumonisins, 0.04–8.5%; deoxynivalenol and acetyldeoxynivalenols, 21.7–28.2%; and zearalenone 3.3–34.5%. The findings indicate that dietary exposures to all the mycotoxins analysed in this study were unlikely to pose an unacceptable health risk to the Hong Kong population.
DOI: 10.6084/m9.figshare.3408856
title: Non-targeted screening for contaminants in paper and board food-contact materials using effect-directed analysis and accurate mass spectrometry

description: Due to large knowledge gaps in chemical composition and toxicological data for substances involved, paper and board food-contact materials (P&B FCM) have been emerging as a FCM type of particular concern for consumer safety. This study describes the development of a step-by-step strategy, including extraction, high-performance liquid chromatography (HPLC) fractionation, tentative identification of relevant substances and <i>in vitro</i> testing of selected tentatively identified substances. As a case study, we used two fractions from a recycled pizza box sample which exhibited aryl hydrocarbon receptor (AhR) activity. These fractions were analysed by gas chromatography (GC) and ultra-HPLC (UHPLC) coupled to quadrupole time-of-flight mass spectrometers (QTOF MS) in order tentatively to identify substances. The elemental composition was determined for peaks above a threshold, and compared with entries in a commercial mass spectral library for GC-MS (GC-EI-QTOF MS) analysis and an in-house built library of accurate masses for substances known to be used in P&B packaging for UHPLC-QTOF analysis. Of 75 tentatively identified substances, 15 were initially selected for further testing <i>in vitro</i>; however, only seven were commercially available and subsequently tested <i>in vitro</i> and quantified. Of these seven, the identities of three pigments found in printing inks were confirmed by UHPLC tandem mass spectrometry (QqQ MS/MS). Two pigments had entries in the database, meaning that a material relevant accurate mass database can provide a fast tentative identification. Pure standards of the seven tentatively identified substances were tested <i>in vitro</i> but could not explain a significant proportion of the AhR-response in the extract. Targeted analyses of dioxins and PCBs, both well-known AhR agonists, was performed. However, the dioxins could explain approximately 3% of the activity observed in the pizza box extract indicating that some very AhR active substance(s) still remain to be identified in recycled low quality P&B.
DOI: 10.6084/m9.figshare.3408856.v1
title: Non-targeted screening for contaminants in paper and board food-contact materials using effect-directed analysis and accurate mass spectrometry

description: Due to large knowledge gaps in chemical composition and toxicological data for substances involved, paper and board food-contact materials (P&B FCM) have been emerging as a FCM type of particular concern for consumer safety. This study describes the development of a step-by-step strategy, including extraction, high-performance liquid chromatography (HPLC) fractionation, tentative identification of relevant substances and <i>in vitro</i> testing of selected tentatively identified substances. As a case study, we used two fractions from a recycled pizza box sample which exhibited aryl hydrocarbon receptor (AhR) activity. These fractions were analysed by gas chromatography (GC) and ultra-HPLC (UHPLC) coupled to quadrupole time-of-flight mass spectrometers (QTOF MS) in order tentatively to identify substances. The elemental composition was determined for peaks above a threshold, and compared with entries in a commercial mass spectral library for GC-MS (GC-EI-QTOF MS) analysis and an in-house built library of accurate masses for substances known to be used in P&B packaging for UHPLC-QTOF analysis. Of 75 tentatively identified substances, 15 were initially selected for further testing <i>in vitro</i>; however, only seven were commercially available and subsequently tested <i>in vitro</i> and quantified. Of these seven, the identities of three pigments found in printing inks were confirmed by UHPLC tandem mass spectrometry (QqQ MS/MS). Two pigments had entries in the database, meaning that a material relevant accurate mass database can provide a fast tentative identification. Pure standards of the seven tentatively identified substances were tested <i>in vitro</i> but could not explain a significant proportion of the AhR-response in the extract. Targeted analyses of dioxins and PCBs, both well-known AhR agonists, was performed. However, the dioxins could explain approximately 3% of the activity observed in the pizza box extract indicating that some very AhR active substance(s) still remain to be identified in recycled low quality P&B.
DOI: 10.6084/m9.figshare.3408778
title: Data from Differences in the oxidative balance of dispersing and non-dispersing individuals - an experimental approach in a passerine bird

description: Full datasets for females and nestlings used in the publication.<br>
DOI: 10.21227/3s87-vc22
title: OCT Tumor

description: This data is related to Novel window for cancer nanotheranostics: non-invasive ocular assessments of tumor growth and nanotherapeutic treatment efficacy in vivo published athttps://doi.org/10.1364/BOE.10.000151The file also contains Deep Learning Codes for segmentation of Tumor using U-Net model. Training weights are also uploaded.
DOI: 10.6084/m9.figshare.3408778.v2
title: Data from Differences in the oxidative balance of dispersing and non-dispersing individuals - an experimental approach in a passerine bird

description: Full datasets for females and nestlings used in the publication.<br>
DOI: 10.21227/qe2j-2a58
title: OCT Tumor

description: This data is related to Novel window for cancer nanotheranostics: non-invasive ocular assessments of tumor growth and nanotherapeutic treatment efficacy in vivo published athttps://doi.org/10.1364/BOE.10.000151The file also contains Deep Learning Codes for segmentation of Tumor using U-Net model. Training weights are also uploaded.
DOI: 10.6084/m9.figshare.3408778.v1
title: Data from Differences in the oxidative balance of dispersing and non-dispersing individuals - an experimental approach in a passerine bird

description: Full datasets for females and nestlings used in the publication.<br>
DOI: 10.6084/m9.figshare.3408652
title: Appendix B.xlsx

description: Biodiversity hotspots for magnolia species richness in China
DOI: 10.6084/m9.figshare.3408652.v2
title: Appendix B.xlsx

description: Biodiversity hotspots for magnolia species richness in China
DOI: 10.6084/m9.figshare.3408652.v1
title: New draft item

description: Biodiversity hotspots for magnolia species richness in China
DOI: 10.6084/m9.figshare.3408637
title: Appendix A.xlsx

description: Magnolia species richness in 336 quadrats with the resolution of 100 km
DOI: 10.6084/m9.figshare.3408580
title: E. plorans transcriptome files

description: De novo transcriptome assembly of E. plorans RNA-seq Illumina reads of a 0B and 1B females from the population of Torrox.Assembly was carried out with Trinity (Grabherr et al., 2011).Read preparation prior to assembly and downstream analysis of thede novo transcriptome were performed following the guidelines provided in Haas et al. (2013)For further details, please see Navarro-Domínguez et al. (submitted)<br>
DOI: 10.6084/m9.figshare.3408580.v3
title: E. plorans transcriptome files

description: De novo transcriptome assembly of E. plorans RNA-seq Illumina reads of a 0B and 1B females from the population of Torrox.Assembly was carried out with Trinity (Grabherr et al., 2011).Read preparation prior to assembly and downstream analysis of thede novo transcriptome were performed following the guidelines provided in Haas et al. (2013)For further details, please see Navarro-Domínguez et al. (submitted)<br>
DOI: 10.6084/m9.figshare.3408580.v2
title: eplo_rna_trinity_clean.fasta

description: @font-face { font-family: "Times New Roman"; }@font-face { font-family: "宋体"; }@font-face { font-family: "SimSun"; }@font-face { font-family: "Liberation Serif"; }p.p0 { margin: 0pt; text-align: justify; font-family: "Times New Roman"; }p.p15 { margin-top: 0pt; margin-bottom: 0pt; text-align: left; font-family: "Times New Roman"; }p.p16 { margin-top: 0pt; margin-bottom: 0pt; padding: 0pt 0pt 1pt; text-align: center; font-family: "Times New Roman"; }div.Section0 { page: Section0; }De novo transcriptome assembly of E. plorans RNA-seq Illumina reads of a 0B and 1B females from the population of Torrox.<br>Assembly was carried out with Trinity (Grabherr et al., 2011).<br>Read preparation prior to assembly and downstream analysis of thede novo transcriptome were performed following the guidelines provided in <br>Haas et al. (2013)<br>For further details, please see Navarro-Domínguez et al. (submitted)<br>
DOI: 10.6084/m9.figshare.3408475
title: Table 1. ANOVA results (Response to PLoS ONE comment)

description: Table 1. ANOVA results (see Table 4 in article for mean values), comparing the F-stat and p-value when the Block * Treatment error term was used (general randomized block design) vs. the F-stat and p-value when the total error term was used (as used in original article for results in Table 4), evaluating fatty acid content of adult cabbage white butterflies.
DOI: 10.6084/m9.figshare.3408475.v1
title: Table 1. ANOVA results (Response to PLoS ONE comment)

description: Table 1. ANOVA results (see Table 4 in article for mean values), comparing the F-stat and p-value when the Block * Treatment error term was used (general randomized block design) vs. the F-stat and p-value when the total error term was used (as used in original article for results in Table 4), evaluating fatty acid content of adult cabbage white butterflies.
DOI: 10.6084/m9.figshare.3408394
title: Brillouin zone boundary acoustic phonon modes of methylammonium lead iodide Perovskite (MAPI)

description: These animations show the Brillouin zone boundary acoustic phonon modes of methylammonium lead iodide perovskite (MAPI). The underlying phonon eigenmode calculations use the PBE GGA functional to relax the structure and calculate the forces.<br>In these animations, the iodine and lead atoms are coloured purple and green, respectively. The methylammonium cation (CH3NH3) is drawn with carbon as red, nitrogen as blue and hydrogen as white.<br>The material is in the pseudo-cubic structure, which we take to be representative of the room-temperature structure.<br>The pseudo-cubic unit cell is expanded into a 4x4x4 supercell, and the zone boundary (pi/a) modes shown, with neighbouring unit cells being out of phase in their motion. The motion is made by modulating the atomic positions with the phonon eigenvectors according to a sinusoidal function to produce harmonic motion.<br>The size of the displacements were arbitrarily set to make the atomic motion clear, and are not representative of the actual amplitude.<br>For calculation details, see: http://dx.doi.org/10.1103/PhysRevB.92.144308.<br>This work was developed for the following paper, where zone-boundary phonon modes were studied experimentally:http://dx.doi.org/10.1021/acsenergylett.6b00381<br><br>The supercell animations were generated by the ascii-phonons package in conjunction with the Blender ray-tracing software, using phonon eigenvectors from Phonopy.<br>See here for the underlying Phonopy data files containing the dynamic matrix:https://github.com/WMD-group/Phonons/tree/master/2015_MAPbI3
DOI: 10.6084/m9.figshare.3408331
title: Weather matters: begging calls are temperature- and size-dependent signals of offspring state

description: Bird sound files
DOI: 10.6084/m9.figshare.3408331.v1
title: Weather matters: begging calls are temperature- and size-dependent signals of offspring state

description: Bird sound files
DOI: 10.6084/m9.figshare.3408301
title: Occupational exposure limit for silver nanoparticles: considerations on the derivation of a general health-based value

description: With the increased production and widespread commercial use of silver nanoparticles (AgNPs), human and environmental exposures to silver nanoparticles are inevitably increasing. In particular, persons manufacturing and handling silver nanoparticles and silver nanoparticle containing products are at risk of exposure, potentially resulting in health hazards. While silver dusts, consisting of micro-sized particles and soluble compounds have established occupational exposure limits (OELs), silver nanoparticles exhibit different physicochemical properties from bulk materials. Therefore, we assessed silver nanoparticle exposure and related health hazards in order to determine whether an additional OEL may be needed. Dosimetric evaluations in our study identified the liver as the most sensitive target organ following inhalation exposure, and as such serves as the critical target organ for setting an occupational exposure standard for airborne silver nanoparticles. This study proposes an OEL of 0.19 μg/m<sup>3</sup> for silver nanoparticles derived from benchmark concentrations (BMCs) from subchronic rat inhalation toxicity assessments and the human equivalent concentration (HEC) with kinetic considerations and additional uncertainty factors. It is anticipated that this level will protect workers from potential health hazards, including lung, liver, and skin damage.
DOI: 10.6084/m9.figshare.3408301.v1
title: Occupational exposure limit for silver nanoparticles: considerations on the derivation of a general health-based value

description: With the increased production and widespread commercial use of silver nanoparticles (AgNPs), human and environmental exposures to silver nanoparticles are inevitably increasing. In particular, persons manufacturing and handling silver nanoparticles and silver nanoparticle containing products are at risk of exposure, potentially resulting in health hazards. While silver dusts, consisting of micro-sized particles and soluble compounds have established occupational exposure limits (OELs), silver nanoparticles exhibit different physicochemical properties from bulk materials. Therefore, we assessed silver nanoparticle exposure and related health hazards in order to determine whether an additional OEL may be needed. Dosimetric evaluations in our study identified the liver as the most sensitive target organ following inhalation exposure, and as such serves as the critical target organ for setting an occupational exposure standard for airborne silver nanoparticles. This study proposes an OEL of 0.19 μg/m<sup>3</sup> for silver nanoparticles derived from benchmark concentrations (BMCs) from subchronic rat inhalation toxicity assessments and the human equivalent concentration (HEC) with kinetic considerations and additional uncertainty factors. It is anticipated that this level will protect workers from potential health hazards, including lung, liver, and skin damage.
DOI: 10.6084/m9.figshare.3408289
title: Intracellular trafficking pathways in silver nanoparticle uptake and toxicity in <i>Caenorhabditis elegans</i>

description: We used the nematode <i>Caenorhabditis elegans</i> to study the roles of endocytosis and lysosomal function in uptake and subsequent toxicity of silver nanoparticles (AgNP) <i>in vivo</i>. To focus on AgNP uptake and effects rather than silver ion (AgNO<sub>3</sub>) effects, we used a minimally dissolvable AgNP, citrate-coated AgNPs (CIT-AgNPs). We found that the clathrin-mediated endocytosis inhibitor chlorpromazine reduced the toxicity of CIT-AgNPs but not AgNO<sub>3</sub>. We also tested the sensitivity of three endocytosis-deficient mutants (<i>rme-1, rme-6</i> and <i>rme-8</i>) and two lysosomal function deficient mutants (<i>cup-5</i> and <i>glo-1</i>) as compared to wild-type (N2 strain). One of the endocytosis-deficient mutants (<i>rme-6</i>) took up less silver and was resistant to the acute toxicity of CIT-AgNPs compared to N2s. None of those mutants showed altered sensitivity to AgNO<sub>3</sub>. Lysosome and lysosome-related organelle mutants were more sensitive to the growth-inhibiting effects of both CIT-AgNPs and AgNO<sub>3</sub>. Our study provides mechanistic evidence suggesting that early endosome formation is necessary for AgNP-induced toxicity <i>in vivo</i>, as <i>rme-6</i> mutants were less sensitive to the toxic effects of AgNPs than <i>C. elegans</i> with mutations involved in later steps in the endocytic process.
DOI: 10.6084/m9.figshare.3408289.v1
title: Intracellular trafficking pathways in silver nanoparticle uptake and toxicity in <i>Caenorhabditis elegans</i>

description: We used the nematode <i>Caenorhabditis elegans</i> to study the roles of endocytosis and lysosomal function in uptake and subsequent toxicity of silver nanoparticles (AgNP) <i>in vivo</i>. To focus on AgNP uptake and effects rather than silver ion (AgNO<sub>3</sub>) effects, we used a minimally dissolvable AgNP, citrate-coated AgNPs (CIT-AgNPs). We found that the clathrin-mediated endocytosis inhibitor chlorpromazine reduced the toxicity of CIT-AgNPs but not AgNO<sub>3</sub>. We also tested the sensitivity of three endocytosis-deficient mutants (<i>rme-1, rme-6</i> and <i>rme-8</i>) and two lysosomal function deficient mutants (<i>cup-5</i> and <i>glo-1</i>) as compared to wild-type (N2 strain). One of the endocytosis-deficient mutants (<i>rme-6</i>) took up less silver and was resistant to the acute toxicity of CIT-AgNPs compared to N2s. None of those mutants showed altered sensitivity to AgNO<sub>3</sub>. Lysosome and lysosome-related organelle mutants were more sensitive to the growth-inhibiting effects of both CIT-AgNPs and AgNO<sub>3</sub>. Our study provides mechanistic evidence suggesting that early endosome formation is necessary for AgNP-induced toxicity <i>in vivo</i>, as <i>rme-6</i> mutants were less sensitive to the toxic effects of AgNPs than <i>C. elegans</i> with mutations involved in later steps in the endocytic process.
DOI: 10.6084/m9.figshare.3408253
title: The Green District Heating System

description: How is it possible to meet the government's 2035-goals whilst continuously supplying district heating in Denmark at low costs and at a high security of supply? <br>This semester project analyses the possibilities of replacing the in-renewable heat production from the coal-fired CHP production unit FV07 at Fynsværket, with large industrial heat pumps. <br>When using heat pumps as the only supply unit, regulatory energy is required to maintain the security of supply. This project analyses the possibilities of using a heat storage facility to supply the district heating in times where the electricity price is _ high. To analyse the scenario, a MATLAB model is set up, minimising the hourly production costs and determining the minimum heat pump capacity and storage capacity needed to meet the demand in Fjernvarme Fyn's supply area. <br>Legislative and financial aspects of shutting down CHP plants and integrating heat pumps are considered. As the district heating production becomes reliant on the electricity production, the overall consumer costs in a heat pump based network will fluctuate with respect to the Nordpool spot price. This could set the foundation for making the district heating sector hourly charged, allocating the demand and lowering the price. Furthermore, the model concludes that the overall costs in the heat pump scenario becomes significantly lower than in the current network, as the fuel costs, including the CO2-quotas, are eliminated.
DOI: 10.6084/m9.figshare.3408247
title: Transcript and genome assemblies of Atlantic cod

description: Described here: https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-016-3448-xNEWB454: An assembly based on 454 sequencing reads and sequenced BAC-ends. Assembled with Newbler 3.0. CA454ILM: An assembly based on Illumina and 454 sequencing reads. Assembled with Celera Assembler. CA454PB: An assembly based on Illumina, 454 and PacBio sequencing reads. Assembled with Celera Assembler. ALPILM: An assembly based on Illumina reads. Assembled with ALLPATHS-LG. gadMor2: An assembly reconciliation of NEWB454, ALPILM, CA454PB, CA454ILM put into linkage groups. trinity_cod_rna: A Trinity assembly of Illumina RNA reads from 10.1016/j.redox.2015.06.003. newbler_cod_rna: A Newbler assembly of 454 and Sanger reads from 10.1038/nature10342 and Sanger reads from 10.1186/1471-2164-13-443. isoseq_cod_rna: A IsoSeq clustering of PacBio RNA reads.te_comprehensive_cod_replib: The repeat library used for annotation TEs.repeatmodeler_cod_replib: The repeat library used for annotation. gadMor2_predicted_*_filtered: The predicted proteins/transcripts, filtered at less than 0.5 AED.gadMor2_predicted_transcripts_all: All predicted proteins/transcripts.gadMor2_annotation_filtered_only_gene_models: Only the gene models from the annotation, genes with less than 0.5 AED.gadMor2_annotation_filtered: Only genes with less 0.5 AED, plus everything else (exonerate, blast, repeats etc).gadMor2_annotation_complete: Everything MAKER outputs. <br>
DOI: 10.15468/n5grxh
title: Taxonomic revision of the Andean genus Xenophyllum (Compositae, Senecioneae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Calvo, Joel, Moreira-Munoz, Andres (2020): Taxonomic revision of the Andean genus Xenophyllum (Compositae, Senecioneae). PhytoKeys 158: 1-106, DOI: http://dx.doi.org/10.3897/phytokeys.158.50848, URL: http://dx.doi.org/10.3897/phytokeys.158.50848
DOI: 10.6084/m9.figshare.3408247.v1
title: Transcript and genome assemblies of Atlantic cod

description: NEWB454: An assembly based on 454 sequencing reads and sequenced BAC-ends. Assembled with Newbler 3.0. CA454ILM: An assembly based on Illumina and 454 sequencing reads. Assembled with Celera Assembler. CA454PB: An assembly based on Illumina, 454 and PacBio sequencing reads. Assembled with Celera Assembler. ALPILM: An assembly based on Illumina reads. Assembled with ALLPATHS-LG. gadMor2: An assembly reconciliation of NEWB454, ALPILM, CA454PB, CA454ILM put into linkage groups. trinity_cod_rna: A Trinity assembly of Illumina RNA reads from 10.1016/j.redox.2015.06.003. newbler_cod_rna: A Newbler assembly of 454 and Sanger reads from 10.1038/nature10342 and Sanger reads from 10.1186/1471-2164-13-443. isoseq_cod_rna: A IsoSeq clustering of PacBio RNA reads.