cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.17905368
title: Data Bundle for: Angular Resolution Enhancement of Electron Backscatter Diffraction Patterns

description: This package contains electron backscatter diffraction patterns which supports the paper: "Angular Resolution Enhancement of Electron Backscatter Diffraction Patterns"by Ben Britton* and Tianbi Zhang Department of Materials Engineering, University of British Columbia, Vancouver, British Columbia, Canada Email address: ben.britton@ubc.ca--Data was collected on an Thermo Fisher APREO ChemiSEM, with the TruePix Direct Electron Detector.

As per the methods section of the paper: 

"EBSD was performed in a Thermo Fisher Scientific Apreo 2 ChemiSEM with a TruePix EBSD detector at 20 keV landing energy. The TruePix detector is based on the Timepix chip with a Si sensor, which  has 256x256 pixels with a pixel pitch of 55 µm. The detector operated in electron counting mode  with an energy threshold of 19.4 keV (97% of the primary electron beam energy). EBSD patterns were  captured from a single crystal of semiconductor grade silicon mounted on an Al-stub, with the [001]  direction out of plane and two corresponding {110} fracture surfaces aligned close to the vertical  and horizontal beam scanning directions. The sample was mounted on the 45° pre-tilt holder of the  multi purpose holder, and the stage was tilted a further 25° to tilt the sample at 70° in total. "  The data can be analysed in xTalView, or via AstroEBSD: https://github.com/ExpMicroMech/AstroEBSD/blob/main/decks/SinglePatchEBSP_Plus_SNR.m  The folder contains the following experiments:  Increasing exposure time: \TFS_SuperRes\ExpTime  The map used to create the super resolution patterns: \TFS_SuperRes\Res_Map\2025-08-14T11_28_18  Data collected at a high spatial magnification: \TFS_SuperRes\Res_Map\2025-08-14T13_02_16  Data collected with the detector retracted: \TFS_SuperRes\Res_Map\2025-08-14T11_46_24 We acknowledge the following funding support: Natural Sciences and Engineering Research Council of Canada (NSERC) [Discovery grant: RGPIN-2022-04762, ‘Advances in Data Driven Quantitative Materials Characterization’], Canada Foundation for Innovation and British Columbia Knowledge Fund (BCKDF) via the John R. Evans Leaders Fund (CFI-JELF) [#43737, 3D-MARVIN].
DOI: 10.5281/zenodo.17905367
title: Data Bundle for: Angular Resolution Enhancement of Electron Backscatter Diffraction Patterns

description: This package contains electron backscatter diffraction patterns which supports the paper: "Angular Resolution Enhancement of Electron Backscatter Diffraction Patterns"by Ben Britton* and Tianbi Zhang Department of Materials Engineering, University of British Columbia, Vancouver, British Columbia, Canada Email address: ben.britton@ubc.ca--Data was collected on an Thermo Fisher APREO ChemiSEM, with the TruePix Direct Electron Detector.

As per the methods section of the paper: 

"EBSD was performed in a Thermo Fisher Scientific Apreo 2 ChemiSEM with a TruePix EBSD detector at 20 keV landing energy. The TruePix detector is based on the Timepix chip with a Si sensor, which  has 256x256 pixels with a pixel pitch of 55 µm. The detector operated in electron counting mode  with an energy threshold of 19.4 keV (97% of the primary electron beam energy). EBSD patterns were  captured from a single crystal of semiconductor grade silicon mounted on an Al-stub, with the [001]  direction out of plane and two corresponding {110} fracture surfaces aligned close to the vertical  and horizontal beam scanning directions. The sample was mounted on the 45° pre-tilt holder of the  multi purpose holder, and the stage was tilted a further 25° to tilt the sample at 70° in total. "  The data can be analysed in xTalView, or via AstroEBSD: https://github.com/ExpMicroMech/AstroEBSD/blob/main/decks/SinglePatchEBSP_Plus_SNR.m  The folder contains the following experiments:  Increasing exposure time: \TFS_SuperRes\ExpTime  The map used to create the super resolution patterns: \TFS_SuperRes\Res_Map\2025-08-14T11_28_18  Data collected at a high spatial magnification: \TFS_SuperRes\Res_Map\2025-08-14T13_02_16  Data collected with the detector retracted: \TFS_SuperRes\Res_Map\2025-08-14T11_46_24 We acknowledge the following funding support: Natural Sciences and Engineering Research Council of Canada (NSERC) [Discovery grant: RGPIN-2022-04762, ‘Advances in Data Driven Quantitative Materials Characterization’], Canada Foundation for Innovation and British Columbia Knowledge Fund (BCKDF) via the John R. Evans Leaders Fund (CFI-JELF) [#43737, 3D-MARVIN].
DOI: 10.26021/canterburynz.30854846
title: Post-Event GM Estimation Using GNNs - Data

description: Relevant data for the journal paper "Post-Event Ground Motion Estimation Using Graph Neural Networks"<b>Paper Abstract</b>Accurate ground motion estimates are essential for forensic analysis of structural damage following major earthquakes when direct recordings at the location(s) of interest are unavailable. Contemporary post-event ground motion estimation methods often leverage nearby observations to constrain estimates of intensity measures (IMs); however, existing approaches rely on empirical ground-motion models with well-known limitations in capturing spatial dependencies. This study introduces a graph neural network (GNN) approach for estimating ground-motion IMs, leveraging a graph-based representation to naturally encode spatial dependencies and allow for different observation types. Applied to a New Zealand case study, the GNN achieves performance comparable to the established multivariate normal conditional IM method, while learning spatial correlations directly from the data. Athough the proof-of-concept illustration does not yet surpass existing methods, the results demonstrate the viability of GNNs for post-event GM estimation. Continued improvements in model architecture and increased data availability are expected to further enhance performance and applicability.
DOI: 10.26021/canterburynz.30854846.v1
title: Post-Event GM Estimation Using GNNs - Data

description: Relevant data for the journal paper "Post-Event Ground Motion Estimation Using Graph Neural Networks"<b>Paper Abstract</b>Accurate ground motion estimates are essential for forensic analysis of structural damage following major earthquakes when direct recordings at the location(s) of interest are unavailable. Contemporary post-event ground motion estimation methods often leverage nearby observations to constrain estimates of intensity measures (IMs); however, existing approaches rely on empirical ground-motion models with well-known limitations in capturing spatial dependencies. This study introduces a graph neural network (GNN) approach for estimating ground-motion IMs, leveraging a graph-based representation to naturally encode spatial dependencies and allow for different observation types. Applied to a New Zealand case study, the GNN achieves performance comparable to the established multivariate normal conditional IM method, while learning spatial correlations directly from the data. Athough the proof-of-concept illustration does not yet surpass existing methods, the results demonstrate the viability of GNNs for post-event GM estimation. Continued improvements in model architecture and increased data availability are expected to further enhance performance and applicability.
DOI: 10.15468/dl.k9nbnx
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Lycium yunnanense"
 ]
}

 The dataset includes 22 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048318-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/96zonv
title: PAN-00176807 - smelt waste or lump of copper-alloy

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00176807&lt;/p&gt;
description: Modified: 2025-07-24T15:50:19+02:00
DOI: 10.5281/zenodo.17666722
title: Global crop suitability datasets for 17 crops under present (2024) and future climate scenarios (2041-2100)

description: A transferable novel framework is proposed that integrates crop samples from remote sensing data and high resolution predictors to model the global suitability of 17 major crops using random forest under present (2024) and future climate scenarios with a 1 km × 1 km resolution.

Future projections cover three time periods: 2041-2060, 2061-2080, and 2081-2100, under four Shared Socioeconomic Pathways (SSPs): SSP1-2.6, SSP2-4.5, SSP3-7.0, and SSP5-8.5.
DOI: 10.5281/zenodo.17666721
title: Global crop suitability datasets for 17 crops under present (2024) and future climate scenarios (2041-2100)

description: A transferable novel framework is proposed that integrates crop samples from remote sensing data and high resolution predictors to model the global suitability of 17 major crops using random forest under present (2024) and future climate scenarios with a 1 km × 1 km resolution.

Future projections cover three time periods: 2041-2060, 2061-2080, and 2081-2100, under four Shared Socioeconomic Pathways (SSPs): SSP1-2.6, SSP2-4.5, SSP3-7.0, and SSP5-8.5.
DOI: 10.15468/dl.tjub2j
title: Occurrence Download

description: A dataset containing 6028 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-74.75793 3.35568,-72.46706 3.35568,-72.46706 5.20933,-74.75793 5.20933,-74.75793 3.35568))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tremarctos"
 ]
}

 The dataset includes 6028 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048319-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.268baq
title: Occurrence Download

description: A dataset containing 459 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Lycium barbarum"
 ]
}

 The dataset includes 459 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048320-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/4xpc8i
title: PAN-00180314 - button with solid convex head and flat base, loop-shaped shank, decorated

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00180314&lt;/p&gt;
description: Modified: 2025-10-01T16:19:33+02:00
DOI: 10.15468/dl.knryar
title: Occurrence Download

description: A dataset listing the 317708 species recorded in GBIF matching the query:
{
 "DatasetKey" : [
 "is Royal Botanic Gardens, Kew - Herbarium Specimens"
 ]
}

 The dataset's 317708 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048315-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15224240
title: A Mycelium Dataset with Edge-Precise Annotation for Semantic Segmentation

description: This dataset not only offers precise edge segmentation annotations but also establishes a foundational resource for models aimed at enhancing the accuracy of segmentation capabilities related to mycelium edge morphology, thereby serving as a valuable asset in the realms of computer vision and mycology.MyceliumSeg is the first publicly available mycelium segmentation dataset with precise edge annotations, filling a critical gap in this research area.
DOI: 10.5281/zenodo.15224239
title: A Mycelium Dataset with Edge-Precise Annotation for Semantic Segmentation

description: This dataset not only offers precise edge segmentation annotations but also establishes a foundational resource for models aimed at enhancing the accuracy of segmentation capabilities related to mycelium edge morphology, thereby serving as a valuable asset in the realms of computer vision and mycology.MyceliumSeg is the first publicly available mycelium segmentation dataset with precise edge annotations, filling a critical gap in this research area.
DOI: 10.6084/m9.figshare.27978477
title: A fast <i>in situ</i> hybridization chain reaction method in <i>Drosophila</i> embryos and ovaries

description: The <i>in situ</i> hybridization chain reaction (isHCR) is a powerful method for visualizing mRNA in many species. We present a rapid isHCR method for <i>Drosophila</i> embryos and ovaries. Ethylene carbonate was added to the hybridization buffer to facilitate the hybridization reaction, and a modified short hairpin DNA was used in the amplification reaction; these modifications decreased the RNA staining time from 3 days to 1 day. This method is compatible with immunohistochemistry and can detect multiple mRNAs. The proposed method could significantly reduce staining time for <i>Drosophila</i> researchers using isHCR.
DOI: 10.6084/m9.figshare.27978477.v1
title: A fast <i>in situ</i> hybridization chain reaction method in <i>Drosophila</i> embryos and ovaries

description: The <i>in situ</i> hybridization chain reaction (isHCR) is a powerful method for visualizing mRNA in many species. We present a rapid isHCR method for <i>Drosophila</i> embryos and ovaries. Ethylene carbonate was added to the hybridization buffer to facilitate the hybridization reaction, and a modified short hairpin DNA was used in the amplification reaction; these modifications decreased the RNA staining time from 3 days to 1 day. This method is compatible with immunohistochemistry and can detect multiple mRNAs. The proposed method could significantly reduce staining time for <i>Drosophila</i> researchers using isHCR.
DOI: 10.6084/m9.figshare.28112906
title: Sleep timing in flies from “adolescence” to adulthood

description: The aim of the present study was to assess sleep timing in <i>Drosophila melanogaster</i> at different ages, within the setting of an enforced schedule of varying light-dark stimuli, simulating light exposure variations between four typical office <i>working days</i> and one <i>free day</i> spent outside by a human, for a total of 30 days. Locomotor activity recording started when male flies were 3 days old. Flies exhibited a bimodal activity pattern, with a morning and an evening peak, and clear anticipation of the <i>lights on</i> and <i>lights off</i> transitions. From experimental day 10 (i.e. 12-day-old flies) onwards, a decrease in activity counts/increase in sleep amount were observed. On <i>free days</i>, a rise in activity counts and a reduction in sleep amount during the <i>lights on</i> interval was observed and was also present, albeit less obvious, on the subsequent <i>working day</i> during the <i>lights off</i> interval. A progressive delay in sleep onset was observed in the first days of the experiment, peaking on day 4 (i.e. 6-day-old flies), after which sleep onset timing gradually advanced. A delay in sleep offset was also observed for the first 13 days of the experiment, after which sleep offset stabilized. In conclusion, ‘adolescent’ flies exhibited changes in sleep timing that were reminiscent of those of human adolescents.
DOI: 10.6084/m9.figshare.28112906.v1
title: Sleep timing in flies from “adolescence” to adulthood

description: The aim of the present study was to assess sleep timing in <i>Drosophila melanogaster</i> at different ages, within the setting of an enforced schedule of varying light-dark stimuli, simulating light exposure variations between four typical office <i>working days</i> and one <i>free day</i> spent outside by a human, for a total of 30 days. Locomotor activity recording started when male flies were 3 days old. Flies exhibited a bimodal activity pattern, with a morning and an evening peak, and clear anticipation of the <i>lights on</i> and <i>lights off</i> transitions. From experimental day 10 (i.e. 12-day-old flies) onwards, a decrease in activity counts/increase in sleep amount were observed. On <i>free days</i>, a rise in activity counts and a reduction in sleep amount during the <i>lights on</i> interval was observed and was also present, albeit less obvious, on the subsequent <i>working day</i> during the <i>lights off</i> interval. A progressive delay in sleep onset was observed in the first days of the experiment, peaking on day 4 (i.e. 6-day-old flies), after which sleep onset timing gradually advanced. A delay in sleep offset was also observed for the first 13 days of the experiment, after which sleep offset stabilized. In conclusion, ‘adolescent’ flies exhibited changes in sleep timing that were reminiscent of those of human adolescents.
DOI: 10.6084/m9.figshare.29041118
title: An updated proteomic analysis of <i>Drosophila</i> haemolymph after bacterial infection

description: Using an in-depth Mass Spectrometry-based proteomics approach, we provide a comprehensive characterization of the hemolymphatic proteome of adult flies upon bacterial infection. We detected and quantified changes in abundance of several known immune regulators and effectors, including multiple antimicrobial peptides, peptidoglycan-binding proteins and serine proteases. Comparison to previously published transcriptomic analyses reveals a partial overlap with our dataset, indicating that many proteins released into the haemolymph upon infection may not be regulated at the transcript level. Among them, we identify a set of muscle-derived proteins released into the haemolymph upon infection. Finally, our analysis reveals that infection induces major changes in the abundance of proteins associated with mitochondrial respiration. This study uncovers a large number of previously undescribed proteins potentially involved in the immune response.
DOI: 10.6084/m9.figshare.29041118.v1
title: An updated proteomic analysis of <i>Drosophila</i> haemolymph after bacterial infection

description: Using an in-depth Mass Spectrometry-based proteomics approach, we provide a comprehensive characterization of the hemolymphatic proteome of adult flies upon bacterial infection. We detected and quantified changes in abundance of several known immune regulators and effectors, including multiple antimicrobial peptides, peptidoglycan-binding proteins and serine proteases. Comparison to previously published transcriptomic analyses reveals a partial overlap with our dataset, indicating that many proteins released into the haemolymph upon infection may not be regulated at the transcript level. Among them, we identify a set of muscle-derived proteins released into the haemolymph upon infection. Finally, our analysis reveals that infection induces major changes in the abundance of proteins associated with mitochondrial respiration. This study uncovers a large number of previously undescribed proteins potentially involved in the immune response.
DOI: 10.6084/m9.figshare.29327375
title: Electrical silencing of dendritic arborization neurons rescues toxic polyglutamine-induced locomotion defect

description: This study investigates the effects of polyglutamine (polyQ) expansions on the locomotion of <i>Drosophila</i> larvae, focusing on the role of class IV dendritic arborization (da) neurons. PolyQ expansions are associated with neurodegenerative diseases like Huntington’s disease, and <i>Drosophila</i> is a valuable model organism for studying these diseases due to its genetic tractability and short generation time. We found that expressing a polyQ protein in class IV da neurons caused significant locomotion deficits. Specifically, larvae with polyQ expression exhibited slower crawling speed and increased turn frequency, indicating impaired movement. The most intriguing finding of our study was that electrically silencing class IV da neurons completely rescued the locomotion deficits caused by polyQ expression. By expressing a potassium channel that makes the neurons less active, we effectively reversed the locomotion defects. This suggests that modulating the activity of these neurons could be a promising therapeutic approach for treating polyQ diseases. Our findings have significant implications for understanding polyQ diseases and developing new therapeutic approaches. By electrically silencing these neurons, we may be preventing the harmful effects of polyQ-induced cation channels, which are thought to disrupt cellular function. This opens up exciting possibilities for exploring electrical silencing as a potential treatment for polyQ diseases, offering hope for future therapies that target the underlying mechanisms of these devastating conditions.
DOI: 10.6084/m9.figshare.29327375.v1
title: Electrical silencing of dendritic arborization neurons rescues toxic polyglutamine-induced locomotion defect

description: This study investigates the effects of polyglutamine (polyQ) expansions on the locomotion of <i>Drosophila</i> larvae, focusing on the role of class IV dendritic arborization (da) neurons. PolyQ expansions are associated with neurodegenerative diseases like Huntington’s disease, and <i>Drosophila</i> is a valuable model organism for studying these diseases due to its genetic tractability and short generation time. We found that expressing a polyQ protein in class IV da neurons caused significant locomotion deficits. Specifically, larvae with polyQ expression exhibited slower crawling speed and increased turn frequency, indicating impaired movement. The most intriguing finding of our study was that electrically silencing class IV da neurons completely rescued the locomotion deficits caused by polyQ expression. By expressing a potassium channel that makes the neurons less active, we effectively reversed the locomotion defects. This suggests that modulating the activity of these neurons could be a promising therapeutic approach for treating polyQ diseases. Our findings have significant implications for understanding polyQ diseases and developing new therapeutic approaches. By electrically silencing these neurons, we may be preventing the harmful effects of polyQ-induced cation channels, which are thought to disrupt cellular function. This opens up exciting possibilities for exploring electrical silencing as a potential treatment for polyQ diseases, offering hope for future therapies that target the underlying mechanisms of these devastating conditions.
DOI: 10.6084/m9.figshare.29083122
title: Experimental assessment of 3D-printed traps and chemical attractants for the collection of wild <i>Drosophila melanogaster</i>

description: <i>Drosophila melanogaster</i>, the common fruit fly, has been instrumental to our understanding of evolution, genetics and disease. There are benefits to studying these flies in the wild, including assessment of their naturally occurring microbiota. To facilitate efforts to catch wild <i>D. melanogaster</i>, we designed two fly traps and evaluated several candidate attractants. The first trap utilized a stable food substrate that can be used to catch live flies to establish new lab colonies. The second trap was designed to be reusable and easy to ship to enable the collection of flies over time from diverse locations. We evaluated several chemical attractants derived from banana and from marula fruit, which is the proposed ancestral food host of <i>D. melanogaster</i>. We found that wild flies were preferentially attracted to banana-based odorants over marula-derived ones. Overall, these traps and attractants represent an inexpensive and simple option for the collection of wild <i>D. melanogaster</i> and related species for sampling or colony establishment.