cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27618465.v1
title: Quantifying second messenger information transmission in bacteria.

description: Jin_SourceData_Fig1.xlsx provides raw data for the dose-response curve of the cAMP sensor and the temporal changes in fluorescence intensity under light and dark conditions.
Jin_SourceData_Fig2.xlsx contains the raw data of two key parameters (k and γ) extracted from individual bacterial cells across all experiments, along with the original measurements of cAMP signal intensity and signal-to-noise ratio as a function of reduced frequency. These experimental measurements serve as the foundation for the theoretical analysis and computational modeling presented in Figure 3.
Jin_SourceData_Fig4.xlsx contains raw data of intracellular cAMP dynamics in single bacterial cells under random light stimulation with various code durations, and the relationship between decoding accuracy and frequency presented in the main text.
DOI: 10.5281/zenodo.15099702
title: Agroforestry adaptation by farm households in northwestern Vietnam: who needs what and implications for practice and policy

description: Data and codes used for archetypal analysis employed in manuscript "Agroforestry adaptation by farm households in northwestern Vietnam: who needs what and implications for practice and policy"
DOI: 10.5281/zenodo.15099703
title: Agroforestry adaptation by farm households in northwestern Vietnam: who needs what and implications for practice and policy

description: Data and codes used for archetypal analysis employed in manuscript "Agroforestry adaptation by farm households in northwestern Vietnam: who needs what and implications for practice and policy"
DOI: 10.15468/dl.c6h2z3
title: Occurrence Download

description: A dataset containing 10071 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Italy",
 "OccurrenceStatus is Present",
 "TaxonKey is Mammalia",
 "Year 2024-2024"
 ]
}

 The dataset includes 10071 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004973-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28675301
title: Computational code

description: Computational code used in this study
DOI: 10.6084/m9.figshare.28468526.v1
title: 2D and 3D Scans of Granular Rock Material Heaps and Calibration Models

description: The descriptor includes photographs of 86 heaps of rock materials dolomite, quartz sand, marble, and gravel. In addition, photographs of 1 ideal cone and 4 CAD drawing models are provided. These images are processed using specialized software to create detailed 2D and 3D models of the heaps. The generated STL and point-cloud models are used to calculate the angle of repose.
DOI: 10.6084/m9.figshare.28413968.v1
title: Operando X-ray absorption spectroscopic investigation of electrocatalysts state in anion exchange membrane fuel cells

description: Rotating disk electrode (RDE) and AEMFC tests of Mn3O4/C (green) and Co1.5Mn1.5O4/C (red) catalysts.
In-situ and operando Mn K-edge X-ray absorption near edge structure (XANES) spectra of catalysts.
Determination of Mn oxidation state and coordination environment.
DOI: 10.6084/m9.figshare.28413968
title: Operando X-ray absorption spectroscopic investigation of electrocatalysts state in anion exchange membrane fuel cells

description: Rotating disk electrode (RDE) and AEMFC tests of Mn3O4/C (green) and Co1.5Mn1.5O4/C (red) catalysts.
In-situ and operando Mn K-edge X-ray absorption near edge structure (XANES) spectra of catalysts.
Determination of Mn oxidation state and coordination environment.
DOI: 10.6084/m9.figshare.28468526
title: 2D and 3D Scans of Granular Rock Material Heaps and Calibration Models

description: The descriptor includes photographs of 86 heaps of rock materials dolomite, quartz sand, marble, and gravel. In addition, photographs of 1 ideal cone and 4 CAD drawing models are provided. These images are processed using specialized software to create detailed 2D and 3D models of the heaps. The generated STL and point-cloud models are used to calculate the angle of repose.
DOI: 10.25442/hku.28553270
title: Supporting data of "REDUCTIVE DESYMMETRIZATION OF MALONIC ESTERS TOWARDS α-TERTIARY AMINES, TERTIARY ALCOHOLS, AND 4,4’-BIS(OXAZOLINE) LIGAND SCAFFOLDS"

description: The two dataset files contain the data for my PhD thesis entitled "Reductive desymmetrization of malonic esters towards α-tertiary amines, tertiary alcohols, and 4,4’-bis(oxazoline) ligand scaffolds”. In this research, various α-tertiary amines, α-tertiary alcohols and important organic compounds derived from α-tertiary amines and α-tertiary alcohols have been synthesised in the first chapter of the study. On the other hand, several 4,4’-bis(oxazoline) ligands have been derived from the bis(β-hydroxyesters) obtained from double desymmetrization of bis(malonic esters).The 1st file contains the experimental procedures, recorded data from <sup>1</sup>H NMR, <sup>13</sup>C NMR, Infrared, ESI-MS spectra in Chapter 3 - <b>Synthesis of</b><b>-Amino- and</b><b> </b><b>-Oxy</b><b>-Hydroxyesters from Malonic </b><b>Esters via Dinuclear Zinc-catalysed Desymmetric Reduction </b>and Chapter 4 - <b>Synthesis and Applications of 4,4’-Bis(oxazoline) (4,4’-BOX) Ligand </b><b>via Dinuclear Zinc-catalysed Double Desymmetric Reduction of Bis(malonic esters)</b>.The 2nd file contains the spectral data of chiral HPLC spectra in Chapter 3 - <b>Synthesis of</b><b>-Amino- and</b><b> </b><b>-Oxy-</b><b>-Hydroxyesters from Malonic </b><b>Esters via Dinuclear Zinc-catalysed Desymmetric Reduction </b>and Chapter 4 - <b>Synthesis and Applications of 4,4’-Bis(oxazoline) (4,4’-BOX) Ligand </b><b>via Dinuclear Zinc-catalysed Double Desymmetric Reduction of Bis(malonic esters)</b>.
DOI: 10.25442/hku.28553270.v1
title: Supporting data of "REDUCTIVE DESYMMETRIZATION OF MALONIC ESTERS TOWARDS α-TERTIARY AMINES, TERTIARY ALCOHOLS, AND 4,4’-BIS(OXAZOLINE) LIGAND SCAFFOLDS"

description: The two dataset files contain the data for my PhD thesis entitled "Reductive desymmetrization of malonic esters towards α-tertiary amines, tertiary alcohols, and 4,4’-bis(oxazoline) ligand scaffolds”. In this research, various α-tertiary amines, α-tertiary alcohols and important organic compounds derived from α-tertiary amines and α-tertiary alcohols have been synthesised in the first chapter of the study. On the other hand, several 4,4’-bis(oxazoline) ligands have been derived from the bis(β-hydroxyesters) obtained from double desymmetrization of bis(malonic esters).The 1st file contains the experimental procedures, recorded data from <sup>1</sup>H NMR, <sup>13</sup>C NMR, Infrared, ESI-MS spectra in Chapter 3 - <b>Synthesis of</b><b>-Amino- and</b><b> </b><b>-Oxy</b><b>-Hydroxyesters from Malonic </b><b>Esters via Dinuclear Zinc-catalysed Desymmetric Reduction </b>and Chapter 4 - <b>Synthesis and Applications of 4,4’-Bis(oxazoline) (4,4’-BOX) Ligand </b><b>via Dinuclear Zinc-catalysed Double Desymmetric Reduction of Bis(malonic esters)</b>.The 2nd file contains the spectral data of chiral HPLC spectra in Chapter 3 - <b>Synthesis of</b><b>-Amino- and</b><b> </b><b>-Oxy-</b><b>-Hydroxyesters from Malonic </b><b>Esters via Dinuclear Zinc-catalysed Desymmetric Reduction </b>and Chapter 4 - <b>Synthesis and Applications of 4,4’-Bis(oxazoline) (4,4’-BOX) Ligand </b><b>via Dinuclear Zinc-catalysed Double Desymmetric Reduction of Bis(malonic esters)</b>.
DOI: 10.34740/kaggle/dsv/11193326
title: ⏳ endoflife.date database (duckdb)
DOI: 10.6084/m9.figshare.26763199.v1
title: Molecular basis for the regulation of human phosphorylase kinase by phosphorylation and Ca2+

description: cryo-EM structure of phosphorylase kinase
DOI: 10.6084/m9.figshare.26763199
title: Molecular basis for the regulation of human phosphorylase kinase by phosphorylation and Ca2+

description: cryo-EM structure of phosphorylase kinase
DOI: 10.25442/hku.28598027
title: Supporting data for "Siliceous Spicules in Food and Esophageal Squamous Cell Carcinoma in Northern China"

description: The Taihang Mountain area in northern China is among the regions with the highest incidence of esophageal squamous cell carcinoma (ESCC) worldwide, yet its exact causes remain unclear. Our previous research identified siliceous spicules in human esophageal tissues, resembling those found on wheat husks, leading to the hypothesis that wheat-derived siliceous spicules are linked to the high ESCC risk in northern China. This study further investigates the presence of these spicules in flour from high- and low-risk regions and reveals that they primarily detach from the palea and lemma of wheat husks near the grain. Under water-scarce conditions, unrigorous wheat grain washing practices increase the likelihood of siliceous spicules contamination in flour. Animal studies demonstrated that exposure to siliceous spicules-containing diet promotes tumorigenesis. The novel ESCC-related risk factor identified here, provides insights for the prevention and control of ESCC in localized regions.
DOI: 10.25442/hku.28598027.v1
title: Supporting data for "Siliceous Spicules in Food and Esophageal Squamous Cell Carcinoma in Northern China"

description: The Taihang Mountain area in northern China is among the regions with the highest incidence of esophageal squamous cell carcinoma (ESCC) worldwide, yet its exact causes remain unclear. Our previous research identified siliceous spicules in human esophageal tissues, resembling those found on wheat husks, leading to the hypothesis that wheat-derived siliceous spicules are linked to the high ESCC risk in northern China. This study further investigates the presence of these spicules in flour from high- and low-risk regions and reveals that they primarily detach from the palea and lemma of wheat husks near the grain. Under water-scarce conditions, unrigorous wheat grain washing practices increase the likelihood of siliceous spicules contamination in flour. Animal studies demonstrated that exposure to siliceous spicules-containing diet promotes tumorigenesis. The novel ESCC-related risk factor identified here, provides insights for the prevention and control of ESCC in localized regions.
DOI: 10.15468/dl.bm2kgv
title: Occurrence Download

description: A dataset containing 5304 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Urophorus humeralis (Fabricius, 1798)"
 ]
}

 The dataset includes 5304 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004974-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.497uws
title: Occurrence Download

description: A dataset containing 9531 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is France",
 "OccurrenceStatus is Present",
 "TaxonKey is Mammalia",
 "Year 2024-2024"
 ]
}

 The dataset includes 9531 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004975-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.njauvh
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Oreonectes platycephalus Günther, 1868"
 ]
}

 The dataset includes 8 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004977-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25442/hku.28614656
title: Supporting data for 'Immunomodulation by Systemic Administration of Exosome Derived from Induced Pluripotent Stem Cell Mesenchymal Stem Cells to AlleviateLiver Inflammation and FibrosisinWilson’s disease'

description: Exosomes derived from mesenchymal stem cells (MSCs) are proposed to have anti-inflammatory and immunomodulation effects. We sought to determine the therapeutic effects of human induced pluripotent stem cell (hiPSC)-MSC derived exosomes to alleviate liver inflammation and fibrosis in Wilson’s disease (WD).Our findings demonstrated that hiPSC-MSC-Ex could ameliorate hepatic fibrosis in the WD mouse model via immunomodulation and macrophage polarization. These results support the development of hiPSC-MSC-Ex as a cell-free therapy for WD as well as other chronic liver diseases.
DOI: 10.25442/hku.28614656.v1
title: Supporting data for 'Immunomodulation by Systemic Administration of Exosome Derived from Induced Pluripotent Stem Cell Mesenchymal Stem Cells to AlleviateLiver Inflammation and FibrosisinWilson’s disease'

description: Exosomes derived from mesenchymal stem cells (MSCs) are proposed to have anti-inflammatory and immunomodulation effects. We sought to determine the therapeutic effects of human induced pluripotent stem cell (hiPSC)-MSC derived exosomes to alleviate liver inflammation and fibrosis in Wilson’s disease (WD).Our findings demonstrated that hiPSC-MSC-Ex could ameliorate hepatic fibrosis in the WD mouse model via immunomodulation and macrophage polarization. These results support the development of hiPSC-MSC-Ex as a cell-free therapy for WD as well as other chronic liver diseases.
DOI: 10.15468/dl.kxfv9k
title: Occurrence Download

description: A dataset containing 8122 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "OccurrenceStatus is Present",
 "TaxonKey is Mammalia",
 "Year 2024-2024"
 ]
}

 The dataset includes 8122 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004978-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15099679
title: Are super-predators also super-scary? A systematic review and meta-analysis of animal responses to human interactions

description: Data and code made available for review. Subject to changes for final publication.
DOI: 10.5281/zenodo.15099678
title: Are super-predators also super-scary? A systematic review and meta-analysis of animal responses to human interactions

description: Data and code made available for review. Subject to changes for final publication.
DOI: 10.15468/dl.vh7h8z
title: Occurrence Download

description: A dataset containing 5155 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Antarctica",
 "OccurrenceStatus is Present",
 "TaxonKey is Mammalia",
 "Year 2024-2024"
 ]
}

 The dataset includes 5155 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004979-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.58132/wukodo
title: Towards drug delivery systems triggered by ion-selective interactions

description: Dataset contains fluorescence spectra, fluorescence intensity timetraces and confocal microscopy image sets that are used in the submited manuscript.The manuscript reports on a proposed drug delivery system allowing release of a drug from lipophilic polymer in response to ion-selective interactions with trigger ions present in solution. A fluorescent cationic dye -methylene blue; is used as a model drug, which enables monitoring of drug release. Spontaneous and stoichiometric incorporation of trigger ions driven by preferential binding to uncharged ionophore results in charged drug ions (methylene blue cation) release to preserve electroneutrality. Kinetics of trigger ion incorporation/fluorescent model drug release is monitored for ion-selective membrane prepared in a form of solid film or electrospun fiber mat against primary ion and interferents.
DOI: 10.5281/zenodo.15099249
title: Oarfish Simulated Dataset --- ONT dataset obtained from H9 cell line

description: This repository contains ONT-simulated datasets generated from the H9 cell line using the NanoSim simulator for both 1D cDNA and direct RNA protocols.
DOI: 10.5281/zenodo.15099250
title: Oarfish Simulated Dataset --- ONT dataset obtained from H9 cell line

description: This repository contains ONT-simulated datasets generated from the H9 cell line using the NanoSim simulator for both 1D cDNA and direct RNA protocols.
DOI: 10.15468/dl.rrpdg8
title: Occurrence Download

description: A dataset containing 163753 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Denmark",
 "OccurrenceStatus is Present",
 "CoordinateUncertaintyInMeters is less than 50000",
 "Year is 2010",
 "DecimalLongitude is greater than or equal to 7.38",
 "DecimalLongitude is less than or equal to 9.03",
 "DecimalLatitude is greater than or equal to 55.1",
 "DecimalLatitude is less than or equal to 56.06"
 ]
}

 The dataset includes 163753 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004970-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u7ku3w
title: Occurrence Download

description: A dataset containing 64870 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Erigeron bonariensis L."
 ]
}

 The dataset includes 64870 records from 976 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004976-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27923973.v1
title: SPTT & Trace-SPTT dataset

description: <b>Dataset Overview</b><br>This dataset has been generated using our SPTT and Trace-SPTT techniques. Below are the details for each file included:FilesTo optimize storage, all datasets are compressed into tar.gz format. Please extract the files after downloading.<b>MOB.tar.gz</b><b>Profiled by:</b> SPTT<b>Contents:</b>Digital expression data (in sparse matrix <code>.mtx</code> format)Metadata including:Spatial barcodesSpatial coordinatesSeurat clusters(and cell type annotations)Other essential information<b>MouseBrain.tar.gz</b><b>Profiled by:</b> SPTT<b>Contents:</b>Digital expression data (in sparse matrix <code>.mtx</code> format)Metadata including:Spatial barcodesSpatial coordinatesSeurat clustersDesignations of barcodes as either <i>hippocampus region</i> or <i>cortex region</i> for cell type deconvolution and RNA velocity assays<b>IS_uninjured.tar.gz</b>, <b>IS_3dpi.tar.gz</b>, <b>IS_7dpi.tar.gz</b>, and <b>IS_14dpi.tar.gz</b><b>Profiled by:</b> Trace-SPTT<b>Contents:</b>Digital expression data (in sparse matrix <code>.mtx</code> format)Metadata including:Spatial barcodesSpatial coordinatesUTI profiling numbersSeurat clustersDesignations of barcodes as <i>injury regions</i> (based on unsupervised clustering and spatial coordinates)
DOI: 10.15468/dl.rjj7ef
title: Occurrence Download

description: A dataset containing 133 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Aralia merrillii C.B.Shang, Aegilops triuncialis L., Brassica tournefortii Gouan, Prosopis alba Griseb., Prosopis glandulosa Torr., Prosopis juliflora (Sw.) DC., Sparganium angustifolium Michx.)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Country is one of (Kuwait)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 133 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004980-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27367401
title: Curated cytochrome P450 (CYP) genes in the onion thrips (<i>Thrips tabaci</i> L.)

description: FASTA files (CDSs and proteins) of curated cytochrome P450 (CYP) genes (127 genes) in the onion thrips <i>Thrips tabaci</i> (thelytokous ANO strain) and a GFF format file of predicted gene set (18,966 genes in the ANO strain) including the curated CYP genes.
DOI: 10.4121/aeb7cf17-1b4a-4f09-a2fb-88d7875c672d
title: Data underlying the publication: Thickness and quality controlled fabrication of fluorescence-targeted frozen-hydrated lamellae

description: IntroductionData underlying the publication: Thickness and quality controlled fabrication of fluorescence-targeted frozen-hydrated lamellae.Publication DOI: https://doi.org/10.1016/j.crmeth.2025.101004Authors: D.B. Boltje, R. Skoupy, C. Taisne, W. H. Evers, A.J. Jakobi, J.P. HoogenboomRepository created by Daan Boltje<br>AbstractCryogenic FIB milling is essential for fabricating thin lamella-shaped samples out of frozen-hydrated cells for high-resolution structure determination. Structural information can only be resolved at high resolution if the lamella thickness is between 100 to 200 nm. While the lamella fabrication workflow has improved significantly since its conception, quantitative, live feedback on lamella thickness, quality, and biological target inclusion remains lacking. Using coincident light microscopy integrated into the FIB-SEM, we present three strategies that enable accurate, live control during lamella fabrication. First, we combine 4D-STEM with FM targeting to determine lamella thickness. Second, with RLM, we screen target sites for ice contamination and monitor lamella thickness and protective Pt coating integrity during FIB milling. Third, we exploit thin-film interference for fine-grained feedback on thickness uniformity below 500 nm. Finally, we present a fluorescence-targeted, quality-controlled workflow for frozen-hydrated lamellae, benchmarked with excellent agreement to EFTEM measurements and tomograms from electron cryo-tomography.<br>General descriptionAll data underlying the manuscript figures is stored in this repository. Experiments have been carried out at the Department of Imaging Physics and Kavli Institute of Nanoscience at Delft University of Technology (Delft, NL) in 2023 and 2024.<br>The repository contains images acquired in a transmission electron microscope, scanning electron microscope, focused ion beam, fluorescence microscope and a reflection light microscope.<br>