cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.17814677
title: Lego Man Neutron Tomography Dataset with Equidistant and Golden Angle Acquistions

description: This is a dataset of a lego man inside a thick-walled Pb container, with a 1mm thick Fe sheet at the bottom as a reference.

The data was acquired at IMAT, ISIS Neutron & Muon Source.

The same sample was acquired twice with two different acquisition protocols:

Once by increasing the angles incrementally and equidistantly, across 360 degrees. Labelled: CMOS_LegoScan_EquiDis_PH60

Once by increasing by an angle determined by the golden ratio. Labelled: CMOS_LegoScan_GR_PH60

All images were acquired with 30s exposure time, pinhole 60mm and 100 micron pixel size.

This dataset features in the youtube video "Cold Snap 📸 Imaging The Universe's Coldest Temperatures" 

Golden Ratio scan 

In the golden ratio scan, the angles were spaced across 180 degrees. Between each scan, the angle was changed by a golden angle of 111.25 degrees (wrapping back to 0 degrees when this increases the angle beyond 180).Sectioning a semicircle into two parts according to the golden ratio (such that the ratio between the largest arc length and the circumference is equal to the ratio between the smallest and largest arc lengths) gives angles of 111.25 degrees and 68.75. In this case the larger angle was used.

Raw Data

The `raw.zip` folder contains the raw data for each of the two scans, along with flat and dark fields acquired after the experiment.

For the Golden Ratio scan, the log file does not contain data for all of the projections, so an angles.csv file has also been provided which lists the angles for each projection in the order of acquisition.

Preprocessed Data

For each scan, the `preprocessed.zip` folder contains data which has been pre-processed in Mantid Imaging, along with the `image.json` file which lists the steps, and a log or angles.csv file which lists the angles of the projections.

Photos

The 'photos.zip' contains some photos of the sample and experimental setup
DOI: 10.5281/zenodo.17814676
title: Lego Man Neutron Tomography Dataset with Equidistant and Golden Angle Acquistions

description: This is a dataset of a lego man inside a thick-walled Pb container, with a 1mm thick Fe sheet at the bottom as a reference.

The data was acquired at IMAT, ISIS Neutron & Muon Source.

The same sample was acquired twice with two different acquisition protocols:

Once by increasing the angles incrementally and equidistantly, across 360 degrees. Labelled: CMOS_LegoScan_EquiDis_PH60

Once by increasing by an angle determined by the golden ratio. Labelled: CMOS_LegoScan_GR_PH60

All images were acquired with 30s exposure time, pinhole 60mm and 100 micron pixel size.

This dataset features in the youtube video "Cold Snap 📸 Imaging The Universe's Coldest Temperatures" 

Golden Ratio scan 

In the golden ratio scan, the angles were spaced across 180 degrees. Between each scan, the angle was changed by a golden angle of 111.25 degrees (wrapping back to 0 degrees when this increases the angle beyond 180).Sectioning a semicircle into two parts according to the golden ratio (such that the ratio between the largest arc length and the circumference is equal to the ratio between the smallest and largest arc lengths) gives angles of 111.25 degrees and 68.75. In this case the larger angle was used.

Raw Data

The `raw.zip` folder contains the raw data for each of the two scans, along with flat and dark fields acquired after the experiment.

For the Golden Ratio scan, the log file does not contain data for all of the projections, so an angles.csv file has also been provided which lists the angles for each projection in the order of acquisition.

Preprocessed Data

For each scan, the `preprocessed.zip` folder contains data which has been pre-processed in Mantid Imaging, along with the `image.json` file which lists the steps, and a log or angles.csv file which lists the angles of the projections.

Photos

The 'photos.zip' contains some photos of the sample and experimental setup
DOI: 10.25824/redu/dkzkt4
title: Dados DFT sobre ativação de O2 para formar ROS na superfície Ag3PO4(110) com a adsorção de clusters Agx

description: This research builds a DFT/VASP workflow to study how metallic Ag clusters (Ag₁–Ag₅) form and stabilize on Ag₃PO₄ surfaces and how they affect O₂ adsorption, linking surface thermodynamics to catalytic/photocatalytic reactivity. It benchmarks bulk reference energies, compares multiple surface terminations (ST1–ST6) via surface energies to select the most stable slab, then evaluates cluster stability and O₂ adsorption geometries/energies, supported by Python automation for slab/supercell preparation and post-processing of key descriptors such as work function and Ag d-band center
DOI: 10.15468/dl.auxjve
title: Occurrence Download

description: A dataset containing 143 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tinca tinca",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1925",
 "Year is less than or equal to 1929"
 ]
}

 The dataset includes 143 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014804-260108223611665/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.axqcxq
title: Occurrence Download

description: A dataset containing 615 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sesbania virgata",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 615 records from 103 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014806-260108223611665/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.28778282
title: Datasets and Figures for Adjektiva Superlatif pada Bahasa Jawa Banyumasan

description: This is the data repository for an undergraduate thesis and a paper entitled <b>Adjektiva Superlatif pada Bahasa Jawa Banyumasan</b>. If you use the data and figures in this repository for your research, please cite this work as follows:Darmawan, Muhamad Rizki; Widhyasmaramurti (2025). Datasets and Figures for Adjektiva Superlatif pada Bahasa Jawa Banyumasan. figshare. Dataset. https://doi.org/10.6084/m9.figshare.28778282.v5
DOI: 10.6084/m9.figshare.28778282.v5
title: Datasets and Figures for Adjektiva Superlatif pada Bahasa Jawa Banyumasan

description: This is the data repository for an undergraduate thesis and a paper entitled <b>Adjektiva Superlatif pada Bahasa Jawa Banyumasan</b>. If you use the data and figures in this repository for your research, please cite this work as follows:Darmawan, Muhamad Rizki; Widhyasmaramurti (2025). Datasets and Figures for Adjektiva Superlatif pada Bahasa Jawa Banyumasan. figshare. Dataset. https://doi.org/10.6084/m9.figshare.28778282.v5
DOI: 10.15468/dl.5e5bwb
title: Occurrence Download

description: A dataset containing 514852 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Hymenoptera"
 ]
}

 The dataset includes 514852 records from 248 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011270-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc110826616
title: Persepolis Fortification Elamite Tablet 2293.105, Fort 2293.105

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] Fort 2293.105 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Alphabetic Cuneiform ❧ [Physical Object Description:] Clay tablet with cuneiform text. Seal impression on upper edge? ❧ [Physical Object Note:] Upper section of tablet is broken off. Cracks on obverse, reverse.
DOI: 10.25549/inscriptifact-ouc110826614
title: Persepolis Fortification Elamite Tablet 2293.105, Fort 2293.105

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] Fort 2293.105 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Alphabetic Cuneiform ❧ [Physical Object Description:] Clay tablet with cuneiform text. Seal impression on upper edge? ❧ [Physical Object Note:] Upper section of tablet is broken off. Cracks on obverse, reverse.
DOI: 10.25549/inscriptifact-ouc110826612
title: Persepolis Fortification Elamite Tablet 2293.105, Fort 2293.105

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] Fort 2293.105 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Alphabetic Cuneiform ❧ [Physical Object Description:] Clay tablet with cuneiform text. Seal impression on upper edge? ❧ [Physical Object Note:] Upper section of tablet is broken off. Cracks on obverse, reverse.
DOI: 10.25549/inscriptifact-ouc110826508
title: Persepolis Fortification Elamite Tablet 2293.105, Fort 2293.105

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] Fort 2293.105 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Alphabetic Cuneiform ❧ [Physical Object Description:] Clay tablet with cuneiform text. Seal impression on upper edge? ❧ [Physical Object Note:] Upper section of tablet is broken off. Cracks on obverse, reverse.
DOI: 10.34740/kaggle/dsv/13708854
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.25549/inscriptifact-ouc110826497
title: Persepolis Fortification Elamite Tablet 2293.105, Fort 2293.105

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] Fort 2293.105 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Alphabetic Cuneiform ❧ [Physical Object Description:] Clay tablet with cuneiform text. Seal impression on upper edge? ❧ [Physical Object Note:] Upper section of tablet is broken off. Cracks on obverse, reverse.
DOI: 10.25549/inscriptifact-ouc110826485
title: Persepolis Fortification Elamite Tablet 2293.105, Fort 2293.105

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] Fort 2293.105 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Alphabetic Cuneiform ❧ [Physical Object Description:] Clay tablet with cuneiform text. Seal impression on upper edge? ❧ [Physical Object Note:] Upper section of tablet is broken off. Cracks on obverse, reverse.
DOI: 10.15468/dl.ysyp6x
title: Occurrence Download

description: A dataset containing 77074 records in GBIF matching the query:
 SELECT
 GBIF_EEARGCode(10000, decimalLatitude, decimalLongitude, 0) AS cellcode,
 COUNT(*)
 FROM occurrence
 WHERE occurrenceStatus = 'PRESENT'
 AND countryCode = 'AT' OR countryCode = 'BE' OR countryCode = 'BG' OR countryCode = 'HR' OR countryCode = 'CY' OR countryCode = 'CZ' OR countryCode = 'DK' OR countryCode = 'EE' OR countryCode = 'FI' OR countryCode = 'FR' OR countryCode = 'DE' OR countryCode = 'GR' OR countryCode = 'HU' OR countryCode = 'IE' OR countryCode = 'IT' OR countryCode = 'LV' OR countryCode = 'LT' OR countryCode = 'LU' OR countryCode = 'MT' OR countryCode = 'NL' OR countryCode = 'PL' OR countryCode = 'PT' OR countryCode = 'RO' OR countryCode = 'SK' OR countryCode = 'SI' OR countryCode = 'ES' OR countryCode = 'SE' OR countryCode = 'UK'
 AND taxonKey = 731
 AND hasCoordinate = TRUE
 AND (coordinateUncertaintyInMeters &lt;= 10000 OR coordinateUncertaintyInMeters IS NULL)
 AND speciesKey IS NOT NULL
 AND "year" &gt;= 2007
 AND "year" &lt;= 2018
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND basisofrecord IN ('HUMAN_OBSERVATION','MACHINE_OBSERVATION','OBSERVATION')
 GROUP BY cellcode

 The dataset's 77074 records were derived from 35174 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029186-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yffmmm
title: Occurrence Download

description: A dataset containing 368 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Anoplophora glabripennis (Motschulsky, 1854)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 368 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008625-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zzrymx
title: Occurrence Download

description: A dataset containing 65 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is BRA.14.12_2",
 "TaxonKey is Aves"
 ]
}

 The dataset includes 65 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008628-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/22673
title: Chandra X-ray Observatory ObsId 22673

description: Crust cooling of accretion-heated neutron stars
DOI: 10.25574/24054
title: Chandra X-ray Observatory ObsId 24054

description: Flows of hot Baryons in the Milky Way center: How are fountains & chimneys linked to the Galactic-scale outflow?
DOI: 10.15468/dl.v3uvuk
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Microdesmus africanus)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043325-250811113504898/datasets/export for details.
DOI: 10.15468/dl.jqznrp
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Dasycrotapha plateni",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043327-250811113504898/datasets/export for details.
DOI: 10.15468/dl.jp3phe
title: Occurrence Download

description: A dataset containing 6280 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Geranium molle",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 6280 records from 109 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043324-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vxmk9u
title: Occurrence Download

description: A dataset containing 9283207 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is NMNH Extant Specimen Records (USNM, US)"
 ]
}

 The dataset includes 9283207 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043306-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vyw2bs
title: Occurrence Download

description: A dataset containing 2732 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Araucaria angustifolia)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 2732 records from 127 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043326-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16936777
title: Click-code-seq reveals strand biases of DNA oxidation and depurination in human genome

description: This resource contains data associated with the research paper titled "Click-code-seq reveals strand biases of DNA oxidation and depurination in human genome", in particular:



Source Data for Figures and Extended Data Figures,

Supplementary Data, i.e., Source Data for Supplementary Figures,

Raw mass spectrometry data (for Fig. 1d),

Code used for all analyses and generation of all Figures, Extended Data Figures and Supplementary Figures.


Abstract:

DNA modifications drive aging, neurodegeneration, carcinogenesis, and chemotherapy drug action. Accurate mapping of diverse DNA modifications with single-nucleotide precision in complex genomes remains challenging. We upgraded click-code-seq, a click-chemistry-aided DNA-modification mapping strategy, to enable its first application for sequencing oxidation and depurination in the human genome. We developed a companion fluorescence assay, click-fluoro-quant, to rapidly quantify common DNA modifications, and novel adapters to minimize false positives and assess modification frequency. We uncovered that endogenous DNA oxidation in a human cell line mirrors cancer mutational signatures linked to oxidative stress. The chemotherapy drug irofulven preferentially induces depurination in ApA dimers and promoters. Notably, oxidized guanines and apurinic sites, both irofulven-induced and endogenous, are depleted in gene transcribed strands, with the strand bias increasing with gene expression. This work substantially advances click-code-seq for deciphering the impacts of key modifications in human DNA on cellular physiology and toxicological responses.
DOI: 10.5281/zenodo.16936776
title: Click-code-seq reveals strand biases of DNA oxidation and depurination in human genome

description: This resource contains data associated with the research paper titled "Click-code-seq reveals strand biases of DNA oxidation and depurination in human genome", in particular:



Source Data for Figures and Extended Data Figures,

Supplementary Data, i.e., Source Data for Supplementary Figures,

Raw mass spectrometry data (for Fig. 1d),

Code used for all analyses and generation of all Figures, Extended Data Figures and Supplementary Figures.


Abstract:

DNA modifications drive aging, neurodegeneration, carcinogenesis, and chemotherapy drug action. Accurate mapping of diverse DNA modifications with single-nucleotide precision in complex genomes remains challenging. We upgraded click-code-seq, a click-chemistry-aided DNA-modification mapping strategy, to enable its first application for sequencing oxidation and depurination in the human genome. We developed a companion fluorescence assay, click-fluoro-quant, to rapidly quantify common DNA modifications, and novel adapters to minimize false positives and assess modification frequency. We uncovered that endogenous DNA oxidation in a human cell line mirrors cancer mutational signatures linked to oxidative stress. The chemotherapy drug irofulven preferentially induces depurination in ApA dimers and promoters. Notably, oxidized guanines and apurinic sites, both irofulven-induced and endogenous, are depleted in gene transcribed strands, with the strand bias increasing with gene expression. This work substantially advances click-code-seq for deciphering the impacts of key modifications in human DNA on cellular physiology and toxicological responses.
DOI: 10.5281/zenodo.16944267
title: Deep-Learning vs Physics-Based Docking Tools for Future Coronavirus Pandemics

description: DataProcessing.zip: scripts and intermediate files for data preprocessing, abstract SMILES and protein coordinate from pdb file.




docking-gnina.zip: Docking results from GNINA.




docking-vina.zip: Docking results from AutoDock Vina.




a3m_file.zip: multiple sequence alignment files used for Boltz2.




Boltz2_input.zip: input files/parameter settings for Boltz-2 docking simulations.




Boltz2-dock-aligned.zip: aligned docking poses from Boltz2.
DOI: 10.15468/dl.ss5ndf
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-38.92787 -3.7042,-38.83508 -3.70527,-38.75542 -3.66275,-38.80651 -3.53907,-38.89948 -3.5305,-38.99603 -3.55784,-38.9911 -3.62784,-38.92787 -3.7042))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Squamata"
 ]
}

 The dataset includes 10 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043328-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16740541
title: Comprehensive Enumeration and Fate Classification of All 512 3 × 3 Initial States in Conway's Game of Life

description: This record contains the data and materials accompanying the manuscript:“Comprehensive Enumeration and Fate Classification of All 512 3×3 Initial States in Conway’s Game of Life” (v1.0.4).

Contents- article_v1.0.4.tex — LaTeX manuscript (version v1.0.4; DOI 10.5281/zenodo.16944178 embedded).- results_512_fixed_boundary_with_period.csv — per-seed outcomes with columns:  seed_index, binary_pattern (row-major), class {vanishing|stable|oscillator},  period (0 for vanishing/stable; 2 for oscillators), time_to_convergence (generations).- results_512_seeds.csv — mapping between the 3×3 bit pattern and seed_index (row-major; top-left bit is MSB).- fig_class_counts.png, fig_tconv_hist.png — summary plots; figure1.png — example fates.- README.md, CITATION.cff, checksums.sha256.

Methods (summary)We simulate Conway’s Game of Life (B3/S23) on a 9×9 grid with fixed-zero boundaries, up to 128 generations. Each 3×3 seed is centered; outcomes are labelled as vanishing, stable (period 1), or oscillator (least period p≥2). Across all 512 seeds: vanishing = 283 (55.3%), stable = 184 (35.9%), oscillators p=2 = 45 (8.8%); mean time_to_convergence = 6.43, max = 62.

How to citeAsgari, S. A. (2025). Comprehensive Enumeration and Fate Classification of All 512 3×3 Initial States in Conway’s Game of Life (v1.0.4) [Dataset]. Zenodo. https://doi.org/10.5281/zenodo.16944178