cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25378/janelia.19196585.v1
title: Isotropic 3D electron microscopy data of isolated murine pancreatic islets treated with low glucose (jrc_mus-pancreas-3)

description: <b>This acquisition is part of the CellMap 2024 Segmentation Challenge</b><b>Challenge DOI:</b> https://doi.org/10.25378/janelia.c.7456966<b>Challenge Website:</b> https://cellmapchallenge.janelia.org/<b>Sample</b>: Wild-type mouse pancreatic islets treated with low glucose.<b>Sample description:</b> Pancreatic islets (or Islets of Langerhans) are micro-organs consisting mainly of beta, alpha, delta, polypeptide cells and endothelial cells. Beta cells are the majority of the islet cells. They secrete insulin, which is stored in secretory granules (SGs), in order to maintain blood glucose homeostasis. Beta cells within the islet are heterogeneous in their response to glucose. Furthermore, not all insulin SGs within beta cells have the same likelihood of being released. Large-scale high-resolution FIB-SEM enables biologists to investigate the ultrastructural differences between beta cells within an islet as well as features that require higher resolution such as ribosomes and the cytoskeleton.<b>Protocol</b>: High-pressure freezing and freeze-substitution with 1% OsO₄ and 0.1% UA in acetone additionally containing 1% H2O for membrane contrast. Samples were immersed in the cocktail for 5 hours at −90 °C followed by raising the temperature to 0 °C over a time course of 18 hours. Then, samples were washed twice in 100% dry acetone for 1 hour and the temperature was raised to room temperature followed by embedding in Durcupan.<b>Contributions</b>: Sample provided by Andreas Mueller and Michele Solimena (Paul Langerhans Institute, Dresden), prepared for imaging by Song Pang (HHMI/Janelia), with imaging and post-processing by C. Shan Xu (HHMI/Janelia).<b>Acquisition ID</b>: jrc_mus-pancreas-3<b>Final voxel size (nm)</b>: 4.00 x 4.00 x 4.00 (X, Y, Z)<b>Dimensions (µm)</b>: 20 x 20 x 8 (X, Y, Z)<b>Imaging start date:</b> 2018-07-07<b>Imaging duration (days)</b>: 4<b>Landing energy (eV)</b>: 1200<b>Imaging current (nA)</b>: 1<b>Scanning speed (MHz)</b>: .2<b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_mus-pancreas-3/jrc_mus-pancreas-3.zarr/recon-1/em/<b>Visualization Website:</b> https://openorganelle.janelia.org/datasets/jrc_mus-pancreas-3<b>Publication</b>: Mueller et al., 2020; Xu et al., 2021
DOI: 10.60698/61539ab8-1db9-44f5-b863-3d8cf60702d0
title: MSFD (1º cycle assessment) - Descriptor 1: Marine biodiversity

description: Under the Marine Directive 2008/56/EC OF THE EUROPEAN PARLIAMENT AND OF THE COUNCIL of 17 June 2008, article 8 - assessment.

D1 : Biological diversity is maintained. The quality and occurrence of habitats and the distribution and abundance of species are in line with prevailing physiographic, geographic and climatic conditions.

Marine biodiversity covers all marine species of birds, mammals, reptiles, fish, and cephalopods found in EU waters. To be in good environmental status, the species’ long-term viability should be ensured. This means looking at the species’ mortality rates and abundance, as well as their distribution and several other demographic criteria, such as body size and age.

This dataset is part of the High Value/HVD Datasets identified in accordance with implementing Regulation No. 2023/138 of Directive (EU) 2019/1024 on open data and the reuse of public sector information.
DOI: 10.17632/rnmz2kgt3j.1
title: Olink proteomics analysis of scalp seborrheic dermatitis reveals partial pathophysiological similarity with psoriasis

description: The raw data supporting the results of this article.
DOI: 10.5281/zenodo.15461180
title: Data to active site access channels CpfC
DOI: 10.5281/zenodo.15461181
title: Data to active site access channels CpfC
DOI: 10.15468/dl.hhbx68
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Herwigia kreffti (Nielsen & Larsen, 1970)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((40.2542 -7.2836,40.3029 -7.1504,35.9648 -7.1504,35.9648 -16.1504,40.6365 -16.1504,41.3042 -15.0287,41.3321 -14.414,41.0824 -13.7539,41.0579 -13.1811,41.2109 -10.9003,40.7985 -9.9904,40.2764 -9.7003,39.994 -8.7002,40.4062 -7.7189,40.2542 -7.2836))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009721-250525065834625/datasets/export for details.
DOI: 10.15468/dl.dpqpb7
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Germany",
 "GadmGid is DEU.3_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Cladonia ciliata Stirt."
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012935-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fqwczs
title: Occurrence Download

description: A dataset containing 28489 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Larosterna inca (R.Lesson & Garnot, 1827)"
 ]
}

 The dataset includes 28489 records from 81 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012934-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v8k4ud
title: Occurrence Download

description: A dataset containing 200 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Bats of Kim Hy Natural Reserve, Vietnam",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 200 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012939-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jvhmtj
title: Occurrence Download

description: A dataset containing 236 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Luxembourg",
 "Geometry POLYGON((5.96022 49.50793,5.95996 49.5075,5.96028 49.50704,5.96227 49.50588,5.9646 49.50531,5.96518 49.50488,5.96768 49.50498,5.96809 49.5054,5.96758 49.50592,5.96745 49.50658,5.96548 49.50705,5.96483 49.50812,5.96281 49.50766,5.9622 49.50831,5.96022 49.50793))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 236 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012936-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mzss7a
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is MEX.16_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Ipomoea arborescens (Humb. & Bonpl. ex Willd.) G.Don"
 ]
}

 The dataset includes 14 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007056-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15061749
title: The Cosmic Evolution of CIV Absorbers at 1.4 < z < 4.5 : Insights from 100,000 Systems in DESI Quasars

description: This Zenodo link provides the data used to reproduce the plots in the results section of the paper titled The Cosmic Evolution of CIV absorbers at 1.4 < z < 4.5 : Insights from 100,000 Systems in DESI Quasars . The DESI DR2 raw data used to generate this dataset will be released publicly in the future. However, the DR1 CIV catalog will be publicly available at: https://github.com/abhi0395/desi-dr1-civ after the paper is accepted.
DOI: 10.5281/zenodo.15299932
title: Supplementary Materials for "Long-term serial passaging of SARS-CoV-2 reveals signatures of convergent evolution" (Journal of Virology)

description: This Zenodo record contains all supplementary files for the research article "Long-term serial passaging of SARS-CoV-2 reveals signatures of convergent evolution" (Foster et al. 2025, Journal of Virology). The following files are within the zipped directory:



Supplementary_Captions.pdf: captions for all supplementary figures and tables.

Supplementary_File_S1.pdf: all references corresponding to in-text citations in Table 4 of the main text.

Supplementary_Figures.pdf: all supplementary figures from the manuscript combined into a single PDF.

Table_S1.csv: Supplementary Table S1.

Table_S2.csv: Supplementary Table S2.
DOI: 10.5281/zenodo.15299933
title: Supplementary Materials for "Long-term serial passaging of SARS-CoV-2 reveals signatures of convergent evolution" (Journal of Virology)

description: This Zenodo record contains all supplementary files for the research article "Long-term serial passaging of SARS-CoV-2 reveals signatures of convergent evolution" (Foster et al. 2025, Journal of Virology). The following files are within the zipped directory:



Supplementary_Captions.pdf: captions for all supplementary figures and tables.

Supplementary_File_S1.pdf: all references corresponding to in-text citations in Table 4 of the main text.

Supplementary_Figures.pdf: all supplementary figures from the manuscript combined into a single PDF.

Table_S1.csv: Supplementary Table S1.

Table_S2.csv: Supplementary Table S2.
DOI: 10.15468/dl.qpqshf
title: Occurrence Download

description: A dataset containing 651 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Gentiana straminea Maxim."
 ]
}

 The dataset includes 651 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006592-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xpnedv
title: Occurrence Download

description: A dataset containing 255 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Fagus lucida Rehder & E.H.Wilson"
 ]
}

 The dataset includes 255 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006593-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g8bytj
title: Occurrence Download

description: A dataset containing 793 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is NOAA National Coral Reef Monitoring Program Coral Demographic Data",
 "Geometry POLYGON((-95.81534 20.19458,-82.64638 20.19458,-82.64638 29.00496,-95.81534 29.00496,-95.81534 20.19458))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Year is 2022"
 ]
}

 The dataset includes 793 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024511-250811113504898/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.29945420
title: Data for Figure 1 in Structural analysis of the states within the bump regions in $^{10}_\Lambda$Be spectrum via Control Neural Network.

description: Data for Figure 1 in Structural analysis of the states within the bump regions in $^{10}_\Lambda$Be spectrum via Control Neural Network.This file contains only the theoretical spectrum of $^{10}_\Lambda$Be calculated in this work.Data from other studies shown for comparison in Figure 1 can be found in their respective publications.
DOI: 10.6084/m9.figshare.29945420.v1
title: Data for Figure 1 in Structural analysis of the states within the bump regions in $^{10}_\Lambda$Be spectrum via Control Neural Network.

description: Data for Figure 1 in Structural analysis of the states within the bump regions in $^{10}_\Lambda$Be spectrum via Control Neural Network.This file contains only the theoretical spectrum of $^{10}_\Lambda$Be calculated in this work.Data from other studies shown for comparison in Figure 1 can be found in their respective publications.
DOI: 10.15468/dl.8my83x
title: Occurrence Download

description: A dataset containing 338 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Andrena suavis Timberlake, 1938"
 ]
}

 The dataset includes 338 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011865-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/5cvj25cdxz.1
title: The Impact of Service Quality on E-banking Customer Satisfaction: The Mediating Effect of Perceived Value

description: Service quality and perceived value has significant consequences on the growth of electronic banking (E-banking). Previous studies highlight that E-banking adoption influences customer satisfaction with service quality, considering behavioral factors. This study looks at how perceived value functions as a mediator in the link between customer happiness and service quality in Bangladesh's e-banking industry.
DOI: 10.15468/dl.8nfwpe
title: Occurrence Download

description: A dataset listing the 41398 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((28.91694 -2.27986,35.8292 -2.27986,35.8292 5.1307,28.91694 5.1307,28.91694 -2.27986))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset's 41398 records were derived from 757 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009420-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/hx4m73v2sf.2
title: LegitPhish Dataset

description: The dataset contains 101,219 URLs and 18 features (including the label). Here's a description of each attribute: Phishing (0): 63,678 URLs

Legitimate (1): 37,540 URLs





These URLs have been sourced from the URLHaus database, scraped from many sites and other well-known repositories malicious websites actively used in phishing attacks. Each entry in this subset has been manually verified and is labeled as a phishing URL, making this dataset highly reliable for identifying harmful web content.

The legitimate URLs have been collected from reputable sources such as Wikipedia and Stack Overflow. These websites are known for hosting user-generated content and community discussions, ensuring that the URLs represent safe, legitimate web addresses. The URLs were randomly scraped to ensure diversity in the types of legitimate sites included.
Dataset Features:

URL: The full web address of each entry, providing the primary feature for analysis.
Label: A binary label indicating whether the URL is legitimate (1) or phishing (0).
Applications:

This dataset is suitable for training and evaluating machine learning models aimed at distinguishing between phishing and legitimate websites. It can be used in a variety of cybersecurity research projects, including URL-based phishing detection, web content analysis, and the development of real-time protection systems.

Usage:

Researchers can leverage this balanced dataset to develop and test algorithms for identifying phishing websites with high accuracy, using features such as URL structure, and class label attributes. The inclusion of both phishing and legitimate URLs provides a comprehensive basis for creating robust models capable of detecting phishing attempts in diverse online environments.

Feature Name Description
URL The full URL string.
url_length - Total number of characters in the URL.
has_ip_address - Binary flag (1/0): whether the URL contains an IP address.
dot_count - Number of . characters in the URL.
https_flag - Binary flag (1/0): whether the URL uses HTTPS.
url_entropy - Shannon entropy of the URL string – higher values indicate more randomness.
token_count - Number of tokens/words in the URL.
subdomain_count - Number of subdomains in the URL.
query_param_count - Number of query parameters (after ?).
tld_length - Length of the Top-Level Domain (e.g., "com" = 3).
path_length - Length of the path part after the domain.
has_hyphen_in_domain Binary flag (1/0): whether the domain contains a hyphen (-).
number_of_digits - Total number of numeric characters in the URL.
tld_popularity Binary flag (1/0): whether the TLD is popular.
suspicious_file_extension Binary flag (1/0): indicates if the URL ends with suspicious extensions (e.g., .exe, .zip).
domain_name_length - Length of the domain name.
percentage_numeric_chars - Percentage of numeric characters in the URL.
ClassLabel Target label: 1 = Legitimate, 0 = Phishing.
DOI: 10.5281/zenodo.15487081
title: Raw test datasets for SiLM

description: The codes for running the dataset can be found in "https://github.com/KanchanawongLab/SiLM/tree/main/SiLM%20analysis%20Pipeline"

Manuel for running the code can be found in the same folder.
DOI: 10.5281/zenodo.15487082
title: Raw test datasets for SiLM

description: The codes for running the dataset can be found in "https://github.com/KanchanawongLab/SiLM/tree/main/SiLM%20analysis%20Pipeline"

Manuel for running the code can be found in the same folder.
DOI: 10.15468/dl.vsjs4k
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Azerbaijan",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Asparagus Tourn. ex L."
 ]
}

 The dataset includes 44 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013602-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25378/janelia.13114352.v1
title: Isotropic 3D electron microscopy reference data of wild-type, immortalized breast cancer cell, SUM159 (jrc_sum159-1)

description: Understanding cellular architecture is essential for understanding biology. Electron microscopy (EM) uniquely visualizes cellular structure with nanometer resolution. However, traditional methods, such as thin-section EM or EM tomography, have limitations inasmuch as they only visualize a single slice or a relatively small volume of the cell, respectively. Here, we overcome these limitations by long-term imaging whole cells and tissues via the enhanced Focus Ion Beam Scanning Electron Microscopy (FIB-SEM) platform in high resolution mode with month-long acquisition duration. We use this approach to generate reference 3D image data sets at 4-nm isotropic voxels. Together with subsequent segmentation, we hope to create a reference library to explore comprehensive quantification of whole cells and all their constituents, thus addressing questions related to cell identities, cell morphologies, cell-cell interactions, as well as intracellular organelle organization and structure.<br>Sample: Wild-type SUM-159 cellProtocol: High pressure freezing, freeze-substitution resin embedding with 2% OsO4 0.1% UA 3% H2O in Acetone, resin embedding in Eponate 12.Contributions: Sample provided by Jeeyun Chung, Tobias Walther and Bob Farese (Harvard U.), prepared for imaging by Gleb Shtengel (HHMI/Janelia), with imaging and post-processing by C. Shan Xu (HHMI/Janelia).Dataset ID: jrc_sum159-1Final voxel size (nm): 4.00 x 4.00 x 4.56 (X, Y, Z)Dimensions (µm): 64 x 11 x 35 (X, Y, Z)Acquisition date: 2017-11-21Dataset URL: https://data.janelia.org/8eTqVVisualization Website: https://openorganelle.janelia.org/datasets/jrc_sum159-1<br>Publication: “Isotropic 3D electron microscopy reference library of whole cells and tissues” by C. Shan Xu, et al. (in preparation)<br>
DOI: 10.25378/janelia.13114352
title: Isotropic 3D electron microscopy reference data of wild-type, immortalized breast cancer cell, SUM159 (jrc_sum159-1)

description: <b>This acquisition is part of the CellMap 2024 Segmentation Challenge</b><b>Challenge DOI:</b> https://doi.org/10.25378/janelia.c.7456966<b>Challenge Website:</b> https://cellmapchallenge.janelia.org/<b>Sample</b>: Wild-type SUM-159 cell<b>Sample description</b>: Understanding cellular architecture is essential for understanding biology. Electron microscopy (EM) uniquely visualizes cellular structure with nanometer resolution. However, traditional methods, such as thin-section EM or EM tomography, have limitations inasmuch as they only visualize a single slice or a relatively small volume of the cell, respectively. Here, we overcome these limitations by long-term imaging whole cells and tissues via the enhanced Focus Ion Beam Scanning Electron Microscopy (FIB-SEM) platform in high resolution mode with month-long acquisition duration. We use this approach to generate reference 3D image data sets at 4-nm isotropic voxels. Together with subsequent segmentation, we hope to create a reference library to explore comprehensive quantification of whole cells and all their constituents, thus addressing questions related to cell identities, cell morphologies, cell-cell interactions, as well as intracellular organelle organization and structure.<b>Protocol</b>: High pressure freezing, freeze-substitution resin embedding with 2% OsO4 0.1% UA 3% H2O in Acetone, resin embedding in Eponate 12.<b>Contributions</b>: Sample provided by Jeeyun Chung, Tobias Walther and Bob Farese (Harvard U.), prepared for imaging by Gleb Shtengel (HHMI/Janelia), with imaging and post-processing by C. Shan Xu (HHMI/Janelia).<b>Acquisition ID</b>: jrc_sum159-1<b>Final voxel size (nm)</b>: 4.00 x 4.00 x 4.56 (X, Y, Z)<b>Dimensions (µm)</b>: 64 x 11 x 35 (X, Y, Z)<b>Imaging start date:</b> 2017-11-21<b>Imaging duration (days)</b>: 17<b>Primary energy (eV)</b>: 1200<b>Imaging current (nA)</b>: .25<b>Scanning speed (MHz)</b>: .2<b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_sum159-1/jrc_sum159-1.zarr/recon-1/em/<b>Visualization Website</b>: https://openorganelle.janelia.org/datasets/jrc_sum159-1<br><b>Publication:</b> Xu et al., 2021