cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/cds7tvdb85.2
title: Raw data and code for Kamrad et al (2025) "Impact of drugs and environmental contaminants on amine production by gut bacteria"

description: This repository contains raw data, code and analyses outputs. Analyses were performed in python using jupyter notebooks, in particular:
20241104_raw_data_qc_and_hitCalling.ipynb - Initial processing of the LC-MS results of the main screen, including quality control and hit calling.
20241105_intregated_analysis_focused.ipynb - Downstream analysis of the main screen to generate the plots shown in the publication.
20241104_OD_analysis.ipynb - Analysis of the growth data of the main screen.

The other files and folders are inputs and outputs of these jupyter notebooks. The file 
20241117_longData_withOD.csv contains all individual recorded datapoints of the experiment in long format.
The folder dose-response_screen contains all data and notebooks associated with the dose response screen.
DOI: 10.17632/9t6gntyr3v
title: Data on cervical cancer patients who had HPV testing result

description: Data on cervical cancer patients who had HPV testing result
DOI: 10.17632/9t6gntyr3v.1
title: Data on cervical cancer patients who had HPV testing result

description: Data on cervical cancer patients who had HPV testing result
DOI: 10.17632/dwk4hv55xc.2
title: CRISPR/Cas9-generated CD46-knockout spermatogonial stem cells reveal mechanisms of BVDV-induced reproductive dysfunction in male livestock

description: Research Hypothesis
This study tests the hypothesis that BVDV directly impairs male reproductive function by infecting spermatogonial stem cells (SSCs), disrupting proliferation/self-renewal pathways, and inducing novel cell death mechanisms (e.g., ferroptosis). We further hypothesize that CD46 serves as a key receptor facilitating BVDV entry into SSCs.

Data Overview
This dataset comprises experimental results from in vitro BVDV infection of bovine and caprine SSCs, including:
Viral replication kinetics (qPCR, TCID₅₀ assays)
Gene/protein expression (RNA-seq/qRT-PCR data; Western blots for PCNA, CCND1, CDK2, Lin28A, OCT4, SOX2)
Ferroptosis markers (Lipid ROS assays, iron quantification, GPX4 expression)
Cell viability/proliferation (CCK-8)
Significance Statement
This dataset provides the first evidence that BVDV directly targets SSCs, causing ferroptosis and transcriptional dysregulation of fertility genes. CD46 editing data validate a strategy for generating BVDV-resistant livestock. Data reuse can accelerate antiviral therapy development and precision breeding programs.
DOI: 10.34740/kaggle/dsv/14358816
title: BITCOIN Historical Datasets 2018-2025 Binance API
DOI: 10.5281/zenodo.18108730
title: Theoria Omnia: Full Unified Deposit

description: Core data and archives for the PhiLuca and AUM projects.
DOI: 10.5281/zenodo.18108731
title: Theoria Omnia: Full Unified Deposit

description: Core data and archives for the PhiLuca and AUM projects.
DOI: 10.15468/dl.eahaaq
title: Occurrence Download

description: A dataset containing 208 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hyponephele lupinus",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 208 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070132-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5rmucx
title: Occurrence Download

description: A dataset containing 2643 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hyponephele lycaon",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 2643 records from 87 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070133-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18112474
title: SPT_SWSSB_data
DOI: 10.15468/dl.8rnwnc
title: Occurrence Download

description: A dataset containing 8748 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia ligea",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 8748 records from 90 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070135-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18112477
title: Escaping the Involution Trap
DOI: 10.5281/zenodo.18112478
title: Escaping the Involution Trap
DOI: 10.6084/m9.figshare.30978085.v1
title: A Novel Method for Predicting Tunnel Blasting Dust Yield Based on Numerical Inversion and WOA-DELM (Whale Optimization Algorithm-Deep Extreme Learning Machine) Neural Network

description: <b>Supplementary Materials List and Descriptions</b><b>1. Supplementary Figure S1</b><b>Suggested File Name</b>: <code>Supplementary_Figure_S1_Data_fitting_of_blasting_dust.tif</code><b>Description</b>: This figure presents the data fitting results of blasting dust concentration for four test sections (Sections 1-4). The four subplots (a, b, c, d) display the time-series fitting curves of dust concentration under varying conditions of surrounding rock type, temperature, humidity, and water content grade. It visually demonstrates the alignment between field-measured data and the theoretical model, serving as the direct basis for the "Fitting value" data in Table 2 of the manuscript.<b>2. Supplementary Figure S2</b><b>Suggested File Name</b>: <code>Supplementary_Figure_S2_Prediction_of_dust_yield_and_single_factor_variation.tif</code><b>Description</b>: This figure illustrates the single-factor sensitivity analysis of tunnel blasting dust yield based on the WOA-DELM neural network. It clearly shows the sensitivity (change per unit) of the predicted dust yield to variations in six key input parameters: surrounding rock type, temperature, humidity, material moisture content, distance from the monitoring point to the tunnel face, and distance from the ventilation duct outlet to the monitoring point. This is the key visualization supporting the conclusions of the sensitivity analysis presented in Table 6 of the manuscript.<b>3. Supplementary Figure S3</b><b>Suggested File Name</b>: <code>Supplementary_Figure_S3_Performance_Comparison_of_Predictive_Models.tif</code><b>Description</b>: This figure, composed of multiple subplots (a-f), provides a systematic performance comparison of various predictive models (including WOA-DELM, WDO-DELM, GWO-DELM, PSO-DELM, ABC-DELM, MVO-DELM, ASO-DELM, DELM, BP, and KELM) across multiple evaluation metrics (RMSE, MAPE, MAE, R², IA, PRIA). It serves as the core comparative evidence validating the superiority of the WOA-DELM neural network model, which achieved the highest evaluation function value of 0.939.<b>4. Supplementary Table S1</b><b>Suggested File Name</b>: <code>Supplementary_Table_S1_Inversion_value_of_tunnel_blasting_dust_yield.xlsx</code><b>Description</b>: This table provides detailed data on the inversion values of tunnel blasting dust yield for the four test sections. It includes parameters for each section: surrounding rock type, excavation volume, tunnel water content grade, temperature, relative humidity, fitted blasting dust output, inverted blasting dust yield, and the inverted yield per unit volume. This dataset forms the foundational data connecting field measurements and numerical inversion to the final corrected formula (Equation 29) and supports the analysis and discussion in Table 7 of the manuscript.
DOI: 10.6084/m9.figshare.30978085
title: A Novel Method for Predicting Tunnel Blasting Dust Yield Based on Numerical Inversion and WOA-DELM (Whale Optimization Algorithm-Deep Extreme Learning Machine) Neural Network

description: <b>Supplementary Materials List and Descriptions</b><b>1. Supplementary Figure S1</b><b>Suggested File Name</b>: <code>Supplementary_Figure_S1_Data_fitting_of_blasting_dust.tif</code><b>Description</b>: This figure presents the data fitting results of blasting dust concentration for four test sections (Sections 1-4). The four subplots (a, b, c, d) display the time-series fitting curves of dust concentration under varying conditions of surrounding rock type, temperature, humidity, and water content grade. It visually demonstrates the alignment between field-measured data and the theoretical model, serving as the direct basis for the "Fitting value" data in Table 2 of the manuscript.<b>2. Supplementary Figure S2</b><b>Suggested File Name</b>: <code>Supplementary_Figure_S2_Prediction_of_dust_yield_and_single_factor_variation.tif</code><b>Description</b>: This figure illustrates the single-factor sensitivity analysis of tunnel blasting dust yield based on the WOA-DELM neural network. It clearly shows the sensitivity (change per unit) of the predicted dust yield to variations in six key input parameters: surrounding rock type, temperature, humidity, material moisture content, distance from the monitoring point to the tunnel face, and distance from the ventilation duct outlet to the monitoring point. This is the key visualization supporting the conclusions of the sensitivity analysis presented in Table 6 of the manuscript.<b>3. Supplementary Figure S3</b><b>Suggested File Name</b>: <code>Supplementary_Figure_S3_Performance_Comparison_of_Predictive_Models.tif</code><b>Description</b>: This figure, composed of multiple subplots (a-f), provides a systematic performance comparison of various predictive models (including WOA-DELM, WDO-DELM, GWO-DELM, PSO-DELM, ABC-DELM, MVO-DELM, ASO-DELM, DELM, BP, and KELM) across multiple evaluation metrics (RMSE, MAPE, MAE, R², IA, PRIA). It serves as the core comparative evidence validating the superiority of the WOA-DELM neural network model, which achieved the highest evaluation function value of 0.939.<b>4. Supplementary Table S1</b><b>Suggested File Name</b>: <code>Supplementary_Table_S1_Inversion_value_of_tunnel_blasting_dust_yield.xlsx</code><b>Description</b>: This table provides detailed data on the inversion values of tunnel blasting dust yield for the four test sections. It includes parameters for each section: surrounding rock type, excavation volume, tunnel water content grade, temperature, relative humidity, fitted blasting dust output, inverted blasting dust yield, and the inverted yield per unit volume. This dataset forms the foundational data connecting field measurements and numerical inversion to the final corrected formula (Equation 29) and supports the analysis and discussion in Table 7 of the manuscript.
DOI: 10.15468/dl.h3j8nx
title: Occurrence Download

description: A dataset containing 8247 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia euryale",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 8247 records from 98 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070137-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z7t56b
title: Occurrence Download

description: A dataset containing 158500 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Maniola jurtina",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 158500 records from 773 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070134-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hyc8uf
title: Occurrence Download

description: A dataset containing 464 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia eriphyle",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 464 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070138-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rs6sy3
title: Occurrence Download

description: A dataset containing 1283 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia manto",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 1283 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070139-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.26d96m
title: Occurrence Download

description: A dataset containing 199 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia claudina",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 199 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070140-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6xt8ft
title: Occurrence Download

description: A dataset containing 24 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia flavofasciata",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 24 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070141-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18102608
title: PSC GWAS sumstat/snpinfo Phase 6 Part 9

description: PSC derived GWAS sumstat + snpinfo Phase 6 (Part 9)
DOI: 10.5281/zenodo.18102609
title: PSC GWAS sumstat/snpinfo Phase 6 Part 9

description: PSC derived GWAS sumstat + snpinfo Phase 6 (Part 9)
DOI: 10.5281/zenodo.18102600
title: PSC GWAS sumstat/snpinfo Phase 6 Part 3

description: PSC derived GWAS sumstat + snpinfo Phase 6 (Part 3)
DOI: 10.5281/zenodo.18102605
title: PSC GWAS sumstat/snpinfo Phase 6 Part 3

description: PSC derived GWAS sumstat + snpinfo Phase 6 (Part 3)
DOI: 10.5281/zenodo.18102578
title: PSC GWAS sumstat/snpinfo Phase 1-5 Part 1

description: PSC derived GWAS sumstat + snpinfo Phase 1-5 (Part 1)
DOI: 10.5281/zenodo.18102577
title: PSC GWAS sumstat/snpinfo Phase 1-5 Part 1

description: PSC derived GWAS sumstat + snpinfo Phase 1-5 (Part 1)
DOI: 10.5281/zenodo.18102575
title: PSC GWAS sumstat/snpinfo Phase 1-5 Part 10

description: PSC derived GWAS sumstat + snpinfo Phase 1-5 (Part 10)
DOI: 10.5281/zenodo.18102576
title: PSC GWAS sumstat/snpinfo Phase 1-5 Part 10

description: PSC derived GWAS sumstat + snpinfo Phase 1-5 (Part 10)
DOI: 10.15468/dl.3bmh5n
title: Occurrence Download

description: A dataset containing 2907 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia epiphron",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 2907 records from 94 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070142-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.795fez
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia christi",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 9 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070143-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ks3eqq
title: Occurrence Download

description: A dataset containing 173 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Continent is Asia",
 "TaxonKey is Potamogeton compressus"
 ]
}

 The dataset includes 173 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070144-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.85948e
title: Occurrence Download

description: A dataset containing 1443 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia pharte",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 1443 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070145-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zpvb45
title: Occurrence Download

description: A dataset containing 3168 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia melampus",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 3168 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070146-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fszwqd
title: Occurrence Download

description: A dataset containing 11568 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia aethiops",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 11568 records from 91 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070148-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7b2zcn
title: Occurrence Download

description: A dataset containing 1344 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia triarius",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 1344 records from 91 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070149-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hdkuhf
title: Occurrence Download

description: A dataset containing 6124 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia medusa",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 6124 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070150-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p8fy6z
title: Occurrence Download

description: A dataset containing 80652 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erebia",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1970",
 "Country is one of (Italy, Switzerland, Germany, Austria, Slovenia, France)"
 ]
}

 The dataset includes 80652 records from 232 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070147-251120083545085/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.28784261
title: System Data

description: Details of the test system data.
DOI: 10.15156/bio/sh0209949.10fu
title: SH0209949.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.