cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.xzcw3k
title: Occurrence Download

description: A dataset containing 65695 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Occurrence evidence)",
 "DatasetKey is one of (Long-term cetacean monitoring in the Azores based on whale watching observations (2009-2020), HMAP Dataset 04: World Whaling, Happywhale - Sperm whale in North Atlantic Ocean, Whale-Watching cetacean occurrences by Futurismo Azores Adventures from 2008 to 2018 off São Miguel (Azores), Base de données Pecheker (modifiée). Museum National D'Histoire Naturelle - DEPARTEMENT MILIEUX PEUPLEMENTS AQUATIQUES, BOEM Sperm Whale Seismic Study (SWSS) S-Tag Argos Telemetry, Données Association Évasion tropicale (AET) - Recensement et distribution Mammifères marins Guadeloupe Antilles françaises (AET), BOEM Sperm Whale Seismic Study (SWSS) S-Tag sperm whale trackings 2002-2004, POPA- Fisheries Observer Program of the Azores: Marine mammal sightings in the Azores tuna fishery from 1998 on: during navigation or search mode, Données Association Évasion tropicale (AET) - Mammifères marins Guadeloupe Antilles françaises (AET). Suppléments)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is VU",
 "OccurrenceStatus is Present",
 "TaxonKey is Physeter",
 "Year 1860-2025"
 ]
}

 The dataset includes 65695 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007024-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gry5yd
title: Occurrence Download

description: A dataset containing 21726 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Callyspongiidae"
 ]
}

 The dataset includes 21726 records from 181 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007030-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25345/c5q23rd1t
title: MassIVE MSV000100013 - lungcancer metabolomics20251124sus
title: We sought to investigate metabolic alteration in plasma samples from patients with lung adenocarcinoma (LUAD) to mine candidate biomarkers. Plasma metabolic profiling on lung adenocarcinoma patients was analyzed by ultra performance liquid chromatography-quadrupole time-of-flight mass spectrometry. Statistical (partial least-squares discrimination analysis) and online bioinformatics tools (MetaboAnalyst) were further employed for biomarker and differential pathway discovery. Ninety metabolites with significance, classified into 22 classes, were identified from 64 plasma samples in two paired cohort. Several potential plasma biomarkers were mined by quantitative analysis. Beyond specific metabolites, with pathway enrichment analysis, amino acid metabolism, TCA cycle, purine and sphingolipid metabolism were found to be significantly altered in LUAD group.
DOI: 10.5281/zenodo.15024519
title: S68 | HSDBTPS | Transformation Products Extracted from HSDB Content in PubChem

description: HSDBTPS is a list of metabolites / transformation products extracted from the "Metabolites/Metabolism" section from HSDB (Hazardous Substance Data Bank) in PubChem (https://pubchem.ncbi.nlm.nih.gov/source/11933). Dataset DOI: 10.5281/zenodo.3827487.

Entries automatically extracted from HSDB are manually validated to remove mismatching CIDs, and add additional CIDs not captured using the descriptions provided. Files are created with a default to not import any data until this has been checked. Please report any mismatches, despite best efforts it is possible that errors are present, all files are under version control so that entries can be corrected/updated/enhanced over time and recommitted.

Recent uploads (2022 and later) are handled with ShinyTPs (code + article from Palm et al 2023 DOI:10.1021/acs.estlett.3c00537). The original code associated with this deposit is located here. 

Updates:

16 May 2020: Added the source file (extract of all HSDB Metabolites/Metabolism entries as is from JSON file), plus an updated S68_HSDBTPS_StructInfoOnly.csv with one new structure and renamed to include S68, plus the first draft of the Transformations table. 28 May 2020: added InChIKey and DIXSID files. 11 June 2020: added updated Transformations and Structure files to contain new CIDs and resulting reactions from new PubChem registrations. Dec 23, 2022: first dataset from Emma Palm added, using her TP curation app. DTXSID file dropped. 23 Mar 2023: added Biosystem and Enzyme columns, filling in biosystem where appropriate. 24 Mar 2023: new azo dye reactions from Emma Palm added. 1 Apr 2023: more azo dye reactions from Emma Palm. 4 Apr 2023: added new CIDs. 27 June 2023: added many new substances, including new CIDs. 28 June 2023 added transformations, 30 June 2023 added new CIDs. 11 July added missing CIDs to transformations table. 18 Nov 2023: added new reactions from Jolly Komolo (no new CIDs). 1 Dec 2023: new reactions from Marie, incl. two new CIDs. 19 Dec 2023: new reactions from Marie, incl. 1 new CID, updated CIDs from Dec 1. 29 April 2024: new reactions from Marie, CID updated. 16 July 2024: added reactions from Olga. 26 July 2024: added BPA=>MBP. 6 Aug 2024: adjusted many triazine names, added one new reaction. 27 Nov 2024: added Griseofulvin reactions. 8 Feb 2025: added Sertraline TP. 14 Mar 2025: added missing CID for O-Demethyl phosphamidon.
description: NOTE: Work in progress! Files and formats are being actively developed with PubChem and are subject to change
DOI: 10.5281/zenodo.3827487
title: S68 | HSDBTPS | Transformation Products Extracted from HSDB Content in PubChem

description: HSDBTPS is a list of metabolites / transformation products extracted from the "Metabolites/Metabolism" section from HSDB (Hazardous Substance Data Bank) in PubChem (https://pubchem.ncbi.nlm.nih.gov/source/11933). Dataset DOI: 10.5281/zenodo.3827487.

Entries automatically extracted from HSDB are manually validated to remove mismatching CIDs, and add additional CIDs not captured using the descriptions provided. Files are created with a default to not import any data until this has been checked. Please report any mismatches, despite best efforts it is possible that errors are present, all files are under version control so that entries can be corrected/updated/enhanced over time and recommitted.

Recent uploads (2022 and later) are handled with ShinyTPs (code + article from Palm et al 2023 DOI:10.1021/acs.estlett.3c00537). The original code associated with this deposit is located here. 

Updates:

16 May 2020: Added the source file (extract of all HSDB Metabolites/Metabolism entries as is from JSON file), plus an updated S68_HSDBTPS_StructInfoOnly.csv with one new structure and renamed to include S68, plus the first draft of the Transformations table. 28 May 2020: added InChIKey and DIXSID files. 11 June 2020: added updated Transformations and Structure files to contain new CIDs and resulting reactions from new PubChem registrations. Dec 23, 2022: first dataset from Emma Palm added, using her TP curation app. DTXSID file dropped. 23 Mar 2023: added Biosystem and Enzyme columns, filling in biosystem where appropriate. 24 Mar 2023: new azo dye reactions from Emma Palm added. 1 Apr 2023: more azo dye reactions from Emma Palm. 4 Apr 2023: added new CIDs. 27 June 2023: added many new substances, including new CIDs. 28 June 2023 added transformations, 30 June 2023 added new CIDs. 11 July added missing CIDs to transformations table. 18 Nov 2023: added new reactions from Jolly Komolo (no new CIDs). 1 Dec 2023: new reactions from Marie, incl. two new CIDs. 19 Dec 2023: new reactions from Marie, incl. 1 new CID, updated CIDs from Dec 1. 29 April 2024: new reactions from Marie, CID updated. 16 July 2024: added reactions from Olga. 26 July 2024: added BPA=>MBP. 6 Aug 2024: adjusted many triazine names, added one new reaction. 27 Nov 2024: added Griseofulvin reactions. 8 Feb 2025: added Sertraline TP. 14 Mar 2025: added missing CID for O-Demethyl phosphamidon.
description: NOTE: Work in progress! Files and formats are being actively developed with PubChem and are subject to change
DOI: 10.5281/zenodo.3779849
title: S67 | TBUTYLPHENOLS | List of tert-butyl phenols from KEMI

description: A list of tert-butyl phenols from KEMI (Swedish Chemicals Agency), partner list to BISPHENOLS. Includes exposure score. Dataset DOI: 10.5281/zenodo.3779848.
description: NOTE: these were included in S20 BISPHENOLS but have been removed on request to create a new list. S20 has been updated.
DOI: 10.5281/zenodo.3779848
title: S67 | TBUTYLPHENOLS | List of tert-butyl phenols from KEMI

description: A list of tert-butyl phenols from KEMI (Swedish Chemicals Agency), partner list to BISPHENOLS. Includes exposure score. Dataset DOI: 10.5281/zenodo.3779848.
description: NOTE: these were included in S20 BISPHENOLS but have been removed on request to create a new list. S20 has been updated.
DOI: 10.5281/zenodo.5145471
title: S69 | LUXPEST | Pesticide Screening List for Luxembourg

description: A pesticide screening list for Luxembourg, compiled from multiple sources by Jessy Krier, uni.lu. Dataset DOI: 10.5281/zenodo.3862688.

NOTE: the presence of pesticides on this list means that they are potentially relevant for Luxembourg and surrounding regions, but does not imply that they have been detected in Luxembourg. This list has been compiled to enable the efficient screening of data using the background knowledge contained within this list.

The sources used were:

Classification links & Authorization in Luxembourg

https://ec.europa.eu/food/plant/pesticides/eu-pesticides-database/public/?event=activesubstance.selection&language=EN

https://sitem.herts.ac.uk/aeru/bpdb/search.htm

https://sitem.herts.ac.uk/aeru/ppdb/en/search.htmOrigin:

ASTA: https://saturn.etat.lu/tapes/tapes_de_lst_pdt.jsp?sel=_

SWISSPEST16: https://comptox.epa.gov/dashboard/chemical_lists/swisspest

Structure mapping: CompTox Batch Search with CID mapping via PubChem; InChIs were generated from SMILES by OpenBabel. MS_READY SMILES were used for mass spectral screening; parent forms were used for structural information and to map classification content.

Update 29/7/2021: TP permission information updated.
DOI: 10.5281/zenodo.3862688
title: S69 | LUXPEST | Pesticide Screening List for Luxembourg

description: A pesticide screening list for Luxembourg, compiled from multiple sources by Jessy Krier, uni.lu. Dataset DOI: 10.5281/zenodo.3862688.

NOTE: the presence of pesticides on this list means that they are potentially relevant for Luxembourg and surrounding regions, but does not imply that they have been detected in Luxembourg. This list has been compiled to enable the efficient screening of data using the background knowledge contained within this list.

The sources used were:

Classification links & Authorization in Luxembourg

https://ec.europa.eu/food/plant/pesticides/eu-pesticides-database/public/?event=activesubstance.selection&language=EN

https://sitem.herts.ac.uk/aeru/bpdb/search.htm

https://sitem.herts.ac.uk/aeru/ppdb/en/search.htmOrigin:

ASTA: https://saturn.etat.lu/tapes/tapes_de_lst_pdt.jsp?sel=_

SWISSPEST16: https://comptox.epa.gov/dashboard/chemical_lists/swisspest

Structure mapping: CompTox Batch Search with CID mapping via PubChem; InChIs were generated from SMILES by OpenBabel. MS_READY SMILES were used for mass spectral screening; parent forms were used for structural information and to map classification content.

Update 29/7/2021: TP permission information updated.
DOI: 10.5281/zenodo.17706879
title: Hukum acara MK
DOI: 10.5281/zenodo.17706880
title: Hukum acara MK
DOI: 10.15468/dl.kbq3rk
title: Occurrence Download

description: A dataset containing 438219 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tracheophyta",
 "Year 2000-2025"
 ]
}

 The dataset includes 438219 records from 487 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007021-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17605/osf.io/s8zye
title: Effects of Motor Imagery Training on Service Performance in Novice Tennis Players: The Role of Imagery Ability

description: The aim of this study was to examine how imagery ability could affect service improvement, following pre-performance motor imagery (MI) intervention, in young novice tennis players. Participants were divided into 3 groups with regard to their MI ability scores (Poor imager, Good imager and Control groups) obtained on the Movement Imagery Questionnaire for Children. During a pre-test, participants performed 10 services. The pre-performance MI practice was included during physical practice for 24 sessions. Each session consisted of 20 services, which were first imagined and then physically performed. Participants of the Poor and Good imager groups were required to use external visual MI, while those of the control group were given a countdown task. Participants performed an intermediate-test, after a first block of 12 practice sessions, and a post-test one-week after the last block of practice session, which were identical to the pre-test. The results of this study showed that MI improved service performance (i.e., percentage of success, speed and efficiency), and that this improvement was faster in the Good imager than in the Poor imager group. More specifically, The Poor imager group required more MI interventions to achieve equivalent performance to Good imager group. The impact of MI practice on service performance, for novice tennis players, is discussed.
DOI: 10.5281/zenodo.17509930
title: Fucci_mESC_timelapse_raw_data

description: Live-cell Imaging Data of Fucci-labeled mESCs

Dataset Overview

This dataset contains live-cell imaging data of mouse embryonic stem cells (mESCs) expressing Fucci cell cycle reporters. Includes raw timelapse images and quantitative fluorescence measurements.

File Description

Image Files

Fucci_mESC_timelapse_bio_rep1.tif - Timelapse imaging, replicate 1 (50 hours, 10-minute intervals)Fucci_mESC_timelapse_bio_rep2.tif - Timelapse imaging, replicate 2 (50 hours, 10-minute intervals)

Measurement Files

Fucci_mESC_timelapse_bio_rep1.csv - Raw fluorescence measurements, replicate 1Fucci_mESC_timelapse_bio_rep2.csv - Raw fluorescence measurements, replicate 2Column Definitions

Label - Cell identifier using lineage tracking system:Base number indicates original cell (e.g., 1)M suffix indicates mitotic cell (e.g., 1M)Decimal notation tracks daughter cells across divisions:First division: 1.1, 1.2Second division: 1.1.1, 1.1.2, 1.2.1, 1.2.2Example lineage: Cell 1 → mitosis (1M) → daughters 1.1 and 1.2

POSITION_X - X-coordinate position (pixels)POSITION_Y - Y-coordinate position (pixels)FRAME - Timelapse frame numberRADIUS - Tracking circle radius (fixed at 5 pixels for all cells)MEAN_INTENSITY_01 - Mean mVenus fluorescence intensity (S/G2/M marker)MEAN_INTENSITY02 - Mean mCherry fluorescence intensity (G1 marker)
DOI: 10.5281/zenodo.17509931
title: Fucci_mESC_timelapse_raw_data

description: Live-cell Imaging Data of Fucci-labeled mESCs

Dataset Overview

This dataset contains live-cell imaging data of mouse embryonic stem cells (mESCs) expressing Fucci cell cycle reporters. Includes raw timelapse images and quantitative fluorescence measurements.

File Description

Image Files

Fucci_mESC_timelapse_bio_rep1.tif - Timelapse imaging, replicate 1 (50 hours, 10-minute intervals)Fucci_mESC_timelapse_bio_rep2.tif - Timelapse imaging, replicate 2 (50 hours, 10-minute intervals)

Measurement Files

Fucci_mESC_timelapse_bio_rep1.csv - Raw fluorescence measurements, replicate 1Fucci_mESC_timelapse_bio_rep2.csv - Raw fluorescence measurements, replicate 2Column Definitions

Label - Cell identifier using lineage tracking system:Base number indicates original cell (e.g., 1)M suffix indicates mitotic cell (e.g., 1M)Decimal notation tracks daughter cells across divisions:First division: 1.1, 1.2Second division: 1.1.1, 1.1.2, 1.2.1, 1.2.2Example lineage: Cell 1 → mitosis (1M) → daughters 1.1 and 1.2

POSITION_X - X-coordinate position (pixels)POSITION_Y - Y-coordinate position (pixels)FRAME - Timelapse frame numberRADIUS - Tracking circle radius (fixed at 5 pixels for all cells)MEAN_INTENSITY_01 - Mean mVenus fluorescence intensity (S/G2/M marker)MEAN_INTENSITY02 - Mean mCherry fluorescence intensity (G1 marker)
DOI: 10.5281/zenodo.3894827
title: S70 | EISUSGCEIMS | Environmental Institute GC-EI-MS suspect list

description: GC-EI-MS suspect list of Environmental Institute. Provided by Peter Oswald, Nikiforos Alygizakis, Martina Oswaldova, Jaroslav Slobodnik. Dataset DOI: 10.5281/zenodo.3894827.
DOI: 10.5281/zenodo.3894828
title: S70 | EISUSGCEIMS | Environmental Institute GC-EI-MS suspect list

description: GC-EI-MS suspect list of Environmental Institute. Provided by Peter Oswald, Nikiforos Alygizakis, Martina Oswaldova, Jaroslav Slobodnik. Dataset DOI: 10.5281/zenodo.3894827.
DOI: 10.5281/zenodo.17596407
title: The code and data for the extreme temperature response model

description: The data and code are in Stata version 17 format.
DOI: 10.5281/zenodo.17596408
title: The code and data for the extreme temperature response model

description: The data and code are in Stata version 17 format.
DOI: 10.6084/m9.figshare.19601773
title: Original data for the manuscript "Fault slip behaviors modulated by locally increased fluid pressure: Earthquake nucleation and slow slip events"

description: Model results of four typical fault slip behaviors are presented in the form of time (T), displacement(U), slip rate(v), friction(f), and time increment(dt) at each step in numerical simulation.
The collective results of numerical simulation are present in Data.xlsx
<br>
DOI: 10.6084/m9.figshare.19601773.v3
title: Original data for the manuscript "Fault slip behaviors modulated by locally increased fluid pressure: Earthquake nucleation and slow slip events"

description: Model results of four typical fault slip behaviors are presented in the form of time (T), displacement(U), slip rate(v), friction(f), and time increment(dt) at each step in numerical simulation.
The collective results of numerical simulation are present in Data.xlsx
<br>
DOI: 10.6084/m9.figshare.19601773.v2
title: Original data for the manuscript "Fault slip behaviors modulated by locally increased fluid pressure: Earthquake nucleation and slow slip events"

description: Model results of four typical fault slip behaviors are presented in the form of time (T), displacement(U), slip rate(v), friction(f), and time increment(dt) at each step in numerical simulation.
The collective results of numerical simulation are present in Data.xlsx
<br>
DOI: 10.6084/m9.figshare.30581129.v1
title: DeepEvo

description: The identification of adaptively driven genes underlying human evolutionary traits remains a key challenge in evolutionary genomics. Here we present DeepEvo, an interpretable Siamese neural network that predicts cross-species expression differences from orthologous sequences while pinpointing evolutionary regulatory variants. DeepEvo outperforms existing methods in cross-species modeling, with validation through documented annotations and single-base perturbation assays (MPRA/Perturb-seq). We discover that unlike population-level variations that predominantly disrupt existing regulatory motifs, evolutionary regulatory variants frequently enhance existing motifs over longer timescales. These variants are enriched in disease-associated regions, indicating their shared functions underlying human evolution and disease. Furthermore, analysis of their combinatorial cis-regulation revealed an ‘additive effect’ model. Within this framework, genes can maintain global stability through compensatory changes, while simultaneously achieving precise, cell-type-specific expression changes. This insight led to a ‘concerted drive’ strategy, prioritizing four adaptively driven genes that function across multiple systems, based on coordinated pushes from multiple evolutionary regulatory elements. As validation, we focused on PRKD2, upregulated in humans through concordant cis-regulatory changes. PRKD2-depleted rhesus macaques exhibited multi-system alterations—including reduced neuronal activity, decreased dendritic complexity, altered functional connectivity of brain, elevated insulin levels and lymphocyte counts—recapitulating key human-rhesus phenotypic differences. Our framework deciphers the cis-regulatory grammar of human transcriptome evolution and provides an effective strategy for identifying adaptively driven genes, generalizable to other cross-species comparisons.
DOI: 10.15468/dl.mdsfd2
title: Occurrence Download

description: A dataset containing 231 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lycium ruthenicum",
 "Year 1970-2025"
 ]
}

 The dataset includes 231 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007033-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rx5xhh
title: Occurrence Download

description: A dataset containing 11506 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tephrosia purpurea"
 ]
}

 The dataset includes 11506 records from 352 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007032-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/w4pz93
title: Cambridgeshire and Peterborough Environmental Records Centre data

description: Species records held by the Cambridgeshire and Peterborough Environmental Records Centre derived from a variety of sources. These include records from professional surveyors, local naturalists, local recording groups and natural history societies, conservation charities, government bodies, museum collections and members of the public. This dataset consists of all species records held on the CPERC database (up to February 2024) that have been deemed verified, excluding records from data sources with datasets currently on the NBN Atlas to avoid duplication. There will however be some duplication of records with other datasets.
The resolution of the records is restricted for public viewing to tetrad (2x2km square) level maximum which provides information on local species distributions. To request more detailed data for your area of interest please contact us direct.
DOI: 10.15468/dl.rtnjbx
title: Occurrence Download

description: A dataset containing 304175 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cladophorales"
 ]
}

 The dataset includes 304175 records from 932 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007023-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15472857
title: Bridging Digital Intelligence and Age-Friendly Design for Fujian's Footwear Industry: From DIIDMS Mode Development to its Application
DOI: 10.5281/zenodo.15472858
title: Bridging Digital Intelligence and Age-Friendly Design for Fujian's Footwear Industry: From DIIDMS Mode Development to its Application
DOI: 10.15468/dl.dyu4qr
title: Occurrence Download

description: A dataset listing the 257535 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "BasisOfRecord is one of (Human Observation, Specimen)"
 ]
}

 The dataset's 257535 records were derived from 2217 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009712-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.