cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13012/b2idb-9622921_v2
title: Data for "Idealized Particle-Resolved Large-Eddy Simulations to Evaluate the Impact of Emissions Spatial Heterogeneity on CCN Activity"

description: This dateset contains data files necessary to replicate figures from "Idealized Particle-Resolved Large-Eddy Simulations to Evaluate the Impact of Emissions Spatial Heterogeneity on CCN Activity" submitted to Atmospheric Chemistry and Physics. 

Within the compressed folder data.zip are two subdirectories, "processed_data" and "spatial-het". The "processed_data" directory contains netCDF files which contain a subset of simulation output used in figure generation. The "spatial-het" subdirectory contains a .csv file with spatial heterogeneity values computed via an exact algorithm of the spatial heterogeneity metric described by Mohebalhojeh et al. 2025. The subdirectory "sh-patterns" contains .csv files for each emissions scenario. Each entry corresponds to a single grid cell over a domain of dimension 100x100 (lateral resolution of the computational domain employed in this paper). 

Within scripts.zip are python notebooks for generating figures. Additional python modules are included which contain helper functions for notebooks. Furthermore, a Fortran version of the spatial heterogeneity metric is included alongside shells scripts for creating a python environment in which the code can be compiled and convert into a Python module. Note that the create_env.sh and compile_nsh.sh scripts must be run prior to executing cells in notebooks to make use of the spatial heterogeneity subroutines. 

<b>*Note*:</b> New in this V2: Following an initial review, an additional figure was requested, which required updates to both data.zip (adding one new NC file: no-heterogeneity_met-vars_subset.nc) and scripts.zip (a minor addition to a Python notebook). A README in PDF format has also been uploaded to provide a summary of the dataset.
DOI: 10.15468/dl.g9gu4y
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Surirella robusta",
 "Geometry POLYGON((119.300000 20.500000, 122.100000 20.500000, 122.100000 25.400000, 119.300000 25.400000, 119.300000 20.500000))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 22 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031526-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.katss8
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Potamogeton pusillus",
 "Country is Chile",
 "HasCoordinate is true"
 ]
}

 The dataset includes 10 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031527-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f92ca9
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Potamogeton pusillus",
 "Country is India",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031528-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tdt7dq
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Heterophasia capistrata",
 "Country is one of (Brunei Darussalam, Indonesia, Philippines, Timor-Leste, Singapore)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031529-250920141307145/datasets/export for details.
DOI: 10.15468/dl.n3bc7p
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Surirella tenera",
 "Geometry POLYGON((119.300000 20.500000, 122.100000 20.500000, 122.100000 25.400000, 119.300000 25.400000, 119.300000 20.500000))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 35 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031530-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2uruxh
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Zannichellia palustris",
 "Country is Chile",
 "HasCoordinate is true"
 ]
}

 The dataset includes 15 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031531-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fqd4g2
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Heterophasia pulchella",
 "Country is one of (Brunei Darussalam, Indonesia, Philippines, Timor-Leste, Singapore)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031533-250920141307145/datasets/export for details.
DOI: 10.15468/dl.3g2f6y
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Zannichellia palustris",
 "Country is India",
 "HasCoordinate is true"
 ]
}

 The dataset includes 17 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031532-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yvs388
title: Occurrence Download

description: A dataset containing 501 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Streblidae"
 ]
}

 The dataset includes 501 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031535-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wvefnh
title: Occurrence Download

description: A dataset containing 39677 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (North America, South America)",
 "OccurrenceStatus is Present",
 "TaxonKey is Centris"
 ]
}

 The dataset includes 39677 records from 140 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031534-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4mcb8q
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thalassionema frauenfeldii",
 "Geometry POLYGON((119.300000 20.500000, 122.100000 20.500000, 122.100000 25.400000, 119.300000 25.400000, 119.300000 20.500000))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 30 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031537-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q7cr5z
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Heterophasia gracilis",
 "Country is one of (Brunei Darussalam, Indonesia, Philippines, Timor-Leste, Singapore)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031538-250920141307145/datasets/export for details.
DOI: 10.15468/dl.5xafeq
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cyperus articulatus",
 "Country is Japan",
 "HasCoordinate is true"
 ]
}

 The dataset includes 7 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031540-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kygzm2
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031541-250920141307145/datasets/export for details.
DOI: 10.15468/dl.cmjdk8
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cyperus articulatus",
 "Country is Chile",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031539-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c5yvpc
title: Occurrence Download

description: A dataset containing 165373 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Germany",
 "DatasetKey is EOD – eBird Observation Dataset",
 "License is CC-BY 4.0",
 "Month is October",
 "OccurrenceStatus is Present",
 "Year is 2024"
 ]
}

 The dataset includes 165373 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031467-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17014974
title: Industrial and Commercial Electricity Tariffs in the United States

description: No description provided.
description: If this dataset has been useful in your research, we encourage you to cite it using the provided metadata.
DOI: 10.15468/dl.e79b9x
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thalassionema nitzschioides",
 "Geometry POLYGON((119.300000 20.500000, 122.100000 20.500000, 122.100000 25.400000, 119.300000 25.400000, 119.300000 20.500000))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 7 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031542-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17202915
title: An autoinhibitory clamp of actin assembly constrains and directs synaptic endocytosis - Dataset

description: Dataset and analyses that form basis of the manuscript published here: https://doi.org/10.7554/eLife.69597
DOI: 10.5281/zenodo.17202916
title: An autoinhibitory clamp of actin assembly constrains and directs synaptic endocytosis - Dataset

description: Dataset and analyses that form basis of the manuscript published here: https://doi.org/10.7554/eLife.69597
DOI: 10.15468/dl.q726jx
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Heterophasia melanoleuca",
 "Country is one of (Brunei Darussalam, Indonesia, Philippines, Timor-Leste, Singapore)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031543-250920141307145/datasets/export for details.
DOI: 10.15468/dl.5nufau
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cyperus articulatus",
 "Country is Venezuela (Bolivarian Republic of)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 35 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031544-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25345/c5js9hm9f
title: MassIVE MSV000099322 - Pairing FAIMS and DIA for Cysteine Chemoproteomics A
title: Mass spectrometry-based cysteine chemoproteomics has enabled the proteome-wide discovery of thousands of functional and potentially therapeutically relevant sites. While this technology is increasingly utilized both in academic and industrial settings, modest sample throughput and variability in terms of ratios and coverage are areas that still warrant further methodological innovation. Data-independent acquisition (DIA) and high-field asymmetric waveform ion mobility spectrometry (FAIMS) are two increasingly utilized modes of acquisition that offer the potential benefits of decreased missing values and increased data reproducibility across replicate experiments. Here we pair FAIMS and DIA to enhance cysteine chemoproteomics. Using DIA by Neural Networks (DIA-NN) processing together with MSstats and Frag-Pipe-Analyst (FPA) statistical analysis, we demonstrate high cysteine coverage and low variance quantification for our DIA-FAIMS platform. We extend our methodology to three applications, cysteine-reactive small molecule screening, defining the subcellular nuclear cysteinome, and pinpointing translation arrest-induced cysteine reactivity analysis, which in aggregate identified a total of 27,346 cysteines, including 2,235 not previously reported in the CysDB database. Taken together, our methodology and associated comparison of data analysis tools adds to the growing toolbox for chemoproteomics and should broadly inform studies geared toward site-centric proteomic analysis.
DOI: 10.15468/dl.x6cah7
title: Occurrence Download

description: A dataset containing 396 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-100.423 20.503,-100.402 20.503,-100.402 20.521,-100.423 20.521,-100.423 20.503))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 396 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031545-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.88y73z
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thalassiothrix delicatula",
 "Geometry POLYGON((119.300000 20.500000, 122.100000 20.500000, 122.100000 25.400000, 119.300000 25.400000, 119.300000 20.500000))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031546-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f2xprm
title: Occurrence Download

description: A dataset containing 3255322 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Tracheophyta"
 ]
}

 The dataset includes 3255322 records from 612 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031519-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.atssm4
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Heterophasia desgodinsi",
 "Country is one of (Brunei Darussalam, Indonesia, Philippines, Timor-Leste, Singapore)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031548-250920141307145/datasets/export for details.
DOI: 10.5281/zenodo.17229680
title: Datasets used in "Harnessing DNA Foundation Models for Cross-Species TFBS Prediction in Plant Genomes"

description: This dataset accompanies the paper "Harnessing DNA Foundation Models for Cross-Species Transcription Factor Binding Site Prediction in Plant Genomes".

It contains:





Genome FASTA files of Arabidopsis thaliana and Sisymbrium irio in the fastas/ folder.




DAP-seq peak files in the peak_files/ folder, obtained from:





Malley2016: O'Malley et al., 2016 — https://pubmed.ncbi.nlm.nih.gov/27203113/




Sun2020: Sun et al., 2022 — https://pubmed.ncbi.nlm.nih.gov/35501452/
DOI: 10.5281/zenodo.17229679
title: Datasets used in "Harnessing DNA Foundation Models for Cross-Species TFBS Prediction in Plant Genomes"

description: This dataset accompanies the paper "Harnessing DNA Foundation Models for Cross-Species Transcription Factor Binding Site Prediction in Plant Genomes".

It contains:





Genome FASTA files of Arabidopsis thaliana and Sisymbrium irio in the fastas/ folder.




DAP-seq peak files in the peak_files/ folder, obtained from:





Malley2016: O'Malley et al., 2016 — https://pubmed.ncbi.nlm.nih.gov/27203113/




Sun2020: Sun et al., 2022 — https://pubmed.ncbi.nlm.nih.gov/35501452/
DOI: 10.5281/zenodo.17095249
title: experimento-euca
DOI: 10.5281/zenodo.16614235
title: experimento-euca
DOI: 10.15468/dl.yewveg
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cyperus laevigatus",
 "Country is Chile",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031549-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pxy9yd
title: Occurrence Download

description: A dataset containing 31 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thalassiosira decipiens",
 "Geometry POLYGON((119.300000 20.500000, 122.100000 20.500000, 122.100000 25.400000, 119.300000 25.400000, 119.300000 20.500000))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 31 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031550-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mwnzwp
title: Occurrence Download

description: A dataset containing 16755 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (North America, South America)",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Protandrena, Oxytrigona, Xenoglossa)"
 ]
}

 The dataset includes 16755 records from 90 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031551-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.re4cug
title: Occurrence Download

description: A dataset containing 6141066 species occurrences available in GBIF matching the query:
(Query is too complex. Can be viewed on the landing page)

 The dataset includes 6141066 records from 1259 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0075643-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh0191927.10fu
title: SH0191927.10FU

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.
DOI: 10.15156/bio/sh0191928.10fu
title: SH0191928.10FU

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.
DOI: 10.15156/bio/sh0191929.10fu
title: SH0191929.10FU

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.