cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh0193923.10fu
title: SH0193923.10FU

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/sh0193924.10fu
title: SH0193924.10FU

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: 10.15468/dl.y99gzm
title: Occurrence Download

description: A dataset containing 95 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pseudoeurycea saltator Lynch & Wake, 1989"
 ]
}

 The dataset includes 95 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024739-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h2f747
title: Occurrence Download

description: A dataset containing 2596785 records in GBIF matching the query:
SELECT 
 catalognumber, scientificname, publishingorgkey, institutioncode, datasetkey, gbifid, decimallatitude, decimallongitude, 
 recordedby, identifiedby, eventdate,
 kingdomkey, phylumkey, classkey, orderkey, familykey, genuskey, subgenuskey, specieskey
 FROM occurrence
 WHERE
 orderkey = 549
 AND hascoordinate = 1
 AND hasgeospatialissues = 0
 AND specieskey IS NOT NULL
 AND occurrencestatus = 'PRESENT'
 AND (
 basisofrecord = 'HUMAN_OBSERVATION'
 OR basisofrecord = 'MACHINE_OBSERVATION'
 OR basisofrecord = 'OCCURRENCE'
 OR basisofrecord = 'LIVING_SPECIMEN'
 OR basisofrecord = 'MATERIAL_SAMPLE'
 )
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')

 The dataset's 2596785 records were derived from 574 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024708-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14854790
title: Plant genome size mediates species and community responses to precipitation change and nitrogen enrichment

description: Evidence is mounting that plant genome size (GS) is associated with species’ ecological strategies for water and nutrient utilization. However, its role in mediating species’ responses to ongoing precipitation changes and increasing nitrogen deposition, and its impact on plant community dynamics, remains poorly understood. Here, combining a precipitation gradient experiment with a nitrogen addition experiment in a semi-arid grassland, we show that plant-GS difference among coexisting species is linked to their varied responses to environmental changes and consequently mediates community dynamics.
DOI: 10.15468/dl.mqfn5z
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lunda cirrhata (Pallas, 1769)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024740-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14848167
title: Large language model-assisted causal machine learning for identifying fatigue-related poor glycated hemoglobin in type 2 diabetes

description: We applied retrospective cohort design to collect data between January and June 2024. The settings were diabetes management centers in Indonesia. The eligibility criterion of participants in this study was individuals with type 2 diabetes. This study was approved by the Joint Institutional Review Board of the Ethical Committee of Medical Research at the Faculty of Dentistry, Universitas Jember (no.: 2683/UN25.8/KEPK/DL/2024).

We collected data for 10 variables by interviewing the participants at the time of survey and reviewing their medical records from the past 3 months. At the time of survey, we asked the participants to obtain 6 variables: (1) age (years); (2) sex (female/male); (3) marital status (unmarried/married/widowed or divorced); (4) educational status (no education/primary school/junior secondary school/senior secondary school/college graduate); (5) cigarette smoking(no/yes); (6) fatigue (no/yes). The remaining 4 variables were obtained from medical records: (1) HbA1c (%); (2) diabetes treatment (OHA/OHA + insulin); (3) diabetes duration (years); and (4) comorbidity (no/yes).
DOI: 10.5281/zenodo.14848166
title: Large language model-assisted causal machine learning for identifying fatigue-related poor glycated hemoglobin in type 2 diabetes

description: We applied retrospective cohort design to collect data between January and June 2024. The settings were diabetes management centers in Indonesia. The eligibility criterion of participants in this study was individuals with type 2 diabetes. This study was approved by the Joint Institutional Review Board of the Ethical Committee of Medical Research at the Faculty of Dentistry, Universitas Jember (no.: 2683/UN25.8/KEPK/DL/2024).

We collected data for 10 variables by interviewing the participants at the time of survey and reviewing their medical records from the past 3 months. At the time of survey, we asked the participants to obtain 6 variables: (1) age (years); (2) sex (female/male); (3) marital status (unmarried/married/widowed or divorced); (4) educational status (no education/primary school/junior secondary school/senior secondary school/college graduate); (5) cigarette smoking(no/yes); (6) fatigue (no/yes). The remaining 4 variables were obtained from medical records: (1) HbA1c (%); (2) diabetes treatment (OHA/OHA + insulin); (3) diabetes duration (years); and (4) comorbidity (no/yes).
DOI: 10.5281/zenodo.14854747
title: Data for "SpaKnit: correlation subspace learning for integrating spatial multi-omics data"
DOI: 10.5281/zenodo.14854748
title: Data for "SpaKnit: correlation subspace learning for integrating spatial multi-omics data"
DOI: 10.5281/zenodo.14854543
title: Global Hourly Seamless Aerosol Optical Depth Dataset (2004) at 0.05°×0.05° Resolution

description: This dataset was producted based on MERRA-2 AOD, MODIS MAIAC AOD.
DOI: 10.5281/zenodo.14854544
title: Global Hourly Seamless Aerosol Optical Depth Dataset (2004) at 0.05°×0.05° Resolution

description: This dataset was producted based on MERRA-2 AOD, MODIS MAIAC AOD.
DOI: 10.15468/dl.yjxfwe
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pseudoeurycea ruficauda Parra-Olea, García-París, Hanken & Wake, 2004"
 ]
}

 The dataset includes 20 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024742-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mkxaa3
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Decapterus tabl Berry, 1968",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 38 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024741-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xyeckv
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Decapterus russelli (Rüppell, 1830)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 52 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024745-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.txj3yx
title: Occurrence Download

description: A dataset containing 24 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gastrolobium nudum G.Chandler & Crisp"
 ]
}

 The dataset includes 24 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024746-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ft8yfq
title: Occurrence Download

description: A dataset containing 40 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pristipomoides filamentosus (Valenciennes, 1830)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 40 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024747-250127130748423/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.28396922
title: Drone photogrammetry post-processing images of the Minle Fault in the Qilian Shan, northeastern Tibetan Plateau

description: Orthoimages and DEMs of the Minle Fault in the Tiechengzi, Heishan, Dengzhuang, and Shangwan sections.
DOI: 10.6084/m9.figshare.28396922.v1
title: Drone photogrammetry post-processing images of the Minle Fault in the Qilian Shan, northeastern Tibetan Plateau

description: Orthoimages and DEMs of the Minle Fault in the Tiechengzi, Heishan, Dengzhuang, and Shangwan sections.
DOI: 10.15468/dl.uta95d
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Serranus filamentosus Valenciennes, 1830",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024748-250127130748423/datasets/export for details.
DOI: 10.15468/dl.ztfs66
title: Occurrence Download

description: A dataset containing 19636 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Calonectris leucomelas (Temminck, 1836)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 19636 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024749-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.12080986
title: Vertices of the 3-dimensional Birkhoff polytope of order 4

description: The file consist of the folowing columns: Matrix, Number of automorphisms of matrix .  Automorphism class's cardinality
DOI: 10.15468/dl.v35x4w
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Procellaria leucomelas Temminck, 1836",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024750-250127130748423/datasets/export for details.
DOI: 10.5281/zenodo.14854882
title: CytoImage Net Dataset

description: Description:







CytoImage Net Dataset is an extensive collection of microscopy images, carefully curated to aid in the development of fast and automated methods for analyzing biological data. With over 890,000 grayscale images spanning 894 diverse classes, it addresses the increasing demand for high-throughput image-based biological assays.

 







Download Dataset









Motivation:

As advancements in microscopy imaging fuel new discoveries, the challenge of processing large volumes of image data has grown significantly. CytoImageNet draws inspiration from ImageNet’s success in computer vision, offering a large-scale resource specifically for biological imaging. Pretraining deep learning models on CytoImageNet has demonstrated competitive performance, producing features optimized for microscopy classification tasks. The combination of CytoImageNet with ImageNet-based features now sets the benchmark for bioimage transfer learning.

Dataset Composition:

CytoImageNet comprises 890,737 grayscale microscopy images, divided across 894 classes, with approximately 1,000 images per class. These images span a broad range of biological contexts, including cell morphology, tissue structures, and organoid assays, sourced from major biological image repositories. Each image is weakly-labeled, ensuring scalability for various tasks while still maintaining biological relevance.

Why CytoImageNet Matters:

Pretraining on biological image data accelerates the development of models tailored for specific microscopy tasks, improving classification accuracy and interpretability in bioimage analysis. CytoImageNet not only enhances the capacity of models to extract meaningful biological information but also fosters innovation in areas like drug discovery, disease diagnosis, and biomedical research.

Key Features:



890,737 images, all grayscale and microscopy-focused.

894 distinct classes, approximately 1,000 images per class.

Curated from 40 open-access datasets, ensuring diverse biological representations.

Designed for bioimage pretraining, providing competitive features for transfer learning.

Incorporates both general and highly specific biological contexts, making it a versatile tool for various research applications.


CytoImageNet represents a new frontier in microscopy image analysis, empowering researchers to unlock insights from vast biological datasets with precision and scalability. Pretraining models on CytoImageNet enhances performance in downstream tasks, setting a new standard for bioimage feature extraction.

This dataset is sourced from Kaggle.
DOI: 10.5281/zenodo.14854883
title: CytoImage Net Dataset

description: Description:







CytoImage Net Dataset is an extensive collection of microscopy images, carefully curated to aid in the development of fast and automated methods for analyzing biological data. With over 890,000 grayscale images spanning 894 diverse classes, it addresses the increasing demand for high-throughput image-based biological assays.

 







Download Dataset









Motivation:

As advancements in microscopy imaging fuel new discoveries, the challenge of processing large volumes of image data has grown significantly. CytoImageNet draws inspiration from ImageNet’s success in computer vision, offering a large-scale resource specifically for biological imaging. Pretraining deep learning models on CytoImageNet has demonstrated competitive performance, producing features optimized for microscopy classification tasks. The combination of CytoImageNet with ImageNet-based features now sets the benchmark for bioimage transfer learning.

Dataset Composition:

CytoImageNet comprises 890,737 grayscale microscopy images, divided across 894 classes, with approximately 1,000 images per class. These images span a broad range of biological contexts, including cell morphology, tissue structures, and organoid assays, sourced from major biological image repositories. Each image is weakly-labeled, ensuring scalability for various tasks while still maintaining biological relevance.

Why CytoImageNet Matters:

Pretraining on biological image data accelerates the development of models tailored for specific microscopy tasks, improving classification accuracy and interpretability in bioimage analysis. CytoImageNet not only enhances the capacity of models to extract meaningful biological information but also fosters innovation in areas like drug discovery, disease diagnosis, and biomedical research.

Key Features:



890,737 images, all grayscale and microscopy-focused.

894 distinct classes, approximately 1,000 images per class.

Curated from 40 open-access datasets, ensuring diverse biological representations.

Designed for bioimage pretraining, providing competitive features for transfer learning.

Incorporates both general and highly specific biological contexts, making it a versatile tool for various research applications.


CytoImageNet represents a new frontier in microscopy image analysis, empowering researchers to unlock insights from vast biological datasets with precision and scalability. Pretraining models on CytoImageNet enhances performance in downstream tasks, setting a new standard for bioimage feature extraction.

This dataset is sourced from Kaggle.
DOI: 10.15468/dl.nkgfbc
title: Occurrence Download

description: A dataset containing 70 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Malakichthys griseus Döderlein, 1883",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 70 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024751-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5t5t7m
title: Occurrence Download

description: A dataset containing 55 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gastrolobium nutans G.Chandler & Crisp"
 ]
}

 The dataset includes 55 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024753-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.89rddr
title: Occurrence Download

description: A dataset containing 325 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nothofagus glauca (Phil.) Krasser"
 ]
}

 The dataset includes 325 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024752-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t6ahgv
title: Occurrence Download

description: A dataset containing 1590 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Santalum spicatum (R.Br.) A.DC."
 ]
}

 The dataset includes 1590 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024754-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.equjff
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Malakichthys similis Yamanoue & Matsuura, 2004",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024755-250127130748423/datasets/export for details.
DOI: 10.15468/dl.y59tks
title: Occurrence Download

description: A dataset containing 34016 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pterocarpus officinalis Jacq."
 ]
}

 The dataset includes 34016 records from 163 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024756-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uhz887
title: Occurrence Download

description: A dataset containing 167 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pseudorca crassidens (Owen, 1846)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 167 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024757-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vm3p77
title: Occurrence Download

description: A dataset containing 1114 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Quercus arkansana Sarg."
 ]
}

 The dataset includes 1114 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024758-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s3sd39
title: Occurrence Download

description: A dataset containing 784 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acacia howittii F.Muell."
 ]
}

 The dataset includes 784 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024759-250127130748423/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.28397210
title: ZM4_haploid genome

description: The information of the ZM4 haploid genome of alfalfa. The raw data was uploaded to NGDC (CRA005190) and NCBI (PRJNA685277).Related paper: Evolutionary genomics of climatic adaptation and resilience to climate change in alfalfa
DOI: 10.15468/dl.9fm8aa
title: Occurrence Download

description: A dataset containing 1020 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nothofagus moorei (F.Muell.) Krasser"
 ]
}

 The dataset includes 1020 records from 50 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024760-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.