cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26030685.v1
title: Assessing the genetic diversity of taro germplasm collection in Vietnam using simple sequence repeat markers

description: This study evaluated the genetic diversity of 253 taro (<i>Colocasia esculenta</i> (L.) Schott) germplasm accessions collected in Vietnam at the molecular level using 20 Simple Sequence Repeat (SSR) markers. High genetic diversity in the taro germplasm accessions were detected with 100% polymorphic SSR loci, and 89 alleles were obtained at the 20 SSR loci with an average of 4.45 alleles per locus, of which 14 markers had high polymorphism (3 alleles/locus). Polymorphic Information Content (PIC) values obtained at 20 SSR loci ranged from 0.31 (Ce0078) to 0.85 (HK34), with an average of 0.65. The genetic similarity coefficient within the accessions ranged from 0.39 to 1.00. All 253 accessions were classified into 2 groups at a genetic similarity level of 0.60; one of the groups (group 2) was divided into 8 sub-groups at a genetic similarity level of 0.64. Some accessions (such as 28279 and SP-19-009; SP-19-061 and SP-19-023; 28278 and SP-19-006) with a high genetic similarity coefficient (1.00) showed a very close genetic relationship, while others (such as 10063 and 11544) with a low genetic similarity coefficient (0.39) showed a fairly distant genetic relationship. The study’s results provide a foundation for preserving and breeding taro in Vietnam. Five taro accessions (28211, SP-19-017, T.3578, T.3515, and 10098) carrying specific alleles that could be identified by 6 SSR markers (uq55–112, uq73–164, HK35, Ce0078, HK22, and HK31) were detected. Furthermore, the SSR marker approach showed the potential application in identifying genetic relationships and distinguishing different taro cultivars.
DOI: 10.15468/dl.mu9m8a
title: Occurrence Download

description: A dataset containing 1906 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Planococcus minor (Maskell, 1897)"
 ]
}

 The dataset includes 1906 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020855-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11528443
title: Tissue-aware interpretation of genetic variants advances the etiology of rare diseases

description: Pathogenic variants underlying Mendelian diseases often disrupt the normal physiology of afew tissues and organs. However, variant effect prediction tools that aim to identifypathogenic variants are typically oblivious to tissue contexts. Here we report a machine-learning framework, denoted ‘Tissue Risk Assessment of Causality by Expression forvariants’ (TRACEvar, https://netbio.bgu.ac.il/TRACEvar/), that offers two advancements.First, TRACEvar predicts pathogenic variants that disrupt the normal physiology of specifictissues. This was achieved by creating 14 tissue-specific models that were trained on over14,000 variants and combined 84 attributes of genetic variants with 495 attributes derivedfrom tissue omics. TRACEvar outperformed 10 well-established and tissue-oblivious varianteffect prediction tools. Second, the resulting models are interpretable, thereby illuminatingvariants' mode-of-action. Application of TRACEvar to variants of 52 rare-disease patientshighlighted pathogenicity mechanisms and relevant disease processes. Lastly, interpretationof large-scale models revealed that top-ranking determinants of pathogenicity includedattributes of disease-affected tissues, particularly cellular process activities. Hence, tissuecontexts and interpretable machine-learning models can greatly enhance the etiology of rarediseases.

Article link: https://www.embopress.org/doi/full/10.1038/s44320-024-00061-6

 
description: File 
Description


full_dataset_2_stars_2022.csv
training set




new_test_set_2023_diff.csv

 test set




full_dataset_2_stars_2023.csv

 full dataset




Relevant_Columns_Names_Edited_2.csv

 Column names for tissue-specific models




Transfer_Learning_Data_hg37.csv

 multi-tissue model data




Transfer_Learninig_Relevant_Columns_Names_Edited.csv

  multi-tissue column names
DOI: 10.5281/zenodo.5769154
title: Tissue-aware interpretation of genetic variants advances the etiology of rare diseases

description: Pathogenic variants underlying Mendelian diseases often disrupt the normal physiology of afew tissues and organs. However, variant effect prediction tools that aim to identifypathogenic variants are typically oblivious to tissue contexts. Here we report a machine-learning framework, denoted ‘Tissue Risk Assessment of Causality by Expression forvariants’ (TRACEvar, https://netbio.bgu.ac.il/TRACEvar/), that offers two advancements.First, TRACEvar predicts pathogenic variants that disrupt the normal physiology of specifictissues. This was achieved by creating 14 tissue-specific models that were trained on over14,000 variants and combined 84 attributes of genetic variants with 495 attributes derivedfrom tissue omics. TRACEvar outperformed 10 well-established and tissue-oblivious varianteffect prediction tools. Second, the resulting models are interpretable, thereby illuminatingvariants' mode-of-action. Application of TRACEvar to variants of 52 rare-disease patientshighlighted pathogenicity mechanisms and relevant disease processes. Lastly, interpretationof large-scale models revealed that top-ranking determinants of pathogenicity includedattributes of disease-affected tissues, particularly cellular process activities. Hence, tissuecontexts and interpretable machine-learning models can greatly enhance the etiology of rarediseases.

Article link: https://www.embopress.org/doi/full/10.1038/s44320-024-00061-6

 
description: File 
Description


full_dataset_2_stars_2022.csv
training set




new_test_set_2023_diff.csv

 test set




full_dataset_2_stars_2023.csv

 full dataset




Relevant_Columns_Names_Edited_2.csv

 Column names for tissue-specific models




Transfer_Learning_Data_hg37.csv

 multi-tissue model data




Transfer_Learninig_Relevant_Columns_Names_Edited.csv

  multi-tissue column names
DOI: 10.15468/dl.eyp37n
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Stefania breweri Barrio-Amorós & Fuentes-Ramos, 2003)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020856-240906103802322/datasets/export for details.
DOI: 10.15151/esrf-es-1773240928
title: IBS BAG

description: The IBS BAG includes in this proposal IBS teams and external groups from CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study structure-function relationships of proteins emphasizing in human health, biotechnology and methodology. Most of the projects are a continuation of the MX-2498 proposal and can be grouped into different topics as follows: host-pathogen interaction, new therapy targets, fundamental cellular mechanisms, membrane proteins, biotechnological applications and methodology. Some of these projects use integrative approaches (X-ray crystallography, cryo-EM, SAXS and NMR), together with other biophysical and biochemical studies, and very recently the use of AI, with the aim to fully understand the complexity of the biological macromolecular systems under study.
DOI: 10.15151/esrf-es-1777076476
title: PROTEINS RELATED TO PATHOGENESIS OF DISEASES, VIRAL PROTEINS, CELL DIVISION, SIGNALLING AND CHROMATIN PROCESSES

description: The outstanding research questions of our BAG focus on proteins and their complexes involved in a variety of processes, ranging from cell homeostasis (from gene regulation to folding quality control, from energy metabolism to signal transduction) to communication and surface recognition (including trans-interactions between cell adhesion molecules, components of the extracellular matrix weaving, as well as antigen-antibody interactions for vaccine development and optimization). Key to several projects is the characterization of the mechanisms associated to enzyme function in various organisms, including bacteria, viruses, plants, animals and humans for downstream drug discovery campaigns. Emphasis is also given to research focusing on engineering protein and enzymes for future industrial applications, as well as to understand the impact of pathogenic mutations on protein structures, providing a genotype-to-molecular phenotype rationale to disease development.
DOI: 10.15151/esrf-es-1875463201
title: Investigating the structures and mechanical responses of common construction and exotic woods

description: Wood species such as the softwoods pine, spruce and fir, and hardwoods such as oak are commonplace woods used in construction across the world. In Asia especially, the use of wood-analogues such as bamboo and coconut are also commonly used. This experiment aims to primarily catalogue the structures of these natural composite materials with high-resolution propagation-based X-ray microtomography, as well as similarly catalogue rarer or more exotic wood species. The commonplace woods will also be subjected to 3-point bending in-situ in order to characterise their mechanical properties in view of their respective structures .
DOI: 10.15151/esrf-es-1882074816
title: Chemical characterization of degradation products in bio-degradable coronary magnesium stents.

description: Bioresorbable magnesium stents are a promising future treatment for coronary artery stenosis. However, even after decades of development, the degradation process, ideal degradation time and biological response in vivo are still not fully understood. The degradation products, such as hydroxides, phosphates, and carbonates, delay the corrosion through the formation of corrosion fronts. We will study the chemistry of these fronts using Ca K-edge µ XANES spectroscopy. Furthermore, Mg is alloyed with rare earth elements to improve the mechanical and corrosion properties. These elements accumulate as so-called intermetallic particles, due to their slower degradation compared to the matrix material, with unknown systemic toxicological effects. Thus, we will investigate a common and promising Mg alloy and determine the particle composition and if they completely corrode before exiting the corrosion layer, or if they are incorporated into the surrounding tissue through µXRF.
DOI: 10.15151/esrf-es-1917479415
title: Investigating the Strain Variation in SiGeSn

description: Quantum Devices are often manufactured using semiconductor heterestructures. It is important to study the variations of strain in these devices to get a better understanding of the strain effects on functionality.
DOI: 10.15468/dl.d2273m
title: Occurrence Download

description: A dataset containing 20850 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Macrophyte Lake Data"
 ]
}

 The dataset includes 20850 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020857-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ekmu4b
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis culatensis (La Marca, 2007))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020859-240906103802322/datasets/export for details.
DOI: 10.15468/dl.dgszcq
title: Occurrence Download

description: A dataset containing 1107 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Oreophasis derbianus G.R.Gray, 1844"
 ]
}

 The dataset includes 1107 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020860-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c762cg
title: Occurrence Download

description: A dataset containing 467 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Romerolagus diazi (Ferrari-Pérez, 1893)"
 ]
}

 The dataset includes 467 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020861-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.baqjdj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis jabonensis (La Marca, 2007))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020862-240906103802322/datasets/export for details.
DOI: 10.34965/i32611
title: 20225031-4
DOI: 10.15468/dl.dq9bhg
title: Occurrence Download

description: A dataset containing 49 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis thyellus (La Marca, 2007), Pristimantis lirellus (Dwyer, 1995))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 49 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020863-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r85nry
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis flabellidiscus (La Marca, 2007))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020864-240906103802322/datasets/export for details.
DOI: 10.5281/zenodo.13760700
title: Concern Deviation: Advancing Cohesion Estimation with LLM-Derived Embeddings
DOI: 10.5281/zenodo.13759086
title: Concern Deviation: Advancing Cohesion Estimation with LLM-Derived Embeddings
DOI: 10.5281/zenodo.13759087
title: Concern Deviation: Advancing Cohesion Estimation with LLM-Derived Embeddings
DOI: 10.5281/zenodo.13761727
title: Concern Deviation: Advancing Cohesion Estimation with LLM-Derived Embeddings
DOI: 10.5281/zenodo.13777344
title: Concern Deviation: Advancing Cohesion Estimation with LLM-Derived Embeddings
DOI: 10.15468/dl.fxbcfa
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Ceuthomantis aracamuni (Barrio-Amorós & Molina, 2006))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020865-240906103802322/datasets/export for details.
DOI: 10.15468/dl.6y8j7p
title: Occurrence Download

description: A dataset containing 146624 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Plants of Papua New Guinea"
 ]
}

 The dataset includes 146624 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020841-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jmh3t9
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Allobates caribe (Barrio-Amorós, Rivas-Fuenmayor & Kaiser, 2006))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020867-240906103802322/datasets/export for details.
DOI: 10.15468/dl.a7wtq3
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis rhigophilus (La Marca, 2007))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020868-240906103802322/datasets/export for details.
DOI: 10.15468/dl.636b4r
title: Occurrence Download

description: A dataset containing 114 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Marine Fishes and Shell Fishes of the Nigerian Coastal Environments"
 ]
}

 The dataset includes 114 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020869-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qe894w
title: Occurrence Download

description: A dataset containing 1863 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Leopardus pardalis (Linnaeus, 1758)"
 ]
}

 The dataset includes 1863 records from 78 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020870-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.usrdcc
title: Occurrence Download

description: A dataset containing 346 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Korea, Republic of, Korea (Democratic People’s Republic of), China)",
 "TaxonKey is Thuja koraiensis Nakai"
 ]
}

 The dataset includes 346 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020871-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6r7rd7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Mannophryne trujillensis Vargas Galarce & La Marca, 2007)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020872-240906103802322/datasets/export for details.
DOI: 10.15468/dl.p2ngvh
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Romerolagus diazi (Ferrari-Pérez, 1893)"
 ]
}

 The dataset's 1 records were derived from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020858-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a67e55
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis fasciatus Barrio-Amorós, Rojas-Runjaic & Infante-Rivero, 2008)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020873-240906103802322/datasets/export for details.
DOI: 10.15468/dl.6uxs4v
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis muchimuk Barrio-Amorós, Mesa, Brewer-Carías & McDiarmid, 2010)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020875-240906103802322/datasets/export for details.
DOI: 10.6084/m9.figshare.27049285
title: Hourly carbon emission factors of 31 provinces and cities in China from 2025 to 2060

description: Hourly carbon emission factors of 31 provinces and cities in China from 2025 to 2060
DOI: 10.15468/dl.wz92wk
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cryptobatrachus remotus Infante-Rivero, Rojas-Runjaic & Barrio-Amorós, 2009)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020876-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5283/epub.54535
title: Data archive of "Imperfect Many-Body Localization in Exchange-Disordered Isotropic Spin Chains"

description: abstract of the article: 
We investigate many-body localization in isotropic Heisenberg spin chains with the local exchange parameters being subject to quenched disorder. Such systems incorporate a nonabelian symmetry in their Hamiltonian by an invariance under global SU(2)-rotations. Nonabelian symmetries are predicted to hinder the emergence of a many-body localized phase even in presence of strong disorder. We report on numerical studies using exact diagonalization for chains of common spin length 1/2 and 1. The averaged consecutive-gap ratios display a transition compatible with a crossover from an ergodic phase at small disorder strength to an incompletely localized phase at stronger disorder. The sample-to-sample variance of the averaged consecutive-gap ratio displays a maximum at the transition and distinguishes the incompletely localized phase from a fully many-body localized phase by its scaling behavior.
DOI: 10.15468/dl.rjdd4k
title: Occurrence Download

description: A dataset containing 1877 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "DatasetKey is Odonata de la huasteca potosina (insecta)"
 ]
}

 The dataset includes 1877 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020878-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c3n587
title: Occurrence Download

description: A dataset containing 527 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Abronia graminea (Cope, 1864)"
 ]
}

 The dataset includes 527 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020877-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.