cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22310118
title: m6A RNA methylation modification is involved in the disease course of heart failure

description: We explored <i>N</i><sup>6</sup>-methyladenosine (m6A) RNA methylation as one of the gene regulatory mechanisms in heart failure (HF) biology. Understanding the different physiological mechanisms will facilitate the prevention and individualized treatment of HF. The Gene Expression Omnibus (GEO) database served as the source of the data. In GSE116250, differential analysis between ischemic cardiomyopathy (ICM), dilated cardiomyopathy (DCM) and controls yielded differentially expressed m6A regulators. Differential analysis between HF and controls in GSE131296 identifies m6A-modified genes and then performs enrichment analysis. Protein–protein interaction (PPI) network analysis was performed for the differentially expressed ICM- or DCM-associated genes in GSE116250 and GSE55296, respectively. Finally, the diagnostic genes for ICM and DCM were predicted using receiver operating characteristic (ROC) curve. YTHDC1, HNRNPC and HNRNPA2B1 were significantly downregulated in GSE116250 in DCM and ICM compared with controls. A total of 195 genes were identified in GSE131296 as subject to m6A alteration. These genes may play a role in HF through the MAPK signaling pathway and p53 signaling pathway. PPI network analysis identified <i>CCL5</i>, <i>CXCR4</i> and <i>CCL2</i> as key genes for ICM and <i>IL-6</i> as a key gene for DCM. Through ROC curves, we identified m6A-modified <i>APLP1</i>, <i>KLF2</i> as potential diagnostic genes for ICM, and m6A-modified <i>FGF7</i>, <i>FREM1</i> and <i>C14orf132</i> as potential diagnostic genes for DCM. Our findings support m6A modifying mechanisms in HF etiology that contribute to the treatment of HF. Thus, our data suggest that m6A methylation may be an interesting target for therapeutic intervention.
DOI: 10.6084/m9.figshare.22310118.v1
title: m6A RNA methylation modification is involved in the disease course of heart failure

description: We explored <i>N</i><sup>6</sup>-methyladenosine (m6A) RNA methylation as one of the gene regulatory mechanisms in heart failure (HF) biology. Understanding the different physiological mechanisms will facilitate the prevention and individualized treatment of HF. The Gene Expression Omnibus (GEO) database served as the source of the data. In GSE116250, differential analysis between ischemic cardiomyopathy (ICM), dilated cardiomyopathy (DCM) and controls yielded differentially expressed m6A regulators. Differential analysis between HF and controls in GSE131296 identifies m6A-modified genes and then performs enrichment analysis. Protein–protein interaction (PPI) network analysis was performed for the differentially expressed ICM- or DCM-associated genes in GSE116250 and GSE55296, respectively. Finally, the diagnostic genes for ICM and DCM were predicted using receiver operating characteristic (ROC) curve. YTHDC1, HNRNPC and HNRNPA2B1 were significantly downregulated in GSE116250 in DCM and ICM compared with controls. A total of 195 genes were identified in GSE131296 as subject to m6A alteration. These genes may play a role in HF through the MAPK signaling pathway and p53 signaling pathway. PPI network analysis identified <i>CCL5</i>, <i>CXCR4</i> and <i>CCL2</i> as key genes for ICM and <i>IL-6</i> as a key gene for DCM. Through ROC curves, we identified m6A-modified <i>APLP1</i>, <i>KLF2</i> as potential diagnostic genes for ICM, and m6A-modified <i>FGF7</i>, <i>FREM1</i> and <i>C14orf132</i> as potential diagnostic genes for DCM. Our findings support m6A modifying mechanisms in HF etiology that contribute to the treatment of HF. Thus, our data suggest that m6A methylation may be an interesting target for therapeutic intervention.
DOI: 10.15468/dl.gqvape
title: Occurrence Download

description: A dataset containing 87 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Castanopsis concinna (Champ. ex Benth.) A.DC."
 ]
}

 The dataset includes 87 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027749-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7y7dc2
title: Occurrence Download

description: A dataset containing 67327 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Capra hircus Linnaeus, 1758",
 "Year 1972-2024"
 ]
}

 The dataset includes 67327 records from 165 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027750-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.umbsjp
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heleophryne hewitti Boycott, 1988"
 ]
}

 The dataset includes 16 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027752-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.du4cqh
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heleophryne hewitti Boycott, 1988"
 ]
}

 The dataset includes 16 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027751-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wuwsjg
title: Occurrence Download

description: A dataset containing 112206 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is University of Vienna, Institute for Botany - Herbarium WU"
 ]
}

 The dataset includes 112206 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027740-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.26186/149323
title: Geological and petrophysical appraisal of residual oil zones in onshore Australian basins

description: Geoscience Australia and CSIRO have collaborated, under the Exploring for the Future program, to investigate whether water-saturated residual oil zones (ROZs), sometimes associated with conventional Australian hydrocarbon plays, could provide a CO2 storage resource and enhance the storage capacity of depleted fields. This product is part of a larger project that includes, among others, a reservoir modelling component. This report focuses on our petrophysical module of work that investigated the occurrence and character of ROZs in onshore Australian basins. Our findings demonstrate that ROZs occur in Australia’s hydrocarbon-rich regions, particularly in the Cooper-Eromanga Basin. ROZs with more than 10% residual oil saturation are uncommon, likely due to small original oil columns and lower residual saturations retained in sandstone reservoirs than in classic, carbonate-hosted North American ROZs. Extensive, reservoir-quality rock is found below the deepest occurring conventional oil in many of the fields in the Eromanga Basin, potentially offering significant CO2 storage capacity. For more information about this project and to access the related studies and products, see: https://www.eftf.ga.gov.au/carbon-co2-storage-residual-oil-zones. <br>
DOI: 10.26186/149366
title: Modelling CO2 EOR-storage in Residual Oil Zones

description: Geoscience Australia and CSIRO have collaborated, under the Exploring for the Future program, to investigate whether water-saturated residual oil zones (ROZs), sometimes associated with conventional Australian hydrocarbon plays, could provide a CO2 storage resource and enhance the storage capacity of depleted fields. This product is part of a larger project that includes, among others, a petrophysical study to identify and characterise ROZs. In this report, we model the formation of a residual oil zone in an Australian setting and the subsequent injection of CO2 using a 5 spot well pattern. The reservoir is built as an archetype example of the Hutton Formation from the Cooper-Eromanga basin. The reservoir interval is populated with "permeable sandstone” and “impermeable baffle” facies and a sealing layer at the top of the model is created and assigned properties such that it can be made to leak oil by capillary failure, as part of the process used to create a residual oil column. The static model is them imported into CMG-GEM software for the reservoir flow simulations. We find the scenario, with injectors perforated at the top and a central producing well perforated at the bottom, able to both store the most CO2 and produce the most oil. The storage and sweep efficiencies are high, highlighting the difference with typical CO2 storage scenarios without pressure mitigation.For more information about this project and to access the related studies and products, see: https://www.eftf.ga.gov.au/carbon-co2-storage-residual-oil-zones. 

<b>Data is available on request from clientservices@ga.gov.au - Quote eCat# 149366</b>
DOI: 10.15468/dl.j9pn3k
title: Occurrence Download

description: A dataset containing 131 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heleophryne orientalis FitzSimons, 1946"
 ]
}

 The dataset includes 131 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027753-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ay4r9w
title: Occurrence Download

description: A dataset containing 5948 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Spain",
 "OccurrenceStatus is Present",
 "TaxonKey is Emberiza hortulana Linnaeus, 1758",
 "Year 2019-2024"
 ]
}

 The dataset includes 5948 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027754-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ups8cz
title: Occurrence Download

description: A dataset containing 376 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heleophryne purcelli Sclater, 1898"
 ]
}

 The dataset includes 376 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027755-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u4ry5a
title: Occurrence Download

description: A dataset containing 212 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Spain",
 "OccurrenceStatus is Present",
 "TaxonKey is Estrilda troglodytes (Lichtenstein, 1823)",
 "Year 2019-2024"
 ]
}

 The dataset includes 212 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027756-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6hnbj7
title: Occurrence Download

description: A dataset containing 609 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Nepal, India, Bhutan, Pakistan, Afghanistan)",
 "TaxonKey is Quercus semecarpifolia Sm."
 ]
}

 The dataset includes 609 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027757-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qet8ms
title: Occurrence Download

description: A dataset containing 761311 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is CSIC-Real Jardín Botánico-Colección de Plantas Vasculares (MA)"
 ]
}

 The dataset includes 761311 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027743-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7ut6vd
title: Occurrence Download

description: A dataset containing 2842683 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Royal Botanic Gardens, Kew - Herbarium Specimens"
 ]
}

 The dataset includes 2842683 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027745-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9ssvds
title: Occurrence Download

description: A dataset containing 625 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((12.65256 36.07552,31.13537 36.07552,31.13537 47.32416,22.75143 47.32204,12.65256 47.32416,12.65256 42.27238,12.65256 36.07552))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Picoides tridactylus (Linnaeus, 1758)"
 ]
}

 The dataset includes 625 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0130746-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.arxvrk
title: Occurrence Download

description: A dataset containing 45 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-244.01529 7.45643,-239.05598 7.45643,-239.05598 12.45567,-244.01529 12.45567,-244.01529 7.45643))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Cacatua haematuropygia (Statius Muller, 1776)"
 ]
}

 The dataset includes 45 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027758-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cnvm9b
title: Occurrence Download

description: A dataset containing 107 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heleophryne regis Hewitt, 1910"
 ]
}

 The dataset includes 107 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027759-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rfq7uj
title: Occurrence Download

description: A dataset containing 80 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Spain",
 "OccurrenceStatus is Present",
 "TaxonKey is Estrilda melpoda (Vieillot, 1817)",
 "Year 2019-2024"
 ]
}

 The dataset includes 80 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027760-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ss7atj
title: Occurrence Download

description: A dataset containing 3222 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lexias pardalis"
 ]
}

 The dataset includes 3222 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027761-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d39ueh
title: Occurrence Download

description: A dataset containing 98 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heleophryne rosei Hewitt, 1925"
 ]
}

 The dataset includes 98 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027762-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aqsqmg
title: Occurrence Download

description: A dataset containing 27431 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Spain",
 "OccurrenceStatus is Present",
 "TaxonKey is Coccothraustes coccothraustes (Linnaeus, 1758)",
 "Year 2019-2024"
 ]
}

 The dataset includes 27431 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027763-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bdmcg7
title: Occurrence Download

description: A dataset containing 504 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is A revision of Xylopia L. (Annonaceae): the species of Madagascar and the Mascarene islands"
 ]
}

 The dataset includes 504 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027764-240906103802322/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.27093895
title: Impact of tropical cyclones on sediment dynamics over the inner shelf of the East China Sea: path stripping and superposition

description: The dataset comprises modeling results of sediment dynamics in the East China Sea under the impact of tropical cyclones with varying paths.
DOI: 10.15468/dl.ngw63y
title: Occurrence Download

description: A dataset containing 155 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Flectonotus fitzgeraldi (Parker, 1934)"
 ]
}

 The dataset includes 155 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027765-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bc5q2f
title: Occurrence Download

description: A dataset containing 1343 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Castanopsis indica (Roxb. ex Lindl.) A.DC."
 ]
}

 The dataset includes 1343 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027766-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wtu4pr
title: Occurrence Download

description: A dataset containing 77 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Hemilophia rockii O.E.Schulz, Hymenidium foetens (Franch.) Pimenov & Kljuykov)",
 "Continent is Asia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 77 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027767-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13831774
title: scCDC: a computational method for gene-specific contamination detection and correction in single-cell and single-nucleus RNA-seq data

description: In droplet-based single-cell and single-nucleus RNA-seq assays, systematic contamination of ambient RNA molecules biases the quantification of gene expression levels. Existing methods correct the contamination for all genes globally. However, specific evaluation for different contamination levels is lacking. Here, we show that DecontX and CellBender under-correct highly-contaminating genes, while SoupX and scAR over-correct lowly-/non-contaminating genes. Here, we develop scCDC as the first method to detect the contamination-causing genes and only correct expression levels of these genes, some of which are cell-type markers. Compared with existing decontamination methods, scCDC excels in decontaminating highly-contaminating genes while avoiding over-correction of other genes.
DOI: 10.5281/zenodo.6905188
title: scCDC: a computational method for gene-specific contamination detection and correction in single-cell and single-nucleus RNA-seq data

description: In droplet-based single-cell and single-nucleus RNA-seq assays, systematic contamination of ambient RNA molecules biases the quantification of gene expression levels. Existing methods correct the contamination for all genes globally. However, specific evaluation for different contamination levels is lacking. Here, we show that DecontX and CellBender under-correct highly-contaminating genes, while SoupX and scAR over-correct lowly-/non-contaminating genes. Here, we develop scCDC as the first method to detect the contamination-causing genes and only correct expression levels of these genes, some of which are cell-type markers. Compared with existing decontamination methods, scCDC excels in decontaminating highly-contaminating genes while avoiding over-correction of other genes.
DOI: 10.5281/zenodo.6905189
title: scCDC: a computational method for gene-specific contamination detection and correction in single-cell and single-nucleus RNA-seq data

description: In droplet-based single-cell and single-nucleus RNA-seq assays, systematic contamination of ambient RNA molecules biases the quantification of gene expression levels. Existing methods correct the contamination for all genes globally. However, specific evaluation for different contamination levels is lacking. Here, we show that DecontX and CellBender under-correct highly-contaminating genes, while SoupX and scAR over-correct lowly-/non-contaminating genes. Here, we develop scCDC as the first method to detect the contamination-causing genes and only correct expression levels of these genes, some of which are cell-type markers. Compared with existing decontamination methods, scCDC excels in decontaminating highly-contaminating genes while avoiding over-correction of other genes.
DOI: 10.5281/zenodo.13831851
title: Topology generation and quantitative stiffness analysis for fiber networks based on disordered spatial truss
DOI: 10.5281/zenodo.13831852
title: Topology generation and quantitative stiffness analysis for fiber networks based on disordered spatial truss
DOI: 10.15468/dl.ymgbh7
title: Occurrence Download

description: A dataset containing 201 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Flectonotus pygmaeus (Boettger, 1893)"
 ]
}

 The dataset includes 201 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027768-240906103802322/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.26244017.v1
title: Ultrafast switching of trion emitters in 2D materials

description: Data sets for each individual figure panel as well as the codes used for data analysis