cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19114470.v2
title: Human hepatocyte-enriched miRNA-192-3p promotes HBV replication through inhibiting Akt/mTOR signalling by targeting ZNF143 in hepatic cell lines

description: Previous studies have revealed multiple tissue- or cell-specific or enriched miRNA profiles. However, miRNA profiles enriched in hepatic cell types and their effect on HBV replication have not been well elucidated. In this study, primary human hepatocytes (PHHs), Kupffer cells (KCs), liver sinusoidal endothelial cells (LSECs), and hepatic stellate cells (HSCs) were prepared from liver specimens of non-HBV-infected patients. Four hepatic cell type-enriched miRNA profiles were identified from purified liver cells miRNA microarray assay. The results revealed that 12 miRNAs, including miR-122-5p and miR-192-3p were PHH-enriched; 9 miRNAs, including miR-142-5p and miR-155-5p were KC-enriched; 6 miRNAs, including miR-126-3p and miR-222-3p were LSEC-enriched; and 14 miRNAs, including miR-214-3p and miR-199a-3p were HSC-enriched. By testing the effect of 11 PHH-enriched miRNAs on HBV production, we observed that miR-192-3p had the greatest pro-virus effect in hepatic cell lines. Moreover, we further found that miR-192-3p promoted HBV replication and gene expression through inhibiting Akt/mTOR signalling by direct targeting of ZNF143 in HepG2.2.15 cells. Additionally, the serum and hepatic miR-192-3p expression levels were significantly higher in chronic hepatitis B patients than in healthy controls and serum miR-192-3p positively correlated with the serum levels of HBV DNA and HBsAg. Collectively, we identified miRNA profiles enriched in four hepatic cell types and revealed that PHH-enriched miR-192-3p promoted HBV replication through inhibiting Akt/mTOR signalling by direct targeting of ZNF143 in hepatic cell lines. Our study provides a specific perspective for the role of hepatic cell type-enriched miRNA in interaction with viral replication and various liver pathogenesis.
DOI: 10.6084/m9.figshare.19114470
title: Human hepatocyte-enriched miRNA-192-3p promotes HBV replication through inhibiting Akt/mTOR signalling by targeting ZNF143 in hepatic cell lines

description: Previous studies have revealed multiple tissue- or cell-specific or enriched miRNA profiles. However, miRNA profiles enriched in hepatic cell types and their effect on HBV replication have not been well elucidated. In this study, primary human hepatocytes (PHHs), Kupffer cells (KCs), liver sinusoidal endothelial cells (LSECs), and hepatic stellate cells (HSCs) were prepared from liver specimens of non-HBV-infected patients. Four hepatic cell type-enriched miRNA profiles were identified from purified liver cells miRNA microarray assay. The results revealed that 12 miRNAs, including miR-122-5p and miR-192-3p were PHH-enriched; 9 miRNAs, including miR-142-5p and miR-155-5p were KC-enriched; 6 miRNAs, including miR-126-3p and miR-222-3p were LSEC-enriched; and 14 miRNAs, including miR-214-3p and miR-199a-3p were HSC-enriched. By testing the effect of 11 PHH-enriched miRNAs on HBV production, we observed that miR-192-3p had the greatest pro-virus effect in hepatic cell lines. Moreover, we further found that miR-192-3p promoted HBV replication and gene expression through inhibiting Akt/mTOR signalling by direct targeting of ZNF143 in HepG2.2.15 cells. Additionally, the serum and hepatic miR-192-3p expression levels were significantly higher in chronic hepatitis B patients than in healthy controls and serum miR-192-3p positively correlated with the serum levels of HBV DNA and HBsAg. Collectively, we identified miRNA profiles enriched in four hepatic cell types and revealed that PHH-enriched miR-192-3p promoted HBV replication through inhibiting Akt/mTOR signalling by direct targeting of ZNF143 in hepatic cell lines. Our study provides a specific perspective for the role of hepatic cell type-enriched miRNA in interaction with viral replication and various liver pathogenesis.
DOI: 10.21233/3c9h-rc45
title: Lummis Mill Pond water chemistry dataset

description: Raw data for the Lummis Mill Pond water chemistry dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.6084/m9.figshare.18858166
title: hnRNP C modulates MERS-CoV and SARS-CoV-2 replication by governing the expression of a subset of circRNAs and cognitive mRNAs

description: Host circular RNAs (circRNAs) play critical roles in the pathogenesis of viral infections. However, how viruses modulate the biogenesis of host proviral circRNAs to facilitate their replication remains unclear. We have recently shown that Middle East respiratory syndrome coronavirus (MERS-CoV) infection increases co-expression of circRNAs and their cognate messenger RNAs (mRNAs), possibly by hijacking specific host RNA binding proteins (RBPs). In this study, we systemically analysed the interactions between the representative circRNA–mRNA pairs upregulated upon MERS-CoV infection and host RBPs. Our analysis identified heterogeneous nuclear ribonucleoprotein C (hnRNP C) as a key host factor that governed the expression of numerous MERS-CoV-perturbed circRNAs, including hsa_circ_0002846, hsa_circ_0002061, and hsa_circ_0004445. RNA immunoprecipitation assay showed that hnRNP C could bind physically to these circRNAs. Specific knockdown of hnRNP C by small interfering RNA significantly (<i>P</i> &lt; 0.05 to <i>P</i> &lt; 0.0001) suppressed MERS-CoV replication in human lung adenocarcinoma (Calu-3) and human small airway epithelial (HSAEC) cells. Both MERS-CoV and severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection increased the total and phosphorylated forms of hnRNP C to activate the downstream CRK-mTOR pathway. Treatment of MERS-CoV- (IC<sub>50</sub>: 0.618 µM) or SARS-CoV-2-infected (IC<sub>50</sub>: 1.233 µM) Calu-3 cells with the mTOR inhibitor OSI-027 resulted in significantly reduced viral loads. Collectively, our study identified hnRNP C as a key regulator of MERS-CoV-perturbed circRNAs and their cognate mRNAs, and the potential of targeting hnRNP C-related signalling pathways as an anticoronaviral strategy.
DOI: 10.6084/m9.figshare.18858166.v1
title: hnRNP C modulates MERS-CoV and SARS-CoV-2 replication by governing the expression of a subset of circRNAs and cognitive mRNAs

description: Host circular RNAs (circRNAs) play critical roles in the pathogenesis of viral infections. However, how viruses modulate the biogenesis of host proviral circRNAs to facilitate their replication remains unclear. We have recently shown that Middle East respiratory syndrome coronavirus (MERS-CoV) infection increases co-expression of circRNAs and their cognate messenger RNAs (mRNAs), possibly by hijacking specific host RNA binding proteins (RBPs). In this study, we systemically analysed the interactions between the representative circRNA-mRNA pairs upregulated upon MERS-CoV infection and host RBPs. Our analysis identified heterogeneous nuclear ribonucleoprotein C (hnRNP C) as a key host factor which governed the expression of numerous MERS-CoV-perturbed circRNAs, including hsa_circ_0002846, hsa_circ_0002061, and hsa_circ_0004445. RNA immunoprecipitation assay showed that hnRNP C could bind physically to these circRNAs. Specific knockdown of hnRNP C by small interfering RNA significantly (P &lt; 0.05 to P &lt; 0.0001) suppressed MERS-CoV replication in human lung adenocarcinoma (Calu-3) and human small airway epithelial (HSAEC) cells. Both MERS-CoV and severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection increased the total and phosphorylated forms of hnRNP C to activate the downstream CRK-mTOR pathway. Treatment of MERS-CoV- (IC<sub>50</sub>: 0.618 µM) or SARS-CoV-2-infected (IC<sub>50</sub>: 1.233 µM) Calu-3 cells with the mTOR inhibitor OSI-027 resulted in significantly reduced viral loads. Collectively, our study identified hnRNP C as a key regulator of MERS-CoV-perturbed circRNAs and their cognate mRNAs, and the potential of targeting hnRNP C-related signalling pathways as an anticoronaviral strategy.
DOI: 10.21233/g6mc-qb85
title: Aucilla River IA vertebrate fauna dataset

description: Raw data for the Aucilla River IA vertebrate fauna dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.15468/dl.yh74dp
title: Occurrence Download

description: A dataset containing 476 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dendroctonus pseudotsugae Hopkins, 1905"
 ]
}

 The dataset includes 476 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026542-250426092105405/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.28012314
title: Finding of antibiotic compounds pyrrolo [1,2-a]pyrazine-1,4-dione, hexahydro and Cyclo(prolyl-tyrosyl) isolated from the degradation of epoxy

description: The investigation focused on the endophytic gram-positive microbial isolate KARE_P3, capable of degrading epoxy resin materials. This isolate produced bioactive secondary metabolic molecules with potent inhibitory effects against <i>Staphylococcus aureus</i>, Microbial Type Culture Collection and GenBank (MTCC 96). The study examined microbial growth and degradation mechanisms at various time points, with samples collected on the 35th and 70th days of fermentation. Three different solvents were used for extraction, and the crude metabolite was analysed using Thin Layer Chromatography (TLC), Gas Chromatography – Mass Spectrophotometry (GC-MS), Minimum Inhibitory Concentration (MIC) and Minimum Bactericidal Concentration (MBC). These analyses revealed numerous secondary metabolites that help microbes adapt to changing environments. Further characterisation using bioautography and GC-MS identified 71 compounds, with 3–5 showing positive results. Important findings include compounds such as pyrrolo[1,2-a]pyrazine-1,4-dione, hexahydro 98% and Cyclo(prolyl-tyrosyl), which have diverse pharmaceutical applications. Antibacterial efficiency was studied using an in silico model, showing higher binding energy and inhibition rates of pyrrolo[1,2-a]pyrazine-1,4-dione and Cyclo(prolyl-tyrosyl) against Candida albicans compared to Staphylococcus epidermis. Challenges remain in the efficient sorting, recycling, and recovery of epoxy materials, crucial for future biotechnological progress.
DOI: 10.6084/m9.figshare.28012314.v1
title: Finding of antibiotic compounds pyrrolo [1,2-a]pyrazine-1,4-dione, hexahydro and Cyclo(prolyl-tyrosyl) isolated from the degradation of epoxy

description: The investigation focused on the endophytic gram-positive microbial isolate KARE_P3, capable of degrading epoxy resin materials. This isolate produced bioactive secondary metabolic molecules with potent inhibitory effects against <i>Staphylococcus aureus</i>, Microbial Type Culture Collection and GenBank (MTCC 96). The study examined microbial growth and degradation mechanisms at various time points, with samples collected on the 35th and 70th days of fermentation. Three different solvents were used for extraction, and the crude metabolite was analysed using Thin Layer Chromatography (TLC), Gas Chromatography – Mass Spectrophotometry (GC-MS), Minimum Inhibitory Concentration (MIC) and Minimum Bactericidal Concentration (MBC). These analyses revealed numerous secondary metabolites that help microbes adapt to changing environments. Further characterisation using bioautography and GC-MS identified 71 compounds, with 3–5 showing positive results. Important findings include compounds such as pyrrolo[1,2-a]pyrazine-1,4-dione, hexahydro 98% and Cyclo(prolyl-tyrosyl), which have diverse pharmaceutical applications. Antibacterial efficiency was studied using an in silico model, showing higher binding energy and inhibition rates of pyrrolo[1,2-a]pyrazine-1,4-dione and Cyclo(prolyl-tyrosyl) against Candida albicans compared to Staphylococcus epidermis. Challenges remain in the efficient sorting, recycling, and recovery of epoxy materials, crucial for future biotechnological progress.
DOI: 10.21233/0tet-qc41
title: ALBI42 pollen surface sample dataset

description: Raw data for the ALBI42 pollen surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/n42k-r116
title: Midnight Pond diatom surface sample dataset

description: Raw data for the Midnight Pond diatom surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/reex-5x40
title: Lingreville pollen dataset

description: Raw data for the Lingreville pollen dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.15468/dl.2hdn2w
title: Occurrence Download

description: A dataset containing 5952 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Spodoptera frugiperda J.E.Smith, 1797",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 2000",
 "CoordinateUncertaintyInMeters is null"
 ]
 },
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Machine Observation, Unknown evidence)"
 ]
 }
 }
 ]
}

 The dataset includes 5952 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026544-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.21233/9eps-pb34
title: Campbell Lake water chemistry dataset

description: Raw data for the Campbell Lake water chemistry dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/jbyr-0747
title: West Hill Pond diatom surface sample dataset

description: Raw data for the West Hill Pond diatom surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.15468/dl.96zrha
title: Occurrence Download

description: A dataset containing 6075 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Frankliniella occidentalis (Pergande, 1895), Frankliniella occidentalis brunnescens Priesner, 1932, Frankliniella occidentalis dubia Priesner, 1932)"
 ]
}

 The dataset includes 6075 records from 53 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026543-250426092105405/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.28404607.v1
title: Renewable prediction of model averaging in the Cox proportional hazards model with streaming data

description: Survival predictions for individuals are increasingly crucial in both clinical practice and survival analysis. Recognizing the pivotal role of model averaging in enhancing prediction accuracy, we address the computational challenges posed by large streams of survival data. Traditional approaches become impractical as they necessitate access to all observations at each accumulation point. To overcome the issue, we introduce online updating model averaging methods tailored for predicting individual survival under the Cox proportional hazards model. We develop renewable estimation techniques for submodel parameters within the context of streaming survival data. Based on a penalized likelihood function, we propose online updating approaches to obtain the renewable estimators of weights. The log-ratio transformation technique is adopted to address the constraint problem of weights. Abundant simulation studies are conducted to illustrate the performance of our proposed renewable model averaging methods in terms of both computational efficiency and prediction accuracy in streaming survival data. Additionally, we demonstrate the superiority of the proposed methodologies by analyzing a substantial lung cancer dataset from the Surveillance, Epidemiology, and End Results program.
DOI: 10.21233/yxc3-et48
title: Tule Lake [Tule Lake Sump 1] diatom dataset

description: Raw data for the Tule Lake [Tule Lake Sump 1] diatom dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/7a92-h333
title: La Baña E pollen dataset

description: Raw data for the La Baña E pollen dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.15468/dl.ewgrw8
title: Occurrence Download

description: A dataset containing 31 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Trachylepis gonwouoi Allen, Tapondjou, Welton & Bauer, 2017"
 ]
}

 The dataset includes 31 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026545-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.21233/hh2v-0j36
title: Irondale River ostracode surface sample dataset

description: Raw data for the Irondale River ostracode surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.15468/dl.kdy5hb
title: Occurrence Download

description: A dataset containing 8057 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Ecuador",
 "Geometry POLYGON((-79.72814 -0.11519,-79.65067 -0.32693,-79.27367 -0.45087,-79.03095 -0.53867,-78.74691 -0.67811,-78.34926 -0.71426,-77.99292 -0.78656,-77.61592 -0.58515,-77.66757 -0.32177,-78.07555 -0.10486,-78.59198 0.12753,-79.32015 0.08622,-79.72814 -0.11519))",
 "TaxonKey is Squamata"
 ]
}

 The dataset includes 8057 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026546-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.21233/n91x-ft11
title: LDDsite6495 water chemistry dataset

description: Raw data for the LDDsite6495 water chemistry dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/qvfm-1n71
title: Great Dismal Swamp pollen surface sample dataset

description: Raw data for the Great Dismal Swamp pollen surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/rw5n-k990
title: Silvituc pollen surface sample dataset

description: Raw data for the Silvituc pollen surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/67f2-4886
title: LDDsite1782 ostracode surface sample dataset

description: Raw data for the LDDsite1782 ostracode surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.57703/ce-w8vgm
title: Digital surface twin #4265
DOI: 10.21233/6e6m-2169
title: Buckeye Lake ostracode surface sample dataset

description: Raw data for the Buckeye Lake ostracode surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/wq8c-f683
title: Valentine Bog vertebrate fauna dataset

description: Raw data for the Valentine Bog vertebrate fauna dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/pcep-tz49
title: Neumühler See pollen dataset

description: Raw data for the Neumühler See pollen dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.15468/dl.ktxqwe
title: Occurrence Download

description: A dataset containing 675 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Issue is Geodetic datum assumed WGS84",
 "TaxonKey is Sphyrna zygaena (Linnaeus, 1758)"
 ]
}

 The dataset includes 675 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026549-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.