cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27160482
title: An epigenetic human cytomegalovirus infection score predicts viremia risk in seropositive lung transplant recipients

description: Cytomegalovirus (CMV) infection and reactivation in solid organ transplant (SOT) recipients increases the risk of viremia, graft failure and death. Clinical studies of CMV serostatus indicate that donor positive recipient negative (D<sup>+</sup>/R<sup>−</sup>) patients have greater viremia risk than D<sup>−</sup>/R<sup>−</sup>. The majority of patients are R<sup>+</sup> having intermediate serologic risk. To characterize the long-term impact of CMV infection and assess viremia risk, we sought to measure the effects of CMV on the recipient immune epigenome. Specifically, we profiled DNA methylation in 156 individuals before lung or kidney transplant. We found that the methylome of CMV positive SOT recipients is hyper-methylated at <i>loci</i> associated with neural development and Polycomb group (PcG) protein binding, and hypo-methylated at regions critical for the maturation of lymphocytes. In addition, we developed a machine learning-based model to predict the recipient CMV serostatus after correcting for cell type composition and ancestry. This CMV episcore measured at baseline in R<sup>+</sup> individual stratifies viremia risk accurately in the lung transplant cohort, and along with serostatus the CMV episcore could be a potential biomarker for identifying R<sup>+</sup> patients at high viremia risk.
DOI: 10.5281/zenodo.11031940
title: Datasets of synthetic workflows for cyber-physical edge-hub-cloud systems

description: These datasets of synthetic workflows were generated to evaluate the performance and scalability of a multi-constrained scheduling approach for workflow applications of various structures, sizes, and sensing/actuating requirements in a cyber-physical system (CPS) following the edge-hub-cloud paradigm. The examined CPS comprised four edge devices (i.e., single-board computers, each attached to an unmanned aerial vehicle (UAV) equipped with sensors/actuators) interacting with a hub device (e.g., a laptop), which in turn communicated with a more computationally capable cloud server. All system devices featured heterogeneous multicore processors and varied sensing/actuating or other specialized capabilities. The problem objective was the minimization of the overall latency of the application under deadline, memory, storage, energy, capability, and task precedence constraints.

We generated 25 random workflows (task graphs) with 10, 20, 30, 40, and 50 nodes (5 task graphs for each size), utilizing the Task Graphs For Free (TGFF) random task graph generator [1],[2]. Additional task parameters (e.g., execution time, power consumption, memory, storage, output data size, capability) were included post-generation, using appropriate values. More details are provided in README.txt and in [3].References:[1] R. P. Dick, D. L. Rhodes, and W. Wolf, "TGFF: Task graphs for free," in Proc. Sixth International Workshop on Hardware/Software Codesign (CODES/CASHE), 1998, pp. 97-101, doi: 10.1109/HSC.1998.666245.

[2] R. P. Dick, D. L. Rhodes, and K. Vallerio, "TGFF," https://robertdick.org/projects/tgff/.

[3] A. Kouloumpris, G. L. Stavrinides, M. K. Michael, and T. Theocharides, “Optimal multi-constrained workflow scheduling for cyber-physical systems in the edge-cloud continuum,” in Proc. 2024 IEEE 48th Annual Computers, Software, and Applications Conference (COMPSAC), Jul. 2024, pp. 483-492, doi: 10.1109/COMPSAC61105.2024.00072.
description: These datasets are released under the Creative Commons Attribution license. If you utilize these datasets in your work, please cite us using the corresponding Zenodo DOI https://doi.org/10.5281/zenodo.11031941
DOI: 10.5281/zenodo.11031941
title: Datasets of synthetic workflows for cyber-physical edge-hub-cloud systems

description: These datasets of synthetic workflows were generated to evaluate the performance and scalability of a multi-constrained scheduling approach for workflow applications of various structures, sizes, and sensing/actuating requirements in a cyber-physical system (CPS) following the edge-hub-cloud paradigm. The examined CPS comprised four edge devices (i.e., single-board computers, each attached to an unmanned aerial vehicle (UAV) equipped with sensors/actuators) interacting with a hub device (e.g., a laptop), which in turn communicated with a more computationally capable cloud server. All system devices featured heterogeneous multicore processors and varied sensing/actuating or other specialized capabilities. The problem objective was the minimization of the overall latency of the application under deadline, memory, storage, energy, capability, and task precedence constraints.

We generated 25 random workflows (task graphs) with 10, 20, 30, 40, and 50 nodes (5 task graphs for each size), utilizing the Task Graphs For Free (TGFF) random task graph generator [1],[2]. Additional task parameters (e.g., execution time, power consumption, memory, storage, output data size, capability) were included post-generation, using appropriate values. More details are provided in README.txt and in [3].References:[1] R. P. Dick, D. L. Rhodes, and W. Wolf, "TGFF: Task graphs for free," in Proc. Sixth International Workshop on Hardware/Software Codesign (CODES/CASHE), 1998, pp. 97-101, doi: 10.1109/HSC.1998.666245.

[2] R. P. Dick, D. L. Rhodes, and K. Vallerio, "TGFF," https://robertdick.org/projects/tgff/.

[3] A. Kouloumpris, G. L. Stavrinides, M. K. Michael, and T. Theocharides, “Optimal multi-constrained workflow scheduling for cyber-physical systems in the edge-cloud continuum,” in Proc. 2024 IEEE 48th Annual Computers, Software, and Applications Conference (COMPSAC), Jul. 2024, pp. 483-492, doi: 10.1109/COMPSAC61105.2024.00072.
description: These datasets are released under the Creative Commons Attribution license. If you utilize these datasets in your work, please cite us using the corresponding Zenodo DOI https://doi.org/10.5281/zenodo.11031941
DOI: 10.4121/f359cd0f-d135-416c-9118-e79dccba57b9
title: Data underlying the publication: The ECHOWAVE Hindcast: A 30-years high resolution database for wave energy applications in North Atlantic European waters

description: ECHOWAVE is the acronym used for <strong>E</strong>uropean <strong>CO</strong>asts <strong>H</strong>igh Resolution <strong>O</strong>cean <strong>WAVE</strong>s Hindcast. The dataset was developed using WAVEWATCH III and has a resolution of approximately 2Km with a duration from 1990-2021 at hourly (1-hr) intervals. The coverage are the European Atlantic coastlines.The model employed a 2-way nesting multi-grid scheme to progressively increase spatial resolution closer to the coast (to about 2.3 km). The hindcast generation was designed specially to provide reliable sea states’ characterization for wave energy applications. Primarily, to reduce uncertainties in the wave resource estimation within European coastal waters. In this sense, there are 3 main characteristics from this dataset to highlight.(1) All physical parameterizations adjustments are applied to improve the performance within the North-East Atlantic. This approach allowed to reduce the bias for a wide range of wave heights in the area of interest (compared to existing datasets).(2) Adjustments’ verification and extensive validation is done using the latest ESA Sea State CCI V3 altimeter dataset, which is adequate for coastal applications.(3) High resolution within coastal areas, for depths ≤200 m, allows for a detailed characterization of the wave resource at nearshore and coastal areas.
DOI: 10.4121/f359cd0f-d135-416c-9118-e79dccba57b9.v1
title: Data underlying the publication: The ECHOWAVE Hindcast: A 30-years high resolution database for wave energy applications in North Atlantic European waters

description: ECHOWAVE is the acronym used for <strong>E</strong>uropean <strong>CO</strong>asts <strong>H</strong>igh Resolution <strong>O</strong>cean <strong>WAVE</strong>s Hindcast. The dataset was developed using WAVEWATCH III and has a resolution of approximately 2Km with a duration from 1990-2021 at hourly (1-hr) intervals. The coverage are the European Atlantic coastlines.The model employed a 2-way nesting multi-grid scheme to progressively increase spatial resolution closer to the coast (to about 2.3 km). The hindcast generation was designed specially to provide reliable sea states’ characterization for wave energy applications. Primarily, to reduce uncertainties in the wave resource estimation within European coastal waters. In this sense, there are 3 main characteristics from this dataset to highlight.(1) All physical parameterizations adjustments are applied to improve the performance within the North-East Atlantic. This approach allowed to reduce the bias for a wide range of wave heights in the area of interest (compared to existing datasets).(2) Adjustments’ verification and extensive validation is done using the latest ESA Sea State CCI V3 altimeter dataset, which is adequate for coastal applications.(3) High resolution within coastal areas, for depths ≤200 m, allows for a detailed characterization of the wave resource at nearshore and coastal areas.
DOI: 10.15468/dl.rcc8hp
title: Occurrence Download

description: A dataset containing 34847 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is DEU.11_1",
 "TaxonKey is one of (Bubo bubo (Linnaeus, 1758), Falco subbuteo Linnaeus, 1758, Pandion haliaetus (Linnaeus, 1758), Milvus milvus (Linnaeus, 1758), Circus aeruginosus (Linnaeus, 1758), Clanga pomarina (C.L.Brehm, 1831), Milvus migrans (Boddaert, 1783), Falco peregrinus Tunstall, 1771, Ciconia ciconia (Linnaeus, 1758), Circus pygargus (Linnaeus, 1758))",
 "Year 2014-2024"
 ]
}

 The dataset includes 34847 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039129-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13885200
title: Layers Material Properties
DOI: 10.5281/zenodo.13885201
title: Layers Material Properties
DOI: 10.15468/dl.7uv6u2
title: Occurrence Download

description: A dataset containing 733265 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year 2023-2023"
 ]
}

 The dataset includes 733265 records from 158 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039107-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qa5squ
title: Occurrence Download

description: A dataset containing 101385418 species occurrences available in GBIF matching the query:
(Query is too complex. Can be viewed on the landing page)

 The dataset includes 101385418 records from 10244 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039110-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gudgnw
title: Occurrence Download

description: A dataset containing 598 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Fascicularia bicolor (Ruiz & Pav.) Mez)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 598 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037279-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wf57dj
title: Occurrence Download

description: A dataset containing 648654 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melanitta nigra (Linnaeus, 1758)",
 "BasisOfRecord is one of (Human Observation, Observation)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 "Country is one of (Finland, Ireland, Sweden, Cyprus, Portugal, Netherlands, France, Bulgaria, Romania, Spain, Poland, Czechia, Malta, United Kingdom of Great Britain and Northern Ireland, Austria, Croatia, Slovenia, Slovakia, Germany, Denmark, Italy, Belgium, Gibraltar, Lithuania, Greece, Luxembourg, Latvia, Estonia, Hungary)"
 ]
}

 The dataset includes 648654 records from 341 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037268-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57934/0b01e410802bb078
title: Overzicht van gemeenten in verschillende gebiedsindelingen in Nederland
DOI: 10.15468/dl.yxrf2k
title: Occurrence Download

description: A dataset containing 45 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CAN.2_1",
 "TaxonKey is Toxicodendron diversilobum (Torr. & A.Gray) Greene"
 ]
}

 The dataset includes 45 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004921-240626123714530/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.26130982.v1
title: Supplementary Tables & Figures

description: This is the supplementary file for the article: 'The Association between Early-Onset Pancreatic Ductal Adenocarcinoma and Patient’s Survival: A Systematic Review and Meta-Analysis'.
DOI: 10.15468/dl.raywp6
title: Occurrence Download

description: A dataset containing 155 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "PublishingCountry is Colombia",
 {
 "and" : [
 "Country is Colombia",
 {
 "not" : {
 "Issue" : [
 "is Country coordinate mismatch"
 ]
 }
 }
 ]
 }
 ]
 },
 {
 "and" : [
 "Year 2014-2024",
 "TaxonKey is one of (Panaeolus (Fr.) Quél., 1872)"
 ]
 }
 ]
}

 The dataset includes 155 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004922-240626123714530/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.26130973.v1
title: PRISMA_2020_checklist_F1000.pdf

description: This is the PRISMA checklist for: 'The Association between Early-Onset Pancreatic Ductal Adenocarcinoma and Patient’s Survival: A Systematic Review and Meta-Analysis'.
DOI: 10.6084/m9.figshare.26130973
title: PRISMA_2020_checklist_F1000.pdf

description: This is the PRISMA checklist for: 'The Association between Early-Onset Pancreatic Ductal Adenocarcinoma and Patient’s Survival: A Systematic Review and Meta-Analysis'.
DOI: 10.15468/dl.mb9urk
title: Occurrence Download

description: A dataset containing 7277 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Casearia arborea (Rich.) Urb., Samyda niviana Poir., Samyda viridifolia Aubl., Samyda arborea Rich., Samyda stipularis Poir., Samyda virgata Sessé & Moc., Casearia capitata (Ruiz & Pav.) Pers., Casearia incana Bertero ex Spreng., Casearia serrata Macfad., Casearia lanceolata Miq., Casearia brasiliensis Eichler, Casearia poeppigii Eichler, Casearia oligantha Eichler, Casearia cambessedesii var. angustifolia Eichler, Casearia cambessedesii var. parvifolia Eichler, Casearia bangii Rusby, Casearia glaziovii Briq. ex Glaz., Casearia umbellifera Benoist, Casearia glaberrima Uittien, Casearia stipularis Vent.)"
 ]
}

 The dataset includes 7277 records from 307 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004923-240626123714530/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.26130901
title: <b>TolC facilitates the Intracellular Survival and Immunomodulation of </b><b><i>Salmonella</i></b><b> Typhi in Human Host Cells</b>

description: <b>Introduction:</b> <i>Salmonella enterica</i> serovar Typhi (<i>S</i>. Typhi) causes typhoid fever, a systemic infection that affects millions of people worldwide. <i>S</i>. Typhi can invade and survive within host cells, such as intestinal epithelial cells and macrophages, by modulating their immune responses. However, the immunomodulatory capability of <i>S</i>. Typhi in relation to TolC-facilitated efflux pump function remains unclear. <b>Methods: </b>The role of TolC, an outer membrane protein that facilitates efflux pump function, in the invasion and immunomodulation of <i>S</i>. Typhi, was studied in human intestinal epithelial cells and macrophages. The <i>tolC</i> deletion mutant of <i>S</i>. Typhi was compared with the wild-type and its complemented strain in terms of their ability to invade epithelial cells, survive and induce cytotoxicity in macrophages, and elicit proinflammatory cytokine production in macrophages. <b>Results:</b> The <i>tolC</i> mutant, which has a defective outer membrane, was impaired in invading epithelial cells compared to the wild-type strain, but the intracellular presence of the <i>tolC</i> mutant exhibited greater cytotoxicity and induced higher levels of proinflammatory cytokines (<i>IL-1β</i> and <i>IL-8</i>) in macrophages compared to the wild-type strain. These effects were reversed by complementing the <i>tolC</i> mutant with a functional <i>tolC</i> gene. <b>Discussion:</b> Our results suggest that TolC plays a role in <i>S</i>. Typhi to efficiently invade epithelial cells and suppress host immune responses during infection. TolC may be a potential target for the development of novel therapeutics against typhoid fever.
DOI: 10.6084/m9.figshare.26130901.v1
title: <b>TolC facilitates the Intracellular Survival and Immunomodulation of </b><b><i>Salmonella</i></b><b> Typhi in Human Host Cells</b>

description: <b>Introduction:</b> <i>Salmonella enterica</i> serovar Typhi (<i>S</i>. Typhi) causes typhoid fever, a systemic infection that affects millions of people worldwide. <i>S</i>. Typhi can invade and survive within host cells, such as intestinal epithelial cells and macrophages, by modulating their immune responses. However, the immunomodulatory capability of <i>S</i>. Typhi in relation to TolC-facilitated efflux pump function remains unclear. <b>Methods: </b>The role of TolC, an outer membrane protein that facilitates efflux pump function, in the invasion and immunomodulation of <i>S</i>. Typhi, was studied in human intestinal epithelial cells and macrophages. The <i>tolC</i> deletion mutant of <i>S</i>. Typhi was compared with the wild-type and its complemented strain in terms of their ability to invade epithelial cells, survive and induce cytotoxicity in macrophages, and elicit proinflammatory cytokine production in macrophages. <b>Results:</b> The <i>tolC</i> mutant, which has a defective outer membrane, was impaired in invading epithelial cells compared to the wild-type strain, but the intracellular presence of the <i>tolC</i> mutant exhibited greater cytotoxicity and induced higher levels of proinflammatory cytokines (<i>IL-1β</i> and <i>IL-8</i>) in macrophages compared to the wild-type strain. These effects were reversed by complementing the <i>tolC</i> mutant with a functional <i>tolC</i> gene. <b>Discussion:</b> Our results suggest that TolC plays a role in <i>S</i>. Typhi to efficiently invade epithelial cells and suppress host immune responses during infection. TolC may be a potential target for the development of novel therapeutics against typhoid fever.
DOI: 10.5281/zenodo.12594116
title: Data from: Species mixing increases light interception efficiency and productivity while reducing Leaf Area Index in beech-fir stands

description: Result data set for: Species mixing increases light interception efficiency and productivity while reducing Leaf Area Index in beech-fir stands, Rouet et al. (2024). Data set includes the altitude, number of tree, mean DBH and age, basal area and proportion of species per plot, as well as the triplet arrangement and the metrics.
DOI: 10.5281/zenodo.12594115
title: Data from: Species mixing increases light interception efficiency and productivity while reducing Leaf Area Index in beech-fir stands

description: Result data set for: Species mixing increases light interception efficiency and productivity while reducing Leaf Area Index in beech-fir stands, Rouet et al. (2024). Data set includes the altitude, number of tree, mean DBH and age, basal area and proportion of species per plot, as well as the triplet arrangement and the metrics.
DOI: 10.15468/dl.gkpcc9
title: Occurrence Download

description: A dataset containing 814 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "OccurrenceStatus is Present",
 "TaxonKey is Tragopan caboti (Gould, 1857)"
 ]
}

 The dataset includes 814 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004924-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uvjtd2
title: Occurrence Download

description: A dataset containing 75 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CAN.2_1",
 "TaxonKey is Toxicoscordion paniculatum (Nutt.) Rydb."
 ]
}

 The dataset includes 75 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004925-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xh6t7w
title: Occurrence Download

description: A dataset containing 25 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CAN.2_1",
 "TaxonKey is Trichostema oblongum Benth."
 ]
}

 The dataset includes 25 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004926-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y628rb
title: Occurrence Download

description: A dataset containing 55 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CAN.2_1",
 "TaxonKey is Trifolium cyathiferum Lindl."
 ]
}

 The dataset includes 55 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004927-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wkpyea
title: Occurrence Download

description: A dataset containing 85 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CAN.2_1",
 "TaxonKey is Trifolium microdon Hook. & Arn."
 ]
}

 The dataset includes 85 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004928-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dhe4p4
title: Occurrence Download

description: A dataset containing 320 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CAN.2_1",
 "TaxonKey is Triteleia grandiflora Lindl."
 ]
}

 The dataset includes 320 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004929-240626123714530/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.26037919
title: Pre-trained model of Contrast-robust SIM (CR-SIM) algorithm

description: This file is the pre-trained model of CR-SIM, related to code (https://github.com/WenjieLab/Contrast-robust-SIM-reconstruction) and paper (https://opg.optica.org/oe/fulltext.cfm?uri=oe-32-3-3316&id=545661).