cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.7juxm9
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is one of (Chinese Taipei, China)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Xyleborinus saxeseni Reitter, 1913"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015988-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ud3gh3
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Licaria excelsa Kosterm.)",
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Continent is North America"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015989-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10512352
title: Contact- and water-mediated interactions with an allelopathic macroalga drive distinct coral microbiome and metabolome

description: Manipulative field experiment in Mo'orea (French Polynesia) testing the relative influence of contact vs. water-mediated interactions on coral microbiome and metabolome with the allelopathic alga Dictyota bartayresiana. Coral holobionts exposed to the treatment for 3 months (October - December 2024)

Microbiome investigated from 16s rDNA sequencing on a NovaSeq 6000

Metabolome by untargeted metabolomics (LC-MS/MS) on a Q-Exactive Plus Orbitrap in positive ionization mode


Description of the data and file structure

Sample metadata "chap4_sampleMetadata.csv"

Script for figure compilation "figures.R"

Microbiome analysis :





Sequence table "seqtab.no1.rds"




Taxonomy table "taxa_NS_chap4.rds"




Cleaned phyloseq object "ps.filt.rds"




Script for all microbiome analysis "microbiome_analysis_clean.Rmd"



Metabolome analysis :





MS1 feature intensities "coralendosw_pos_MS1.csv"




MS1 with MS2 feature intensities "coralendosw_pos_MS2.csv"




FBMN data "coralendosw_pos_molnet.xlsx"




SIRIUS data "siriusclass_coral_pos.xlsx"




Script for all metabolomics analysis "metabolome analysis clean.Rmd"



Multiomic analysis :





Coral microbiome data clean "endo_df_corr.xlsx"




Coral metabolome data clean "msendo_corr.xlsx"




Script multiomic "coral_multiomic_clean.Rmd"



Code/Software

Scripts coded on R version 4.2.3
DOI: 10.5281/zenodo.10828576
title: Insights into the DNA and RNA Interactions of Human Topoisomerase III Beta Using Molecular Dynamics Simulations

description: hTOP3 simulations for both covalently and non-covalently bound DNA and RNA substrates. Simulation times = 300ns, with 1/ns per frame = 300 frames each.
DOI: 10.5281/zenodo.10828577
title: hTOP3B systems with covalently and non-covalently bound DNA and RNA substrates

description: hTOP3 simulations for both covalently and non-covalently bound DNA and RNA substrates. Simulation times = 300ns, with 1/ns per frame = 300 frames each.
DOI: 10.5281/zenodo.11452032
title: Insights into the DNA and RNA Interactions of Human Topoisomerase III Beta Using Molecular Dynamics Simulations

description: hTOP3 simulations for both covalently and non-covalently bound DNA and RNA substrates. Simulation times = 300ns, with 1/ns per frame = 300 frames each.
DOI: 10.15468/dl.u3bft3
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-73.33709 -16.3179,-73.36849 -16.35512,-73.33418 -16.43652,-73.25336 -16.43362,-73.10567 -16.46967,-73.03938 -16.51967,-72.92483 -16.54642,-72.89401 -16.54758,-72.85971 -16.56619,-72.83645 -16.59294,-72.79807 -16.61794,-72.72393 -16.65125,-72.68666 -16.66273,-72.65712 -16.66711,-72.64727 -16.62226,-72.6615 -16.596,-72.73807 -16.54459,-72.92623 -16.45051,-72.98531 -16.39581,-73.23222 -16.32816,-73.33846 -16.2332,-73.37566 -16.23757,-73.46317 -16.22554,-73.51568 -16.2332,-73.5206 -16.26378,-73.48888 -16.28566,-73.44949 -16.31082,-73.42871 -16.30754,-73.39699 -16.30754,-73.33709 -16.3179))",
 "OccurrenceStatus is Present",
 "TaxonKey is Insecta"
 ]
}

 The dataset includes 18 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015990-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14509286
title: Data table for EoS XMLSLZ(PK1) nparam=1

description: The data table for the EoS XMLSLZ(PK1) of the family Cold Neutron Star EoS with 1 parameters 
                can be found via this link  "compose.obspm.fr/eos/285" together with additional information on the EoS.
                
                
                The online service CompOSE provides data tables for different state of the art equations of state (EoS) 
                ready for further usage in astrophysical applications, nuclear physics and beyond.
                
                
                CompOSE would not be possible without the financial and organizational support from a large number of institutions and individual
                contributors. In particular, we gratefully acknowledge support by :
                

                
CompStar, Research Networking Programs of the European Science Foundation (ESF)
                
NewCompStar, "Exploring fundamental physics with compact stars" (MPNS COST action MP1304). 
                
PHAROS, "The multi-messenger physics and astrophysics of neutron stars" within the EU framework programme (COST action CA16214).
DOI: 10.5281/zenodo.14811564
title: Data table for EoS XMLSLZ(PK1) nparam=1

description: The data table for the EoS XMLSLZ(PK1) of the family Cold Neutron Star EoS with 1 parameters 
                can be found via this link  compose.obspm.fr/eos/285 together with additional information on the EoS.
                 
                Please be aware that in particular the authors of the equation of state can be found in the references below and on the 
                Compose data base ( compose.obspm.fr/eos/285).
                Thus if you use this entry, please cite the original references together with the link to the table. We are working currently on rectifying the automatic citation from zenodo with author information on the equation of state.
                
                
                
                The online service CompOSE provides data tables for different state of the art equations of state (EoS) 
                ready for further usage in astrophysical applications, nuclear physics and beyond.
                
                
                CompOSE would not be possible without the financial and organizational support from a large number of institutions and individual
                contributors. In particular, we gratefully acknowledge support by :
                

                
CompStar, Research Networking Programs of the European Science Foundation (ESF)
                
NewCompStar, "Exploring fundamental physics with compact stars" (MPNS COST action MP1304). 
                
PHAROS, "The multi-messenger physics and astrophysics of neutron stars" within the EU framework programme (COST action CA16214).
DOI: 10.57745/cv1kaz
title: TutorialTrex.txt

description: Workflow of the use of Tgrabs an Trex
DOI: 10.57745/evh4es
title: AnalysesTracking.html

description: R file used for data filtering and analysis
DOI: 10.57745/txctbv
title: set_example.settings

description: Example of settings for the use of Tgrands and Trex
DOI: 10.57745/yrglqe
title: ReadMe.pdf

description: Guide. Description of the objectives, methods, analysis and results.
DOI: 10.57745/z932b4
title: AllTricho.csv

description: Resulting dataset (generated by the R analysis file)
DOI: 10.17632/3x8jjd2f72.1
title: Orange fruits Dataset

description: The orange fruit dataset was gathered using a phone camera in the HEIC (highly enhanced image container) format and was converted to JPEG format. This dataset was collected in research carried out to determine the dominant diseases affecting oranges in the eastern parts of Uganda. It can be used for any artificial intelligence project and any agricultural research by anyone.
DOI: 10.17632/3x8jjd2f72.2
title: Orange fruits Dataset

description: The orange fruit dataset was gathered using a phone camera in the HEIC (highly enhanced image container) format and was converted to JPEG format. This dataset was collected in research carried out to determine the dominant diseases affecting oranges in the eastern parts of Uganda. It can be used for any artificial intelligence project and any agricultural research by anyone.
DOI: 10.17632/mggrnzt4cw.1
title: Origin of coeval shoshonitic and calc-alkaline rocks from the metasomatized lithospheric mantle

description: We present zircon U-Pb isotopic age (Table 1, TableS2, TableS3) and Hf isotopic composition (Table S4), clinopyroxene chemistry (Table S5, Table S6), and whole-rock elemental and Sr-Nd-Pb-Mg isotopic compositions (Table S1) of the Cenozoic Zhuopan alkaline complex in the Tethyan orogenic belt, western Yunnan. On the basis of the analytical results, we observed distinct major and trace element compositions, and slight variations in whole-rock Sr-Nd-Pb-Mg and zircon Hf isotopic compositions in coeval shoshonitic and calc-alkaline rocks, suggesting the different melting models and magma sources. This study reveals the potential composition of the lithospheric mantle beneath the southeastern Tibetan Plateau， and the regional decompression of mantle and upwelling of the asthenosphere, induced by reactivation of giant shear zones, played a critical role in the formation of the Cenozoic alkaline magmatism along the southeastern margin of the Tibetan Plateau.
DOI: 10.15468/dl.b4r8xa
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Licaria glaberrima (Lundell) C.K.Allen)",
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Continent is North America"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015992-250127130748423/datasets/export for details.
DOI: 10.5281/zenodo.14509300
title: Data table for EoS PCGS(PCSB0) nparam=1

description: The data table for the EoS PCGS(PCSB0) of the family Cold Neutron Star EoS with 1 parameters 
                can be found via this link  compose.obspm.fr/eos/292 together with additional information on the EoS.
                 
                Please be aware that in particular the authors of the equation of state can be found in the references below and on the 
                Compose data base ( compose.obspm.fr/eos/292).
                Thus if you use this entry, please cite the original references together with the link to the table. We are working currently on rectifying the automatic citation from zenodo with author information on the equation of state.
                
                
                
                The online service CompOSE provides data tables for different state of the art equations of state (EoS) 
                ready for further usage in astrophysical applications, nuclear physics and beyond.
                
                
                CompOSE would not be possible without the financial and organizational support from a large number of institutions and individual
                contributors. In particular, we gratefully acknowledge support by :
                

                
CompStar, Research Networking Programs of the European Science Foundation (ESF)
                
NewCompStar, "Exploring fundamental physics with compact stars" (MPNS COST action MP1304). 
                
PHAROS, "The multi-messenger physics and astrophysics of neutron stars" within the EU framework programme (COST action CA16214).
DOI: 10.5281/zenodo.14509301
title: Data table for EoS PCGS(PCSB0) nparam=1

description: The data table for the EoS PCGS(PCSB0) of the family Cold Neutron Star EoS with 1 parameters 
                can be found via this link  "compose.obspm.fr/eos/292" together with additional information on the EoS.
                
                
                The online service CompOSE provides data tables for different state of the art equations of state (EoS) 
                ready for further usage in astrophysical applications, nuclear physics and beyond.
                
                
                CompOSE would not be possible without the financial and organizational support from a large number of institutions and individual
                contributors. In particular, we gratefully acknowledge support by :
                

                
CompStar, Research Networking Programs of the European Science Foundation (ESF)
                
NewCompStar, "Exploring fundamental physics with compact stars" (MPNS COST action MP1304). 
                
PHAROS, "The multi-messenger physics and astrophysics of neutron stars" within the EU framework programme (COST action CA16214).
DOI: 10.5281/zenodo.14811570
title: Data table for EoS PCGS(PCSB0) nparam=1

description: The data table for the EoS PCGS(PCSB0) of the family Cold Neutron Star EoS with 1 parameters 
                can be found via this link  compose.obspm.fr/eos/292 together with additional information on the EoS.
                 
                Please be aware that in particular the authors of the equation of state can be found in the references below and on the 
                Compose data base ( compose.obspm.fr/eos/292).
                Thus if you use this entry, please cite the original references together with the link to the table. We are working currently on rectifying the automatic citation from zenodo with author information on the equation of state.
                
                
                
                The online service CompOSE provides data tables for different state of the art equations of state (EoS) 
                ready for further usage in astrophysical applications, nuclear physics and beyond.
                
                
                CompOSE would not be possible without the financial and organizational support from a large number of institutions and individual
                contributors. In particular, we gratefully acknowledge support by :
                

                
CompStar, Research Networking Programs of the European Science Foundation (ESF)
                
NewCompStar, "Exploring fundamental physics with compact stars" (MPNS COST action MP1304). 
                
PHAROS, "The multi-messenger physics and astrophysics of neutron stars" within the EU framework programme (COST action CA16214).
DOI: 10.17632/cc25f22gkr.1
title: Multiplexed single-cell gene expression and TCR sequencing data generated from human thymus and blood samples

description: Single-cell RNA sequencing (scRNA-seq) has improved our ability to study rare cell subsets. To maximise reagent utility, researchers often process samples from multiple donors or conditions simultaneously (multiplexing) and overload microfluidic chip channels (superloading). While superloading reduces processing time and costs, it increases the incidence of doublets, potentially complicating downstream analyses. To investigate the effects of superloading on primary immune cells, we generated and analysed single-cell gene expression and TCR data from standard- and super-loaded gel beads-in-emulsion (GEM) chip channels. While the transcriptomic profiles of the two loading methods were largely similar, we observed that most T cells expressing multiple TCR chains were doublets, underscoring the need for TCR configuration-based doublet removal for accurate T cell analysis.
DOI: 10.5281/zenodo.14509310
title: Data table for EoS PT(GRDF2-DD2) cold NS nparam=1

description: The data table for the EoS PT(GRDF2-DD2) cold NS of the family Cold Neutron Star EoS with 1 parameters 
                can be found via this link  compose.obspm.fr/eos/302 together with additional information on the EoS.
                 
                Please be aware that in particular the authors of the equation of state can be found in the references below and on the 
                Compose data base ( compose.obspm.fr/eos/302).
                Thus if you use this entry, please cite the original references together with the link to the table. We are working currently on rectifying the automatic citation from zenodo with author information on the equation of state.
                
                
                
                The online service CompOSE provides data tables for different state of the art equations of state (EoS) 
                ready for further usage in astrophysical applications, nuclear physics and beyond.
                
                
                CompOSE would not be possible without the financial and organizational support from a large number of institutions and individual
                contributors. In particular, we gratefully acknowledge support by :
                

                
CompStar, Research Networking Programs of the European Science Foundation (ESF)
                
NewCompStar, "Exploring fundamental physics with compact stars" (MPNS COST action MP1304). 
                
PHAROS, "The multi-messenger physics and astrophysics of neutron stars" within the EU framework programme (COST action CA16214).
DOI: 10.5281/zenodo.14509311
title: Data table for EoS PT(GRDF2-DD2) cold NS nparam=1

description: The data table for the EoS PT(GRDF2-DD2) cold NS of the family Cold Neutron Star EoS with 1 parameters 
                can be found via this link  "compose.obspm.fr/eos/302" together with additional information on the EoS.
                
                
                The online service CompOSE provides data tables for different state of the art equations of state (EoS) 
                ready for further usage in astrophysical applications, nuclear physics and beyond.
                
                
                CompOSE would not be possible without the financial and organizational support from a large number of institutions and individual
                contributors. In particular, we gratefully acknowledge support by :
                

                
CompStar, Research Networking Programs of the European Science Foundation (ESF)
                
NewCompStar, "Exploring fundamental physics with compact stars" (MPNS COST action MP1304). 
                
PHAROS, "The multi-messenger physics and astrophysics of neutron stars" within the EU framework programme (COST action CA16214).
DOI: 10.5281/zenodo.14811571
title: Data table for EoS PT(GRDF2-DD2) cold NS nparam=1

description: The data table for the EoS PT(GRDF2-DD2) cold NS of the family Cold Neutron Star EoS with 1 parameters 
                can be found via this link  compose.obspm.fr/eos/302 together with additional information on the EoS.
                 
                Please be aware that in particular the authors of the equation of state can be found in the references below and on the 
                Compose data base ( compose.obspm.fr/eos/302).
                Thus if you use this entry, please cite the original references together with the link to the table. We are working currently on rectifying the automatic citation from zenodo with author information on the equation of state.
                
                
                
                The online service CompOSE provides data tables for different state of the art equations of state (EoS) 
                ready for further usage in astrophysical applications, nuclear physics and beyond.
                
                
                CompOSE would not be possible without the financial and organizational support from a large number of institutions and individual
                contributors. In particular, we gratefully acknowledge support by :
                

                
CompStar, Research Networking Programs of the European Science Foundation (ESF)
                
NewCompStar, "Exploring fundamental physics with compact stars" (MPNS COST action MP1304). 
                
PHAROS, "The multi-messenger physics and astrophysics of neutron stars" within the EU framework programme (COST action CA16214).
DOI: 10.17632/rwrn9b37yc.1
title: NIs

description: Patient Population
All patients were sourced from the NICU department of Renmin Hospital of Wuhan University. The inclusion criteria are as follows: 1. Infants admitted to the NICU between January 2020 and June 2024, with a hospital stay of ≥48 hours. 2. Infants born at a gestational age of &lt;37 weeks. 3. Infants clinically diagnosed with late-onset sepsis, with the first blood culture result indicating bacterial growth. The exclusion criteria are as follows: 1. Infants with blood culture results indicating mixed infections. 2. Infants with incomplete clinical data. 3. Infants with preexisting disease, natural deformities, and genetic metabolic diseases.

This retrospective cohort study is part of the research on NIs in premature infants conducted at Renmin Hospital of Wuhan University, located in Wuhan, Hubei Province, China. This study received approval from the Medical Ethics Committee of Renmin Hospital of Wuhan University (Approval No.WDRY2023-K098), and during the data collection phase, the information of the infants was anonymized. Since the study does not involve patient privacy and will not adversely affect the rights and welfare of the infants, it was conducted after obtaining an informed consent waiver from the ethics committee (Approval No. WDRY2023-K098(X01)). However, the verbal informed consent was also obtained from the parents or legal guardians of the preterm infants.

Data Collection
Data were extracted from the medical record system in several aspects: 1. Demographic-related data, such as sex, gestational age, birth weight, the age of infection, corrected gestational age and weight of infection, urine output, body temperature, etc. 2. Vital signs and clinical manifestations at the time of infection, such as heart rate, response, skin color and condition, respiratory status, etc. 3. Relevant procedures performed within 7 days prior to the infection, such as whether mechanical ventilation was used and whether there was a presence of a Peripherally Inserted Central Catheter (PICC), etc. 4. Results of blood cultures, complete blood counts, and blood gas analyses obtained from the same batch at the time of suspected infection.