cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25402/fmb.15097347.v1
title: Supplementary Tables: A qPCR-based method for rapid quantification of six intestinal homeostasis relevant bacterial genera in feces

description: <b>Supplementary
 Table 1</b>. <b>Bacterial species and strains used for six genus-specific
 primer pairs design<sup>a</sup></b>
 <sup>a</sup>16S
 rRNA sequences of above species or strains covering <i>Bacteroides</i>, <i>Lactobacillus</i>, <i>Pediococcus</i>,<i> Enterococcus</i>,
 <i>Streptococcus</i>, <i>Bifidobacterium, Prevotella</i>,
 <i>Clostridium</i>,
 <i>Eubacterium, Ruminococcus,</i><i> Leuconostoc</i>, <i>E. coli</i> and <i>Klebsiella pneumoniae</i> were retrieved from the NCBI GenBank database, and
 aligned to determine the regions designed for primers. The bacteria in the
 same box were closely
 related.
 <b> </b>
 <b>Supplementary
 Table 2.</b> <b>Level of similarity for 16S rRNA gene of 13 bacterial genera
 mentioned in Table S1.</b>
 <b> </b>
 16S rRNA gene sequence of 13 different bacterial
 genera used in Table S1 were aligned with each other, respectively. The
 similarity levels were detected by DNAMAN8.0. 
 <b> </b>
 <b>Supplementary
 Table 3. </b> <b>Comparison between
 available primers and novel primers designed for six bacterial genera in this
 study.</b>
DOI: 10.15468/erbswh
title: Tree species occurrences of Bombax costatum Pellegr. & Vuillet collected in five communes of Benin

description: Ogou C. Tree species occurrences of Bombax costatum Pellegr. & Vuillet collected in five communes of Benin. University of Abomey-Calavi (UAC), Faculty of Agronomics Sciences (FSA), Forest Sciences Laboratory (FSL), Benin (West Africa).
DOI: 10.25402/fmb.16759504.v1
title: fmb-2021-0118_Supplementary Table 1.docx

description: Supplementary Table 1: The accession numbers obtained from
GenBank and GISAID database ad GISAID clades of our isolates
DOI: 10.25402/bio.16558083.v1
title: Supplementary data: Assessing the impact of non-specific binding on oligonucleotide bioanalysis

description: Supplementary
materials describing materials, methods, and further analytical data pertaining
to Trecovirsen, oligodeoxythymidines,
and GEM132 internal standard.
DOI: 10.25402/fmb.16759507.v1
title: fmb-2021-0118_Supplementary Table 2.docx

description: Supplementary Table 2: Coding and non-coding mutation list
detected in SARS-CoV-2 genomes of our isolates<br>
DOI: 10.6084/m9.figshare.25848856
title: Raw AFM Data from: Real-time single-molecule observation of incipient collagen fibrillogenesis and remodeling

description: Attached are the three raw data files acquired on a Asylum Research Cypher VRS AFM for the corresponding SI videos in the manuscript: "Real-time single-molecule observation of incipient fibrillogenesis and remodeling".The file should be opened through the Asylum Research Application in IGOR PRO to properly view and examine any frame in any of the videos.
DOI: 10.25402/bio.18596630.v1
title: Supplementary_information_2: A screening bioanalytical method for Enterococcus faecalis RNPP-type quorum sensing peptides in murine faeces

description: Method development,
method fine-tuning and characteristics of murine faeces samples
DOI: 10.15468/dl.rvp848
title: Occurrence Download

description: A dataset containing 1645 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dichotomius colonicus (Say, 1835)"
 ]
}

 The dataset includes 1645 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020896-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25402/fmb.19493735.v1
title: FMB-2021-0285 Supplementary material

description: Table S1. Pre-existing conditions before COVID-19 infection (multiple choices and free text allowed). Conditions found only in 1 Long-COVID child were grouped into Other<br>Table S2. Symptoms present since COVID-19 infection (multiple choices allowed), by confirmation status of COVID-19 infection.<br>Table S3. Changes reported since COVID infection, by confirmation status of COVID-19 infection, and by the pre-existence of comorbidity conditions<br>Table S4. Number of changes since COVID-19 infection, by confirmation status of infection, and by the pre-existence of comorbidity conditions<br>Table S5. Activity level before infection by Participation in Any level of activity in the first 6 weeks of COVID-19 infection<br>Table S6. Child’s current activity level by Activity level before infection<br>Table S7. Mental health / cognitive issues since COVID-19 infection (multiple issues per child are usual), by confirmation status of infection, and by the pre-existence of comorbidity conditions<br>Table S8. Number of mental health / cognitive issues since COVID-19 infection (from those in Table 5, excluding “None of the above” and “Other”), by confirmation status of infection, and by the pre-existence of comorbidity conditions<br>Supplemental Figure S1. Social media traffic of the Long Covid Kids UK platform.<br>
DOI: 10.60520/ieda/113248
title: Equilibrium crystallization experiments of a high Al-basalt from Buldir at PH2O=800MPa and the Re-ReO2 buffer

description: Data for equilibrium crystallization experiments on a high-Al basalt from Buldir volcano, western Aleutian arc, conducted at PH2O=800 MPa and buffered at Re-ReO2. See ReadMe file for analytical method and experimental setup descriptions.
description: Andrys, J.L., Cottrell, E., Kelley, K.A., Waters, L.E. & Coombs, M.L. (submitted) "Insights on Arc Magmatic Systems Drawn from Natural Melt Inclusions and Crystallization Experiments at PH2O=800 MPa Under Oxidizing Conditions" Journal of Petrology
DOI: 10.60520/ieda/113250
title: Olivine-hosted melt inclusion, clinopyroxene, and groundmass compositions from tephras of Buldir volcano, western Aleutian arc

description: This dataset includes in-situ major element compositions of olivine-hosted melt inclusions, host olivines, clinopyroxene crystals, and groundmass of mafic tephras from Buldir volcano. This dataset additionally includes in-situ measurements of H2O, CO2, S, Cl, and Fe3+/∑Fe ratios of the olivine-hosted melt inclusions. Data for melt inclusions are measured values, not corrected for post-entrapment crystallization.
description: Andrys, J.L., Cottrell, E., Kelley, K.A., Waters, L.E., Coombs, M.L. (submitted) "Insights on Arc Magmatic Systems Drawn from Natural Melt Inclusions and Crystallization Experiments at PH2O=800 MPa Under Oxidizing Conditions", Journal of Petrology
DOI: 10.25402/fmb.21130720.v2
title: CRISPR-Cas system: diversity and regulation in Enterobacteriaceae supplementarydata

description: Insights into the arms race between bacteria and invading mobile genetic elements have revealed the
intricacies of the clustered regularly interspaced short palindromic repeats (CRISPR)-Cas system and the
counter-defenses of bacteriophages. Incredible spacer diversity but significant spacer conservation among
species/subspecies dictates the specificity of the CRISPR-Cas system. Researchers have exploited this
feature to type/subtype the bacterial strains, devise targeted antimicrobials and regulate gene expression.
This review focuses on the nuances of the CRISPR-Cas systems in Enterobacteriaceae that predominantly
harbor type I-E and I-F CRISPR systems. We discuss the systems’ regulation by the global regulators, H-NS,
LeuO, LRP, cAMP receptor protein and other regulators in response to environmental stress. We further
discuss the regulation of noncanonical functions like DNA repair pathways, biofilm formation, quorum
sensing and virulence by the CRISPR-Cas system. The review comprehends multiple facets of the CRISPR-Cas
system in Enterobacteriaceae including its diverse attributes, association with genetic features, regulation
and gene regulatory mechanisms.
DOI: 10.25402/fmb.21130720.v1
title: fmb-2022-0081_supplementarydata

description: Insights into the arms race between bacteria and invading mobile genetic elements have revealed the
intricacies of the clustered regularly interspaced short palindromic repeats (CRISPR)-Cas system and the
counter-defenses of bacteriophages. Incredible spacer diversity but significant spacer conservation among
species/subspecies dictates the specificity of the CRISPR-Cas system. Researchers have exploited this
feature to type/subtype the bacterial strains, devise targeted antimicrobials and regulate gene expression.
This review focuses on the nuances of the CRISPR-Cas systems in Enterobacteriaceae that predominantly
harbor type I-E and I-F CRISPR systems. We discuss the systems’ regulation by the global regulators, H-NS,
LeuO, LRP, cAMP receptor protein and other regulators in response to environmental stress. We further
discuss the regulation of noncanonical functions like DNA repair pathways, biofilm formation, quorum
sensing and virulence by the CRISPR-Cas system. The review comprehends multiple facets of the CRISPR-Cas
system in Enterobacteriaceae including its diverse attributes, association with genetic features, regulation
and gene regulatory mechanisms.
DOI: 10.25402/fmb.15066906.v1
title: Supplementary table 1: Molecular analysis of g3p[6] rotavirus In Amazon region of Brazil: evidence of reassortment with equine-like strains

description: Description of
 primers used in the RT-PCR and nucleotide sequencing for genomic
 characterization of RVA.
DOI: 10.25402/bio.22270993.v1
title: Perspective on high-throughput bioanalysis to support in vitro assays in early drug discovery: Supplementary tables

description: As the desire for a shortened design/make/test/learn cycle increases in early drug discovery, the
pressure to rapidly deliver drug metabolism pharmacokinetic data continues to rise. From a bioanalytical
standpoint, in vitro assays are challenging because they are amenable to automation and thus capable
of generating a high number of samples for analysis. To keep up with analysis demands, automated
method development workflows, rapid sample analysis approaches and efficient data analysis software
must be utilized. This work provides an outline of how we implemented those three aspects to provide
bioanalytical support for in vitro drug metabolism pharmacokinetic assays, which include developing
hundreds of mass spectrometry methods and analyzing thousands of samples per week, while delivering
a median bioanalytical turnaround time of 1–2 business days.
DOI: 10.15468/dl.fg9g7z
title: Occurrence Download

description: A dataset containing 1074728 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tringa ochropus Linnaeus, 1758",
 "HasCoordinate is true",
 "Year is greater than or equal to 2011",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 1074728 records from 1401 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020893-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25402/bio.22588978.v1
title: Determination of asundexian and its metabolite M-10 in human plasma by LC–MS/MS: supplementary materials

description: Background: The authors present a validated method for the simultaneous quantification of asundexian
(BAY 2433334) and its pharmacologically inactive major human metabolite M-10 from human plasma and
its application in clinical study sample analysis. Materials & methods: Sample preparation was performed
by protein precipitation followed by reverse phase HPLC and positive/negative ESI-MS/MS. Results: Assay
working ranges were 0.5–500 ng/ml for asundexian and 5.0–5000 ng/ml for M-10. Validation results
met the requirements of pertinent guidelines. In clinical study sample analysis, accuracy and precision
acceptance criteria for analyzed quality control samples were met and incurred sample reanalysis was
fulfilled. Conclusion: The method proved to be selective, specific, sufficiently sensitive, reproducible and
robust for the analysis of samples obtained from clinical trials.
DOI: 10.25402/fmb.21130855
title: Evaluation of the potential of Rejuveinix plus dexamethasone against sepsis - Table_S4.docx

description: Aim: Our main objectives were to compare the effects of Rejuveinix (RJX), dexamethasone (DEX) and their combination on the severity of sepsis and survival outcome in an animal model of fatal sepsis. Methods: We used the LPS plus D-galactosamine mouse model of sepsis to compare the anti-inflammatory activities of RJX, dexamethasone and a combination of RJX plus DEX. Additionally, we examined the clinical feasibility and tolerability of combining RJX with DEX in COVID-19 patients in a clinical phase I study. Data were analyzed using standard methods. Results & conclusion: RJX exhibited potent anti-inflammatory activity in the murine sepsis model. The combination of RJX plus DEX was more effective than either agent alone, decreased the inflammatory cytokine responses and associated organ damage, and improved the survival outcome in mice. In the phase I clinical study, RJX plus DEX was well tolerated by COVID-19 patients.
DOI: 10.25402/bio.22810430
title: Validation of LC–MS/MS methods for quantitative analysis of kynurenine pathway metabolites in human plasma and cerebrospinal fluid: supplementary materials

description: Background: Dysregulation of the kynurenine metabolic pathway has been reported in several
neurological conditions. Methods & results: Sensitive and selective LC–MS/MS methods have been
validated for six kynurenine pathway metabolites in human cerebrospinal fluid and plasma. For each
matrix, we validated three methods – one for the simultaneous determination of kynurenine, kynurenic
acid, anthranilic acid and 3-hydroxy-kynurenine (four-analyte assay), one for quinolinic acid and one for
tryptophan – using stable-isotopically labeled internal standards. The dynamic range and quantitation
limits were based on endogenous concentrations for each analyte. Conclusion: The use of validated
methods for kynurenine pathway metabolites in human cerebrospinal fluid and plasma will provide
definitive information in neurological diseases.
DOI: 10.25402/fmb.21130858.v1
title: Evaluation of the potential of Rejuveinix plus dexamethasone against sepsis - Table_S2.docx

description: Aim: Our main objectives were to compare the effects of Rejuveinix (RJX), dexamethasone (DEX) and their combination on the severity of sepsis and survival outcome in an animal model of fatal sepsis. Methods: We used the LPS plus D-galactosamine mouse model of sepsis to compare the anti-inflammatory activities of RJX, dexamethasone and a combination of RJX plus DEX. Additionally, we examined the clinical feasibility and tolerability of combining RJX with DEX in COVID-19 patients in a clinical phase I study. Data were analyzed using standard methods. Results & conclusion: RJX exhibited potent anti-inflammatory activity in the murine sepsis model. The combination of RJX plus DEX was more effective than either agent alone, decreased the inflammatory cytokine responses and associated organ damage, and improved the survival outcome in mice. In the phase I clinical study, RJX plus DEX was well tolerated by COVID-19 patients.
DOI: 10.25402/bio.22836308.v1
title: Quantification of oxalate by novel LC–MS/MS: assay development, validation and application in lumasiran clinical trials: supplementary data

description: Background: Measurement of plasma oxalate (POx) is challenging, but critical, for management of patients
with primary hyperoxaluria type 1. A novel LC–MS/MS assay was developed, validated and used to quantify
POx in patients with primary hyperoxaluria type 1. Methods: Samples (100 μl of plasma in K2EDTA) were
spiked with internal standard (13C2-labeled oxalic acid), acidified and cleaned by protein precipitation
before analysis using anion HPLC–ESI–MS/MS. The assay was validated with a quantitation range of 0.500–
50.0 μg/ml (5.55–555 μmol/l). All parameters successfully met acceptance criteria, including 15% (20%
at lower limit of quantification) for accuracy and precision. Conclusion: This assay has advantages over
previously published POx quantitation methods, was validated in accordance with regulatory guidelines
and accurately determined POx levels in humans.
DOI: 10.15468/dl.esmaq2
title: Occurrence Download

description: A dataset containing 1585848 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Urtica dioica L.)"
 ]
}

 The dataset includes 1585848 records from 4502 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020895-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4p6s7x
title: Occurrence Download

description: A dataset listing the 9 species recorded in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is France",
 "Country is Germany",
 "Country is Netherlands",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "Country is Spain",
 "Country is Sweden",
 "Country is Belgium",
 "Country is Finland",
 "Country is Norway",
 "Country is Iceland",
 "Country is Ireland",
 "Country is Portugal",
 "Country is Monaco",
 "Country is Andorra",
 "Country is Switzerland",
 "Country is Austria",
 "Country is Italy",
 "Country is San Marino",
 "Country is Denmark",
 "Country is Czechia",
 "Country is Poland",
 "Country is Belarus",
 "Country is Romania",
 "Country is Ukraine",
 "Country is Albania",
 "Country is Greece",
 "Country is Bulgaria",
 "Country is Isle of Man",
 "Country is Guernsey",
 "Country is Malta",
 "Country is Hungary",
 "Country is Slovakia",
 "Country is Croatia",
 "Country is Slovenia",
 "Country is Bosnia and Herzegovina",
 "Country is North Macedonia",
 "Country is Serbia",
 "Country is Kosovo",
 "Country is Montenegro",
 "Country is Moldova, Republic of",
 "Country is Estonia",
 "Country is Latvia",
 "Country is Lithuania",
 "Country is Jersey",
 "Country is Luxembourg",
 "Country is Liechtenstein"
 ]
 },
 "HasCoordinate is true",
 {
 "or" : [
 "TaxonKey is Aconitum napellus L.",
 "TaxonKey is Aconitum napellus Thunb.",
 "TaxonKey is Aconitum napellus Pall.",
 "TaxonKey is Aconitum napellus S.G.Gmel.",
 "TaxonKey is Aconitum napellus subsp. corsicum (Gáyer) W.Seitz",
 "TaxonKey is Aconitum napellus subsp. koelleanum (Rchb.) Mucher",
 "TaxonKey is Aconitum napellus subsp. erminens (W.D.J.Koch) Murr",
 "TaxonKey is Aconitum napellus subsp. moravicum (Skalický) Tasenk., 1998",
 "TaxonKey is Aconitum napellus subsp. formosum (Rchb.) Gáyer",
 "TaxonKey is Aconitum napellus subsp. firmum (Rchb.) Gáyer"
 ]
 },
 "HasGeospatialIssue is false"
 ]
}

 The dataset's 9 records were derived from 201 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082731-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.67s28w
title: Occurrence Download

description: A dataset containing 787 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Notropis wickliffi Trautman, 1931"
 ]
}

 The dataset includes 787 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0332783-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2isumq
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cardamine glanduligera O.Schwarz",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 22 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000241-150407101314760/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s32ny5
title: Occurrence Download

description: A dataset containing 715 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Machine Observation"
 ]
 },
 "Country is United States of America",
 {
 "or" : [
 "Month is June",
 "Month is July",
 "Month is August",
 "Month is September",
 "Month is October"
 ]
 },
 "Year 2000-2020",
 "Geometry POLYGON((-81.21094 28.92163,-44.64844 28.92163,-44.64844 59.88894,-81.21094 59.88894,-81.21094 28.92163))",
 "TaxonKey is Balaenoptera physalus (Linnaeus, 1758)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 715 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008821-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vixbtl
title: Occurrence Download

description: A dataset containing 870 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Urochloa plantaginea (Link) R.D.Webster"
 ]
}

 The dataset includes 870 records from 91 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000123-180925134338326/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.67dbec
title: Occurrence Download

description: A dataset containing 117 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Abarema abbottii (Rose & Leonard) Barneby & J.W.Grimes, Abarema acreana (J.F.Macbr.) L.Rico, Abarema alexandri (Urb.) Barneby & J.W.Grimes, Abarema asplenifolia (Griseb.) Barneby & J.W.Grimes)"
 ]
}

 The dataset includes 117 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0412096-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5ej8ii
title: Occurrence Download

description: A dataset containing 5784 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bufo marinus (Linnaeus, 1758)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 5784 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000241-150811131857512/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a4e9dy
title: Occurrence Download

description: A dataset containing 1886 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Xenopipo atronitens Cabanis, 1847"
 ]
}

 The dataset includes 1886 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0326316-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e4ubej
title: Occurrence Download

description: A dataset containing 9742 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Observation",
 "BasisOfRecord is Machine Observation",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Unknown evidence"
 ]
 },
 "TaxonKey is Trapa natans L."
 ]
}

 The dataset includes 9742 records from 259 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008842-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.