cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.et823a
title: Occurrence Download

description: A dataset containing 129788 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Alauda arvensis",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Living Specimen)"
 ]
 }
 },
 "Country is Germany",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 500",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 129788 records from 347 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005018-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9ct9g6
title: Occurrence Download

description: A dataset containing 8335 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Stagmomantis limbata Hahn, 1835"
 ]
}

 The dataset includes 8335 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020840-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.21430/m3x8ftktpf
title: Human in vitro modeling of adjuvants

description: Characterization of mechanism of action of adjuvant formulations
DOI: 10.21430/m3l7zinf2a
title: CD8+ TEMRAs in Asthma

description: Aberrant immune response is a hallmark of asthma, with 5-10% of patients suffering from disease. A better understanding of the immune response contributing to disease heterogeneity is critical for improving asthma management. T cells are central in the orchestration of immune responses in both mild and severe asthma, but it is unclear whether specific T cell subsets influence asthma symptoms or severity. This study evaluated whether specific T cell subsets including CD8+ effector memory T cells re-expressing CD45RA (TEMRAs) associated with disease severity. We performed flow cytometric immunophenotyping on PBMCs obtained from healthy controls and patients with either mild to moderate or severe asthma. Evaluation included expression of surface markers of senescence, cytokine secretion, and proliferation assays.
DOI: 10.21430/m3q5pbry55
title: Single-cell multi-omics reveals dyssynchrony of the innate and adaptive immune system in progressive COVID-19

description: The study used single-cell multi-omics analysis to investigate the dynamic immune responses in hospitalized COVID-19 patients with stable or progressive disease courses. The findings reveal a dyssynchrony between the innate and adaptive immune systems in progressive COVID-19, characterized by the presence of S100Ahi/HLA-DRlo classical monocytes, activated LAG-3hi T cells, skewed T cell receptor repertoires, and abnormal MHC-II/LAG-3 interactions between myeloid and T cells.
DOI: 10.21430/m3x0oc3up1
title: Comparable Non-canonical T cell responses are associated with protection from tuberculosis in mice and humans

description: While control of Mycobacterium tuberculosis (Mtb) infection is generally understood to require a Th1-immune response and IFN secretion, infection produces a spectrum of immunological and pathological phenotypes in diverse human populations. By characterizing Mtb infection in a collection of mouse strains that models the genetic heterogeneity of an outbred population, we identified a subset of strains that control Mtb burden comparably to a standard IFN-dependent mouse model but with substantially lower lung IFN levels. Here we report that these mice have significantly fewer Th1 and more Th17 and regulatory T cells and that this phenotype is detectable before infection, indicating a general alteration in immune tone. The CD4 T cells are less activated, have a lower polyfunctionality score, and are specifically lacking the terminal effector Th1 subset. These mice still require T cells to control bacterial burden but are less dependent on IFN signaling for this function. Instead, non-canonical immune features such as CD4 Th17 and T cells correlate with low bacterial burden. We find that the same Th17 transcriptional programs in CD4 T cells are associated with resistance to Mtb infection in humans, implicating specific non-Th1 T cell responses as a common feature of Mtb control across species.
DOI: 10.21430/m33lrhrdww
title: Flow Cytometry of IPS Celllines

description: MACS purification and flow cytometry analysis were performed as described in Sharma, et al., 2022). Purified differentiated iPSC cell pellets were washed with FACS wash buffer (2% FBS in DPBS without Ca2+/Mg2+) and fixed in 1 mL of 4% PFA (in DPBS) for 15 min at RT. After incubation, 5 mL of FACS wash buffer were added, and cells were spun down at 400g for 4 min. Cells were resuspended in wash buffer and added to 96 well plate (about 500K/well). The plate was spun down at 400g for 5 min and the supernatant was carefully removed from the plate.Cells were incubated with anti-PMEL17 (RPE progenitor/committed marker, 1:25, Dako/Agilent, #M0634) or anti-TRA-1-81 (iPSC marker, 1:12.5, BD BioScience, #56012) in 50 ul of permeabilization buffer (2% FBS & 0.02% Triton-X-100 in DPBS) overnight at 4 degrees C on a rocking shaker. Isotype control for primary antibody (purified mouse IgG1, 1:25, BioLegend #401402) was used to set a baseline for analysis. Following overnight incubation, each well was washed with 100 ul of wash buffer at 400g for 5 min. The supernatant was carefully removed and cells were incubated with secondary antibody (Alexa Fluor 488, 1:500, Invitrogen #A-21202 or Alexa Fluor 647, 1:500, Invitrogen #A-31571) in 50 ul of permeabilization buffer for 30 min at RT. Then, each well was washed with 100 ul of wash buffer at 400g for 5 min. After removing the supernatant, 150 ul of wash buffer was added to each well for the flow cytometry analysis. The flow cytometry was performed on CytoFLEX S cytometer (Beckman Coulter Inc., Flow Cytometry Core at Children's Hospital of Philadelphia) and data was analyzed using CytExpert software (Beckman Coulter, Inc.).
DOI: 10.15468/dl.jm5rht
title: Occurrence Download

description: A dataset containing 1041 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sphaeropteris myosuroides (Liebm.) R.M.Tryon"
 ]
}

 The dataset includes 1041 records from 72 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020841-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.21430/m3yqndwawg
title: COBRA HA and NA vaccines and influenza immune response

description: Mice were vaccinated with COBRA HA and NA vaccines, and challenged with influenza to determine immune response
DOI: 10.21430/m3f9pc4f3l
title: XBB.1.5 monovalent mRNA vaccine booster elicits robust neutralizing antibodies against XBB subvariants and JN.1

description: The authors investigate the immunogenicity of new COVID-19 vaccines that contain the spike protein of the SARS-CoV-2 XBB.1.5 subvariant.
DOI: 10.21430/m3776yv6e7
title: Comparison of mouse models of microbial experience reveals differences in microbial diversity and response to vaccination

description: To better model the human immune experience, the investigators introduce additional microbial experiences to specific pathogen-free mice by way of 3 models.
DOI: 10.21430/m3gfuyoakw
title: COBRA Vaccines protect against H5Nx Viral Infections

description: Vaccination of mice with COBRA vaccines elicits protective antibodies against historical and circulating H5Nx influenza viruses
DOI: 10.21430/m3p3zhylr5
title: Cell epitope abundance enhances responses to vaccines

description: Antigen specificity and magnitude of the CD4 T and GC B cell response to HA-Fe-nanoparticle immunization
DOI: 10.21430/m3altyn1ey
title: Immunogenicity of adjuvanted COBRA vaccine in immunocompromised and diverse populations

description: The computational analysis of the COBRA HA vaccination of mice revealed that there is an enhanced antigen recall response to the influenza vaccination.
DOI: 10.21430/m3uq0ab3pt
title: Development of Intranasal Gel for Influenza Vaccine Delivery

description: Intranasal immunization of mice using COBRA H1 with stimulator of interferon genes (STING)-cGAMP gel formulation against influenza.
DOI: 10.21430/m3kvp4yevn
title: Development of Ferret Reference Resources and Profiling Assays.

description: Development of reference resources and assays that are essential for ferret immunogenetics and immune repertoire profiling analysis.
DOI: 10.21430/m3v5lz099v
title: Racial disparities in symptomatology and outcomes of COVID-19 among adults of Arkansas

description: To investigate patterns in symptomatology and outcomes of COVID-19 by race/ethnicity in order to aid in accurate diagnoses of patients that present with COVID-19.
DOI: 10.21430/m3ooxdaclg
title: Viral afterlife: SARS-CoV-2 as a reservoir of immunomimetic peptides that reassemble into proinflammatory supramolecular complexes

description: To investigate how SARS-CoV-2 infection leads to the strong but ineffective inflammatory response that characterizes COVID-19, with amplified immune activation in diverse cell types, including cells without ACE2 receptors necessary for infection.
DOI: 10.21430/m3rpbpg29r
title: SARS-CoV-2 serosurvey across multiple waves of the COVID-19 pandemic in New York City between 2020–2023

description: To conduct a longitudinal cross-sectional study of anti-S and anti-NP to study the geographical distribution of the seroprevalence and antibody titers in residents of NYC throughout the pandemic.
DOI: 10.21430/m3yr9akcii
title: High transmission of endemic human coronaviruses before and during the COVID-19 pandemic in adolescents in Cebu, Philippines

description: To assess the seroprevalence and level of immunity to the four human coronaviruses (hCoVs) in healthy samples collected from children during the COVID-19 pandemic prior to vaccination and to test if differences in immunity to the hCoVs were associated with the odds of infection with SARS-CoV-2.
DOI: 10.21430/m3fm3p67ht
title: Trends in Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Seroprevalence in Massachusetts Estimated from Newborn Screening Specimens

description: To estimate the statewide seroprevalence in childbearing women in Massachusetts.
DOI: 10.21430/m3ko9yajyy
title: Serologic Response to Messenger RNA Coronavirus Disease 2019 Vaccines in Inflammatory Bowel Disease Patients Receiving Biologic Therapies

description: To evaluate the impact of immunosuppressants on COVID-19 vaccine efficacy in Inflammatory bowel disease (IBD) patients.
DOI: 10.21430/m3rqpl9w9u
title: Mucosal antibody responses to SARS-CoV-2 booster vaccination and breakthrough infection

description: Here, the investigators measured serum IgG, saliva IgG and saliva secretory IgA responses in individuals who experienced breakthrough infections and who received COVID-19 mRNA booster vaccinations.
DOI: 10.21430/m333eboiw7
title: Predictive power of wastewater for nowcasting infectious disease transmission: A retrospective case study of five sewershed areas in Louisville, Kentucky

description: To evaluate the utility of wastewater data for improving the predictive performance of nowcasts.
DOI: 10.21430/m37k8assb5
title: Brief research report: impact of vaccination on antibody responses and mortality from severe COVID-19

description: To evaluate clinical outcomes and antibody (Ab) responses to SARS-CoV-2 infection/vaccines in patients with acute respiratory failure (ARF) and various comorbidities.
DOI: 10.21430/m3hf85qyb5
title: Identifying beliefs driving COVID-19 vaccination: Lessons for effective messaging

description: To identify messaging strategies to encourage vaccine uptake by measuring the drivers of COVID-19 vaccination among the general public.
DOI: 10.21430/m3xjoof2lt
title: Lectin Fingerprinting Distinguishes Antibody Neutralization in SARS-CoV-2

description: To develop a method that reports on changes in SARS-CoV-2 spike glycosylation and their impact on antibody protection.
DOI: 10.21430/m3p9yiyfsh
title: Magnitude and Durability of the Antibody Response to mRNA-Based Vaccination Among SARS-CoV-2 Seronegative and Seropositive Health Care Personnel

description: To examine longitudinal SARS-CoV-2 antibody responses among health care personnel (HCP) before and after mRNA-based vaccination and the association between natural infection and vaccination response.
DOI: 10.21430/m3ocoe2n5m
title: Robust neutralizing antibodies to SARS-CoV-2 infection persist for months

description: To evaluate the robustness, functionality, and longevity of the antibody response to the SARS-CoV-2 virus.
DOI: 10.21430/m3ovha29y9
title: CD4 T cell response to FluBlok adjuvanted with R-DOTAP

description: Healthy mice were vaccinated with a traditional FluBlok vaccine adjuvanted with R-DOTAP in order to increase CD4 T-cell efficacy, which therefore target viral proteins at a higher rate
DOI: 10.21430/m35rnpgho1
title: High dose and standard dose fluzone vaccine titers

description: Two groups of people were vaccinated, one with a high dose and one with a standard dose of fluzone. Vaccine efficacy were evaluated based on immunogenicity data.
DOI: 10.21430/m3kftwuxgo
title: Divergence of variant antibodies following SARS-CoV-2 booster vaccines in myeloma and impact of hybrid immunity

description: To characterize virus-neutralizing and spike-binding antibody profiles following monovalent (WA1) or bivalent (WA1/BA.5) SARS-CoV-2 booster vaccination in multiple myeloma patients.
DOI: 10.21430/m318vayld4
title: BA.5 bivalent booster vaccination enhances neutralization of XBB.1.5, XBB.1.16 and XBB.1.9 variants in patients with lung cancer

description: To evaluate the neutralizing antibody response against SARS-CoV-2 WT, Omicron, XBB.1.5, XBB.1.16 and XBB.1.9 variants following monovalent and bivalent booster vaccination in lung cancer patients.
DOI: 10.21430/m3xnfr0axp
title: Understanding heterogeneity of human bone marrow plasma cell maturation and survival pathways by single-cell analyses

description: To understand the heterogeneity of human bone marrow plasma cells maturation trajectories by single-cell analyses.
DOI: 10.21430/m3h6v7qzh4
title: Time-Dependent Effects of Clinical Interventions on SARS-CoV-2 Immunity in Patients with Lung Cancer

description: To develop a time-dependent regression model elucidating individual contributions of factors influencing anti-spike antibody (SAb) levels in lung cancer patients.
DOI: 10.21430/m3ww0cx28y
title: Vaccine efficacy of seasonal COBRA in mice

description: Health adult mice vaccinated with seasonal inflenza vaccine or seasonal COBRA then challenged
DOI: 10.21430/m3qqv0llh0
title: Single CyTOF analysis of  samples from longitudinal studies of vaccine response to flu vaccines

description: This study contains CyTOF data from a subset of samples that were also analyzed by CyTOF in other ImmPort studies: SDY887, SDY314, SDY312, SDY311, SDY112, SDY315, SDY478, SDY1464. Since these samples were from participants who donated blood in multiple successive years, analyzing them on a year-by-year basis was not ideal, due to confounding of batch effects and biological aging effects. As such, we chose the participants with the largest number of repeat samples across years, and performed a single CyTOF analysis of those samples here.
DOI: 10.15468/dl.uxjxtz
title: Occurrence Download

description: A dataset containing 221 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Material sample, Specimen)",
 "TaxonKey is Triatoma indictiva Neiva, 1912",
 "Year 1970-2025"
 ]
}

 The dataset includes 221 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020842-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.us9pq3
title: Occurrence Download

description: A dataset containing 183847 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "PublishingCountry is Colombia",
 {
 "and" : [
 "Country is Colombia",
 {
 "not" : {
 "Issue" : [
 "is Country coordinate mismatch"
 ]
 }
 }
 ]
 }
 ]
 },
 {
 "and" : [
 "StateProvince is one of (santander, San vicente de chucurí)",
 "TaxonKey is one of (Magnoliopsida, Tracheophyta)",
 "IucnRedListCategory is one of (NE, DD, LC, NT, VU, EN, CR, EW, EX)"
 ]
 }
 ]
}

 The dataset includes 183847 records from 204 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020828-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8k5b2u
title: Occurrence Download

description: A dataset containing 136674 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "License is one of (CC0 1.0, CC-BY 4.0)",
 "TaxonKey is Sciurus vulgaris Linnaeus, 1758"
 ]
}

 The dataset includes 136674 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020839-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15055179
title: Otpimizing first line treatment of SE. Excel dataset
DOI: 10.5281/zenodo.15055180
title: Otpimizing first line treatment of SE. Excel dataset
DOI: 10.15468/dl.ye2fqf
title: Occurrence Download

description: A dataset containing 185951965 species occurrences available in GBIF matching the query:
(Query is too complex. Can be viewed on the landing page)

 The dataset includes 185951965 records from 6612 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020814-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh0105439.10fu
title: SH0105439.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0105440.10fu
title: SH0105440.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0105441.10fu
title: SH0105441.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0105442.10fu
title: SH0105442.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0105443.10fu
title: SH0105443.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.