cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.mcvdnckbb
title: Data from: Ce(OTf)3-catalyzed asymmetric 6pi cyclization of triaryldivinyl Ketones

description: The rare-earth Ce(OTf)3-catalyzed asymmetric 6pi cyclization of
 triaryldivinyl ketones is realized, affording methyl
 (R,E)-1-aryl-2-arylmethylidene-3-hydroxy-1,4-dihydronaphthalene-2-carboxylates in moderate to good yields with good to excellent enantioselectivities. The reaction provided a new strategy for the construction of optically active 3-hydroxy-1,4-dihydronaphthalene-2-carboxylic acid derivatives. The original NMR data (FID files and mnova files) of both starting materials [4-(3,4-dimethoxyphenyl)-5-aryl-3-oxo-2-((Z)-4-arylmethylidene)pent-4-enoates] and products [(R,E)-1-aryl-2-arylmethylidene-3-hydroxy-1,4-dihydronaphthalene-2-carboxylates) are provided and the files can be opened with MestReNova software.  Each folder of NMR FID files contains subfolders on different NMR FID and mnova files. Works referencing this dataset:  Li, L.; Wei, H.; Yang, Z. H.; Xu, J. X. Org. Lett. 2025, 27(19), 4875-4879.
description: All data were collected in a Bruker 400 MHz NMR equipment.
description: # Ce(OTf)3-Catalyzed Asymmetric 6pi Cyclization of Triaryldivinyl Ke-tones
 Dataset DOI: [10.5061/dryad.mcvdnckbb](10.5061/dryad.mcvdnckbb) ##
 Description of the data and file structure 1H, 13C, and 19F NMR FID and
 mnova files for methyl
 (*E*)-5-aryl-2-((*Z*)-4-arylmethylidene)-4-(3,4-dimethoxyphenyl)-3-oxopent-4-enoates and methyl (*R*,*E*)-1-aryl-2-arylmethylidene-3-hydroxy-1,4-dihydronaphthalene-2-carboxylates. NMR: Nuclear Magnetic Resonance They can be used with the readily available MestReNova software. ### Files and variables #### File: 1a-1B.zip **Description:**  NMR FID and mnova files for methyl (*E*)-5-aryl-2-((*Z*)-4-arylmethylidene)-4-(3,4-dimethoxyphenyl)-3-oxopent-4-enoates Each of folders contains subfolders for 1H NMR files, 13C NMR files, and 19F NMR files if option. #### File: 2.zip **Description:** NMR FID and mnova files for methyl (*R*,*E*)-1-aryl-2-arylmethylidene-3-hydroxy-1,4-dihydronaphthalene-2-carboxylates Each folders contains subfolders for 1H NMR files, 13C NMR files, and 19F NMR files if option. ## Code/software MestReNova
DOI: 10.15468/dl.gky47u
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plagiorhynchus charadriicola",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004341-260126135527185/datasets/export for details.
DOI: 10.15468/dl.4dzvr8
title: Occurrence Download

description: A dataset containing 8440 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melanotaenia fluviatilis",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 8440 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004340-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.wh70rxx0r
title: Genotypic data for Ruditapes decussatus (European clam), including 13,438 SNPs genotyped across 213 individuals

description: This dataset contains genotypic data for Ruditapes decussatus (European
 clam), including 13,438 SNPs genotyped across 213 individuals from seven
 geographically distinct populations with different levels of infection by
 Perkinsus olsenii. Genotyping was conducted using a high-throughput SNP
 array. Each individual is also associated with infection level data for
 Perkinsus olseni, a protozoan parasite of ecological and economic concern.
 The dataset enables analyses of population structure, local adaptation,
 and host-parasite interactions.
description: # Genepop Ruditapes decussatus 213 indivuals 13438SNPs Dataset DOI:
 [10.5061/dryad.wh70rxx0r](10.5061/dryad.wh70rxx0r) ## Description of the
 data and file structure #### File:
 Genepop\_Rdecusatus\_213ind\_13438SNPs\_7pop.txt **Description:** Genepop
 Ruditapes decussatus 213 individuals 13438 SNPs organized in 7
 geographical populations #### File:
 Genepop\_Rdecusatus\_213ind\_13438SNPs\_7pop\_INFECCION.txt
 **Description:** Genepop Ruditapes decussatus 213 individuals 13438 SNPs
 organized in 5 levels of infection by Perkinsus olsenii
DOI: 10.5061/dryad.7sqv9s54d
title: TcCYP4C1 in combination with trehalose to cope with high CO2 stress in Tribolium castaneum (Coleoptera)

description: Cytochrome P450 monooxygenase (CYP), an important detoxifying enzyme in
 insects, is involved in the metabolism and degradation of both exogenous
 compounds and endogenous substances. To investigate the involvement of the
 Tribolium castaneum TcCYP4C1 gene in detoxification metabolism
 under high CO2 and the protective role of trehalose against hypoxic stress
 in insects. In the present study, after successfully silencing
 the TcCYP4C1 gene of T. castaneum by double-stranded RNA(dsRNA),
 the larvae were exposed to 95% CO2. This exposure resulted in a
 statistically significant increase in larval mortality and a significant
 elevation in the activity of the carboxylesterase enzyme (CarE). However,
 a decrease in mortality from 18.15% to 11.24% was observed when larvae
 were fed trehalose after dsRNA injection. In addition, the gene expression
 levels of the trehalose metabolism pathway-related genes TRE1-3, TRE1-4,
 and TPS2 were significantly up-regulated after 95%
 CO2 treatment. In summary, the TcCYP4C1 gene
 emerges as a pivotal factor in the adaptive response of T.
 castaneum to high CO2. Trehalose effectively mitigates the detrimental
 effects resulting from the silencing of TcCYP4C1 and exposure to
 high CO2 stress in T. castaneum. Our findings not only establish
 a theoretical foundation for the development of novel pesticides tailored
 for low-oxygen grain storage environments but also inspire innovative,
 environmentally sustainable pest management strategies in the grain
 storage sector.
description: # *TcCYP4C1* in combination with trehalose to cope with high CO2 stress in
 *Tribolium castaneum* (Coleoptera) Dataset DOI:
 [10.5061/dryad.7sqv9s54d](10.5061/dryad.7sqv9s54d) ## Description of the
 data and file structure *TcCYP4C1* in combination with trehaloseto cope
 with high-CO2stress in *Tribolium castaneum* (Coleoptera) File: *TcCYP4C1*
 CDS.fas Description: The data is the sequence of *TcCYP4C1* CDS. Based on
 this sequence, we designed primers for PCR, QPCR, and dsRNA File:
 *TcTre1-1* CDS.fas Description: The data is the sequence of *TcTre1-1*
 CDS. Based on this sequence, we designed primers for QPCR File: *TcTre1-2*
 CDS.fas Description: The data is the sequence of *TcTre1-2* CDS. Based on
 this sequence, we designed primers for QPCR File: *TcTre1-3* CDS.fas
 Description: The data is the sequence of *TcTre1-3* CDS. Based on this
 sequence, we designed primers for QPCR File: *TcTre1-4* CDS.fas
 Description: The data is the sequence of *TcTre1-4* CDS. Based on this
 sequence, we designed primers for QPCR File: *TcTre2* CDS.fas Description:
 The data is the sequence of *TcTre2* CDS. Based on this sequence, we
 designed primers for QPCR
DOI: 10.5061/dryad.fxpnvx14s
title: Data from: Brucella NyxA and NyxB dimerization enhances effector function during infection

description: Supporting data (uncropped RAW western blots) for the article
 entitled: Brucella NyxA and NyxB dimerization enhances effector
 function during infection Data concern two Brucella translocated
 effectors, NyxA and NyxB, that contribute to the late stages of
 intracellular multiplication. We show that 1) NyxA and NyxB directly
 interact; 2) monomeric forms of the Nyx effectors still interact with
 their host cellular target, the deSUMOylase sentrin-specific protease 3
 (SENP3); 3) monomers are less able to delocalize SENP3 from the
 nucleoli. 
description: # Data from: \*Brucella \*NyxA and NyxB dimerization enhances effector
 function during infection Dataset DOI:
 [10.5061/dryad.fxpnvx14s](10.5061/dryad.fxpnvx14s) ## Description of the
 data and file structure The dataset presented corresponds to the uncropped
 gels and western blots used in the manuscript entitled: Study of the
 molecular interactions underlying the *Brucella* NyxA and NyxB effector
 function. #### File: RawData.pdf **Figure 1.** *In vitro* and *in
 cellullo* interaction between NyxA and NyxB. **(A)** Pulldown using
 purified NyxB against His-NyxA immobilised on a Ni NTA resin or the
 inverse **(B)** His-NyxB immobilized. For both, an empty column was used
 as a control for non-specific binding. Interactions were visualised with
 coomassie blue stained gels. The flowthrough (FT), wash (W) and elution
 (E) fractions are shown for each sample. **(D)** Co-immunoprecipitation
 (co-IP) assay from cells expressing NyxA or NyxB tagged with HA or Myc
 using anti-HA-magnetic beads. The input and co-IP fractions were revealed
 using an anti-Myc, and an anti-HA antibodies. Molecular weights are
 indicated (kDa). **Figure 3. Monomeric NyxA and NyxB still target the
 nucleus and are part of the same complex.** **(B)** Co-immunoprecipitation
 (co-IP) assay from cells expressing NyxA-L93E or NyxB-L97E tagged with HA
 or Myc. The input and co-IP fractions were revealed using an anti-Myc, an
 anti-HA antibody and anti-Nyx antibody. Molecular weights are indicated
 (kDa).  **Figure 4. Monomeric NyxA and NyxB still interact with SENP3.**
 **(A)** Co-immunoprecipitation (co-IP) assay suing GFP-Trap, incubated
 with lysates from cells expressing GFP-SENP3 and Myc-NyxA, NyxB, NyxA-L93E
 or NyxB-L97E. GFP was used as a control for nonspecific binding. The
 inputs and co-IP elutions were revealed using an anti-Myc antibody, and an
 anti-GFP antibody. Molecular weights are indicated (kDa). **(B)**
 Co-immunoprecipitation (co-IP) assay using anti-HA magnetic bead,
 incubated with lysates from cells expressing HA-NyxA, HA-NyxA-L93E,
 HA-NyxB or HA-NyxB-L97E. Cells transfected with the HA empty vector were
 used as a control for nonspecific binding. The inputs and co-IP elutions
 were revealed using an anti-HA antibody, and an anti-SENP3 antibody.
 Molecular weights are indicated (kDa). ## Code/software Not applicable ##
 Access information Not applicable
DOI: 10.15468/dl.jtuepd
title: Occurrence Download

description: A dataset containing 17 records in GBIF matching the query:
SELECT
 occurrence.class,
 occurrence.countrycode,
 COUNT(*) total_registros
FROM
 occurrence
WHERE
 occurrence.countrycode IN ('AR', 'BR', 'CL', 'CO', 'PE', 'UY')
 AND GBIF_WITHIN('POLYGON ((
 -59.30 -61.80,
 -57.50 -61.80,
 -57.50 -62.60,
 -59.30 -62.60,
 -59.30 -61.80
 ))', occurrence.decimallatitude, occurrence.decimallongitude) = TRUE
GROUP BY
 occurrence.class,
 occurrence.countrycode
ORDER BY
 total_registros DESC

 The dataset's 17 records were derived from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004328-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18403816
title: Mediating effect of mean platelet volume and platelet count ratio on the association between diabetes mellitus and all-cause mortality: Evidence from NHANES 2007-2018
DOI: 10.5281/zenodo.18403817
title: Mediating effect of mean platelet volume and platelet count ratio on the association between diabetes mellitus and all-cause mortality: Evidence from NHANES 2007-2018
DOI: 10.15468/dl.2jwbma
title: Occurrence Download

description: A dataset containing 53 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Spratelloides robustus",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLatitude is less than 90",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2015"
 ]
}

 The dataset includes 53 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004342-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rspwrj
title: Occurrence Download

description: A dataset containing 1311 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melanotaenia nigrans",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1311 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004345-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.7sqv9s54g
title: Cattle disperse seeds and aquatic plants in Neotropical wetlands

description: Dispersal by waterbirds and wild mammals is known to be important for
 maintaining biodiversity among wetlands. Cattle are known to be important
 seed dispersers in terrestrial habitats, however the role of cattle in
 plant dispersal among wetlands is poorly known. We analysed the potential
 for the dispersal of aquatic plants (seeds, diaspores and whole plants) by
 cattle (Bos taurus) through endozoochory in Neotropical wetlands. Ten
 fresh faecal samples per site (total 30 samples), were collected in three
 farms of the Pampa region, southern Brazil, between September and November
 of 2023. A total of 982 propagules and whole plants from 37 wetland plant
 taxa, belonging to 14 angiosperm and two fern families, were reported. Ten
 of these taxa are aquatic, seven terrestrial and 19 grow both in water and
 on land. Viability was confirmed for seeds from 10 angiosperm families,
 and for 26% of all seeds tested. Our results suggest cattle provide an
 important ecosystem service for wetland biodiversity in grassland areas
 through seed dispersal.
description: # Cattle disperse seeds and aquatic plants in Neotropical wetlands Dataset
 DOI: [10.5061/dryad.7sqv9s54g](10.5061/dryad.7sqv9s54g) ## Description of
 the data and file structure The study was conducted in three sites (Site
 1, Site 2 and Site 3) of the Pampa region, located in the municipality of
 Rio Grande, southern Brazil. Ten fresh faecal samples per site, totalling
 30 samples, were collected in the study.  Plant taxa
 composition worksheet: Number of propagules of plant taxa recovered from
 30 cattle fecal samples. Family seed viability worksheet: Number of viable
 and non-viable seeds of 14 angiosperm families. Viable seeds were
 confirmed by germination or tetrazolium test. Substrate-life form
 viability worksheet: Number of viable and non-viable seeds of aquatic,
 terrestrial and plants that can survive in both substrates; Number of
 viable and non-viable seeds of amphibious, emergent, floating, herb and
 plants with multiple life forms. Life form abbreviations: A = amphibious,
 E = emergent, FL = floating, H = herb, Multiple = plants with multiple
 life forms. ## Code/software Microsoft excel
DOI: 10.15468/dl.jzrs9m
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plagiorhynchus crassicollis",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004343-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.hqbzkh1v1
title: Fluoro-Forest CODEX data for random Forest-based cell type annotation

description: High-plex immunofluorescence (IF) workflows typically rely on unsupervised
 clustering, followed by cell type annotation at a cluster level for cell
 type assignment. Most of these methods use marker expression averages that
 lack a statistical evaluation of cell type annotations, which can result
 in misclassification. Here, we propose a strategy through an end-to-end
 pipeline using a semi-supervised, random forests approach to predict cell
 type annotations. Our method includes cluster-based sampling for training
 data, cell type prediction, and downstream visualization for
 interpretability of cell annotation that ultimately improves
 classification results. We show that our workflow can annotate cells more
 accurately with a training set &lt; 5 % of the total number of cells
 tested. In addition, our pipeline outputs cell type annotation
 probabilities and model performance metrics for users to decide if it
 could boost their existing clustering-based workflow results for complex
 IF data.
description: Selected samples from anal precancers and cancers were used to
 create a tumor microarray (TMA) for spatial phenotyping analysis using the
 Akoya Phenocycler Fusion (formerly known as CODEX). CODEX data were
 generated at The Bursky Center for Human Immunology and Immunotherapy
 Programs, Washington University School of Medicine.
 This approach uses tissue-based cyclic immunofluorescence for
 highly multiplexed immunofluorescence imagining on FFPE specimens from
 glass slides. Data shown within this manuscript were taken from 2, 2mm
 core biopsies sourced from the University of Wisconsin-Madison using a
 custom panel. Final stitched images for the cores, segmentation results
 from StarDist, and expression summaries are used within the workflow for
 processing and cell annotation. 30 maker panel: each
 image slice corresponds to a marker in the order shown:
 DAPI, Ki67, CD31, FOXP3 , CD56 CD34, CD4,
 CD20, CD45, CD163 HLA-A, LAG3, CD8, SMA, PDL1
 CD21, PanCK, IDO1, bCat1, CD14 PD-1, CD44,
 CD3e, CD45RO, CD68  GZMB, HLA-DR, ICOS, HIF1A,
 CK17 
description: #### Example data for random Forest-based cell type annotation Dataset
 DOI: [10.5061/dryad.hqbzkh1v1](10.5061/dryad.hqbzkh1v1) ##### File
 overview **TMA cores:** C-7.ome.tif, N-12.ome.tif **Channel names (row
 number = image slice index):** channelnames.txt **Segmentations from
 StarDist:** C-7.geojson, N-12.geojson **Log2 expression data:**
 C-7_expression.csv, N-12_expression.csv **Coordinates of Cell IDs:**
 C-7_coords.csv, N-12_coords.csv
DOI: 10.5061/dryad.t4b8gtjd5
title: Numbers of granule cells and GABAergic boutons remain correlated in shrunken sclerotic hippocampi of sea lions with temporal lobe epilepsy

description: The data set describes inhibitory cells and synaptic boutons in control
 and epileptic sea lions. It is a table of subjects with sex, age,
 hippocampus (sclerotic or not), group (control, unilateral sclerotic, or
 bilateral sclerotic) and data from each individual. Data include numbers
 of GABAergic boutons in layers of the dentate gyrus, numbers of granule
 cells, and numbers of GABAergic cell body profiles. Stereological methods
 were used so data on counts and coefficients of error are included.
 Another data set is similar but for rats in which only boutons were
 counted.
description: # Numbers of granule cells and GABAergic boutons remain correlated in
 shrunken sclerotic hippocampi of sea lions with temporal lobe epilepsy
 Dataset DOI:
 [10.5061/dryad.t4b8gtjd5](https://doi.org/10.5061/dryad.t4b8gtjd5) ##
 Description of the data and file structure Data are anatomical values from
 stereological analysis of the hippocampal dentate gyrus of California sea
 lions with and without temporal lobe epilepsy. ### Files and variables
 #### File: second_updated_data_set_for_sea_lion_GABA_bouton_study.xlsx
 **Description:**  ##### Variables * sea lion sex, side (left or
 right), hippocampus (sclerotic or normal), group (control, unilateral
 sclerotic, or bilateral sclerotic) * number of GABAergic boutons (by layer
 of the dentate gyrus), stereological parameters of bouton counts (number
 counted, coefficients of error), number of GABAergic cell profiles (by
 layer of the dentate gyrus), number of GABAergic cells estimated by
 stereology per dentate gyrus, volume of the dentate gyrus * rat sex and
 GABAergic bouton stereological data ## Code/software not applicable ##
 Access information Other publicly accessible locations of the data: * not
 applicable Data was derived from the following sources: * not applicable
DOI: 10.5281/zenodo.18408004
title: Conceptual Framework for Orbital Instability in Contact Binary Star Systems: A Rigorous Multidimensional Analysis of HR 5171 A and Implications for Stellar Mergers

description: This conceptual paper presents an integrated multidisciplinary framework for analyzing orbital instability in massive contact binary star systems, with HR 5171 A as the primary case study. Using precise computational modeling, including branched evolutionary paths, mathematical derivations, and falsifiable hypotheses, we demonstrate that these systems are transient phases leading to stellar merger, contradicting assumptions of long-term equilibrium. Key mechanisms include tidal disruption near the Roche limit, hydrodynamic drag in common envelopes, angular momentum loss through mass ejection, Darwin tidal instability, energy balance via the α-formalism, mass-radius response exponents, and thermodynamic feedback. Supported by mathematical equations, reproducible Python simulations using observational data, sensitivity analyses, statistical measures, Bayesian inference for uncertainties, and links to observations (e.g., V1309 Scorpii merger) and theoretical models, we quantify the short timescales of these configurations. The framework applies to systems like VFTS 352 and MY Camelopardalis. Falsifiability is ensured through predictions of merger times, period changes, and gravitational wave signals. Implications include spacetime perturbations during mergers, producing detectable gravitational waves via LISA and LIGO. All claims are supported by peer-reviewed references with DOIs and URLs for integrity, reproducibility, and access.
DOI: 10.5281/zenodo.18408005
title: Conceptual Framework for Orbital Instability in Contact Binary Star Systems: A Rigorous Multidimensional Analysis of HR 5171 A and Implications for Stellar Mergers

description: This conceptual paper presents an integrated multidisciplinary framework for analyzing orbital instability in massive contact binary star systems, with HR 5171 A as the primary case study. Using precise computational modeling, including branched evolutionary paths, mathematical derivations, and falsifiable hypotheses, we demonstrate that these systems are transient phases leading to stellar merger, contradicting assumptions of long-term equilibrium. Key mechanisms include tidal disruption near the Roche limit, hydrodynamic drag in common envelopes, angular momentum loss through mass ejection, Darwin tidal instability, energy balance via the α-formalism, mass-radius response exponents, and thermodynamic feedback. Supported by mathematical equations, reproducible Python simulations using observational data, sensitivity analyses, statistical measures, Bayesian inference for uncertainties, and links to observations (e.g., V1309 Scorpii merger) and theoretical models, we quantify the short timescales of these configurations. The framework applies to systems like VFTS 352 and MY Camelopardalis. Falsifiability is ensured through predictions of merger times, period changes, and gravitational wave signals. Implications include spacetime perturbations during mergers, producing detectable gravitational waves via LISA and LIGO. All claims are supported by peer-reviewed references with DOIs and URLs for integrity, reproducibility, and access.