cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/xgxvt8sjr9
title: FiltDeTox classification of toxin candidates in the paired-end transcriptome of the false black coral Savalia savaglia

description: This dataset contains the outputs of FiltDeTox, a rule-based post-processing framework built on top of DeTox, applied to the paired-end transcriptome of the false black coral Savalia savaglia. Starting from DeTox results, FiltDeTox combines DeTox flags (Rating), secretion predictions (WoLFPSort), HMMER-based mapping to VenomZone toxin families, Pfam toxin domains and toxin-related keywords to classify each ORF into four categories: Toxins-Candidates, Unlikely-Toxins, SCRs-WA (secreted cysteine-rich sequences with weak/absent annotation) and Non-Toxins.

The dataset provides:

• Full_Classified_Data.tsv: complete table with all DeTox ORFs, annotations and the FiltDeTox_Classification column.

• Four per-class tables (Toxins_Candidates.tsv, Unlikely_Toxins.tsv, SCRs_WA.tsv, Non_Toxins.tsv) plus FiltDeTox_Stats.tsv summarising ORF counts per class.

• Per-class mature and precursor FASTA files (…_mature.fasta and …_precursor.fasta) for all four categories.

• Per-class “full-length” TSVs (…_full-length.tsv), precursor FASTA files restricted to complete sequences (…_precursor_full-length-seqs.fasta) and small stats files (…_full-length_stats.txt).

• Pfam_Domain_Summary_with_ORFs_Genes.tsv: domain-wise summary for Toxins-Candidates, including numbers of ORFs/transcripts/genes, total TPM and associated IDs.

• Plot files (PNG and PDF): stacked barplots for FiltDeTox classes and DeTox flags, nested pie charts combining classes and flags, a pie chart of flags within Toxins-Candidates, and a combined dendrogram + dot plot of Pfam domains and their ORF/TPM profiles.

These files provide a classified and sequence-resolved view of the DeTox-derived toxin landscape in Savalia savaglia, ready for downstream comparative and functional analyses.
DOI: 10.17632/xgxvt8sjr9.1
title: FiltDeTox classification of toxin candidates in the paired-end transcriptome of the false black coral Savalia savaglia

description: This dataset contains the outputs of FiltDeTox, a rule-based post-processing framework built on top of DeTox, applied to the paired-end transcriptome of the false black coral Savalia savaglia. Starting from DeTox results, FiltDeTox combines DeTox flags (Rating), secretion predictions (WoLFPSort), HMMER-based mapping to VenomZone toxin families, Pfam toxin domains and toxin-related keywords to classify each ORF into four categories: Toxins-Candidates, Unlikely-Toxins, SCRs-WA (secreted cysteine-rich sequences with weak/absent annotation) and Non-Toxins.

The dataset provides:

• Full_Classified_Data.tsv: complete table with all DeTox ORFs, annotations and the FiltDeTox_Classification column.

• Four per-class tables (Toxins_Candidates.tsv, Unlikely_Toxins.tsv, SCRs_WA.tsv, Non_Toxins.tsv) plus FiltDeTox_Stats.tsv summarising ORF counts per class.

• Per-class mature and precursor FASTA files (…_mature.fasta and …_precursor.fasta) for all four categories.

• Per-class “full-length” TSVs (…_full-length.tsv), precursor FASTA files restricted to complete sequences (…_precursor_full-length-seqs.fasta) and small stats files (…_full-length_stats.txt).

• Pfam_Domain_Summary_with_ORFs_Genes.tsv: domain-wise summary for Toxins-Candidates, including numbers of ORFs/transcripts/genes, total TPM and associated IDs.

• Plot files (PNG and PDF): stacked barplots for FiltDeTox classes and DeTox flags, nested pie charts combining classes and flags, a pie chart of flags within Toxins-Candidates, and a combined dendrogram + dot plot of Pfam domains and their ORF/TPM profiles.

These files provide a classified and sequence-resolved view of the DeTox-derived toxin landscape in Savalia savaglia, ready for downstream comparative and functional analyses.
DOI: 10.25345/c54b2xj5q
title: MassIVE MSV000100181 - Transcriptome and metabolome analyses of the effects of chemical elicitation on antifungal metabolite production in marine-derived Pseudonocardia
title: Multi-omics analysis of the effect of lanthanum chloride and sodium butyrate on metabolite production in Pseudonocardia sediminis
DOI: 10.17632/dd66nvwbx3
title: RefugeeImmuno

description: This dataset includes two tabulated files associated with the letter titled Immune-Related Dermatological Conditions Among Refugee and Migrant Populations. “Table 1” summarizes all included studies, population, and the explicitly reported immune-related skin conditions. “Table 2” provides counts for each immune-related skin condition based on diagnoses explicitly reported in the original studies. The data were extracted from published sources included in a systematic review and do not contain individual-level or protected health information.
DOI: 10.15468/dl.hw4789
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amphicorina grahamensis",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046069-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/dd66nvwbx3.1
title: RefugeeImmuno

description: This dataset includes two tabulated files associated with the letter titled Immune-Related Dermatological Conditions Among Refugee and Migrant Populations. “Table 1” summarizes all included studies, population, and the explicitly reported immune-related skin conditions. “Table 2” provides counts for each immune-related skin condition based on diagnoses explicitly reported in the original studies. The data were extracted from published sources included in a systematic review and do not contain individual-level or protected health information.
DOI: 10.17632/m3t293k4wr
title: ggRibo-human

description: Here we include all datasets to reproduce plots for the ggRibo paper and the Ribo-seq pipeline book chapter. This link includes the human datasets. A directory for installing a BSgenome library for the Human Ensembl GRCh38 genome version is also included (see GitHub for installation instructions https://github.com/hsinyenwu/ggRibo/blob/v2025.9.24/README_human_ggRibo_examples.md).
DOI: 10.17632/m3t293k4wr.2
title: ggRibo-human

description: Here we include all datasets to reproduce plots for the ggRibo paper and the Ribo-seq pipeline book chapter. This link includes the human datasets. A directory for installing a BSgenome library for the Human Ensembl GRCh38 genome version is also included (see GitHub for installation instructions https://github.com/hsinyenwu/ggRibo/blob/v2025.9.24/README_human_ggRibo_examples.md).
DOI: 10.15468/dl.nay3dg
title: Occurrence Download

description: A dataset containing 38451 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Actias luna",
 "Year 1900-2025"
 ]
}

 The dataset includes 38451 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046068-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/tr8rjnc7zn
title: Evaporation of levitating microdroplets containing nanoparticles: luminescent upconverting Gd2O3:Er3+, illumination with 805 nm laser from below via optical fiber, collection with cooled-sensor spectrometer

description: Microdroplets of suspension were levitated in a linear quadrupole trap and studied similarly as described, e.g. in Y. Shopa et al., JQSRT 296 (2023), but illumination with an 805 nm diode laser (CW, ~1.5 W), which excited luminescence by up-conversion, was provided (vertically) from below via a 200 micrometer-core fiber for circularization. Its polarization was p. In some experiments, the droplet was additionally illuminated with a 515 nm diode laser with p-polarisation. The suspended phase consisted of nanoparticles of Gd2O3:Er3+ or Gd2O3:Nd3+ of several concentrations. The continuous phase consisted of diethylene glycol (2EG). The data is divided into the corresponding folders. In this series of experiments, a grating spectrometer with a cooled sensor was used (Simtrum MC/400-930), which enabled shorter integration times. Two groups of spectral lines were visible (green (stronger) and red). We followed the temporal evolution of several selected lines, both in luminescence and in scattering at right angle (in this series of experiments, usually 515, 523, 538, 550, 554, 560, 563, 630, 654, 661, 682, 805 nm): files *-Spectra.csv, where * (in hh_mm_ss format) always denotes the time of measurement file creation. Simultaneously, the shadow image of the droplet was recorded (non-coherent light, 630 nm LED) - in some cases, a movie: *_Shadow-*.avi is provided. The droplet radius was measured by fitting an ellipse to the shadow edge. The ellipse parameters' temporal evolution is stored in *-Shadow.csv files: time, mean diameter (mean of the ellipse axes), long axis rotation, X and Y of the centre, long and short axis, border length, X and Y of “the centre of mass” of the border, fitting error. The microdroplet's vertical position was stabilised with a DC field. The corresponding voltage variation and other stabilisation system parameters are stored in *.csv files: KeyStab: 0 – stabilisation off, 2 – on, k_PID – proportionality parameter of the software voltage regulator, freq – trapping AC field frequency – usually has no sense in this series of measurements, since it was provided from a manually controlled generator. Time stored in the corresponding files was synchronised. In-focus movies (Images_*.avi, see readme.txt for details) of the evaporating microdroplet were recorded for certain experiments to illustrate its evolution – no synchronisation is available. It must be kept in mind that the observed image is, for the most part laser speckle. The "Laser on/off" pertains to the 805 nm laser. Further details can be found in the readme.txt files in the corresponding folder. (No)_th_spectrum.csv represents the ith recorded spectrum from the corresponding experiment. The parameters of the Gd2O3:Er3+ samples can be found in the .ppt file.
DOI: 10.17632/tr8rjnc7zn.1
title: Evaporation of levitating microdroplets containing nanoparticles: luminescent upconverting Gd2O3:Er3+, illumination with 805 nm laser from below via optical fiber, collection with cooled-sensor spectrometer

description: Microdroplets of suspension were levitated in a linear quadrupole trap and studied similarly as described, e.g. in Y. Shopa et al., JQSRT 296 (2023), but illumination with an 805 nm diode laser (CW, ~1.5 W), which excited luminescence by up-conversion, was provided (vertically) from below via a 200 micrometer-core fiber for circularization. Its polarization was p. In some experiments, the droplet was additionally illuminated with a 515 nm diode laser with p-polarisation. The suspended phase consisted of nanoparticles of Gd2O3:Er3+ or Gd2O3:Nd3+ of several concentrations. The continuous phase consisted of diethylene glycol (2EG). The data is divided into the corresponding folders. In this series of experiments, a grating spectrometer with a cooled sensor was used (Simtrum MC/400-930), which enabled shorter integration times. Two groups of spectral lines were visible (green (stronger) and red). We followed the temporal evolution of several selected lines, both in luminescence and in scattering at right angle (in this series of experiments, usually 515, 523, 538, 550, 554, 560, 563, 630, 654, 661, 682, 805 nm): files *-Spectra.csv, where * (in hh_mm_ss format) always denotes the time of measurement file creation. Simultaneously, the shadow image of the droplet was recorded (non-coherent light, 630 nm LED) - in some cases, a movie: *_Shadow-*.avi is provided. The droplet radius was measured by fitting an ellipse to the shadow edge. The ellipse parameters' temporal evolution is stored in *-Shadow.csv files: time, mean diameter (mean of the ellipse axes), long axis rotation, X and Y of the centre, long and short axis, border length, X and Y of “the centre of mass” of the border, fitting error. The microdroplet's vertical position was stabilised with a DC field. The corresponding voltage variation and other stabilisation system parameters are stored in *.csv files: KeyStab: 0 – stabilisation off, 2 – on, k_PID – proportionality parameter of the software voltage regulator, freq – trapping AC field frequency – usually has no sense in this series of measurements, since it was provided from a manually controlled generator. Time stored in the corresponding files was synchronised. In-focus movies (Images_*.avi, see readme.txt for details) of the evaporating microdroplet were recorded for certain experiments to illustrate its evolution – no synchronisation is available. It must be kept in mind that the observed image is, for the most part laser speckle. The "Laser on/off" pertains to the 805 nm laser. Further details can be found in the readme.txt files in the corresponding folder. (No)_th_spectrum.csv represents the ith recorded spectrum from the corresponding experiment. The parameters of the Gd2O3:Er3+ samples can be found in the .ppt file.
DOI: 10.17632/bc7j8c6swb
title: Open Reading Frames (ORFs) and annotations from the paired-end transcriptome outputs of deep-sea zoanthid Zibrowius primnoidus RNASeq data

description: This dataset contains Open Reading Frames (ORFs) and associated annotations obtained from the paired-end transcriptome outputs of the deep-sea zoanthid Zibrowius primnoidus RNASeq data. The dataset includes the following files:

From TransDecoder analyses:

• Zibrowius_primnoidus_assembly.Trinity.fasta.transdecoder.cds: Nucleotide sequences for coding regions of the final candidate ORFs, obtained with TransDecoder from the paired-end transcriptome assembly of Zibrowius primnoidus.

• Zibrowius_primnoidus_assembly.Trinity.fasta.transdecoder.gff3: Genomic-style coordinates of the final selected ORFs on the Trinity transcripts from the paired-end transcriptome of Zibrowius primnoidus.

• Zibrowius_primnoidus_assembly.Trinity.fasta.transdecoder.pep: Peptide sequences for the final candidate ORFs, predicted by TransDecoder from the paired-end transcriptome of Zibrowius primnoidus.

• Zibrowius_primnoidus_assembly.Trinity.fasta.transdecoder.bed: BED-formatted file describing ORF positions on the Trinity transcripts, suitable for visualisation in genome browsers such as IGV or GenomeView.

From similarity and domain-based annotation:

• Uniref90_metazoa.diamond.blastp.outfmt6.w_pct_hit_length: DIAMOND BLASTp results of predicted proteins against the UniRef90 metazoa database, including the top hit length and the percentage of the hit covered by the alignment for each ORF.

• pfam.domtblout: Pfam domain annotations for the predicted proteins in the de novo transcriptome assembly of Zibrowius primnoidus.

From Trinotate analyses:

• Zibrowius_primnoidus_assembly.Trinity.annotation_report.tsv: Comprehensive annotation table generated by Trinotate, including BLAST, Pfam, signal peptide and transmembrane predictions, and other functional annotations for the paired-end de novo assembly of Zibrowius primnoidus.

• Zibrowius_primnoidus_assembly.Trinity.annotation_report.html.cXp_summary.html: HTML summary report from Trinotate, providing an overview of the functional annotation and transcript features of the Zibrowius primnoidus assembly.
DOI: 10.17632/bc7j8c6swb.1
title: Open Reading Frames (ORFs) and annotations from the paired-end transcriptome outputs of deep-sea zoanthid Zibrowius primnoidus RNASeq data

description: This dataset contains Open Reading Frames (ORFs) and associated annotations obtained from the paired-end transcriptome outputs of the deep-sea zoanthid Zibrowius primnoidus RNASeq data. The dataset includes the following files:

From TransDecoder analyses:

• Zibrowius_primnoidus_assembly.Trinity.fasta.transdecoder.cds: Nucleotide sequences for coding regions of the final candidate ORFs, obtained with TransDecoder from the paired-end transcriptome assembly of Zibrowius primnoidus.

• Zibrowius_primnoidus_assembly.Trinity.fasta.transdecoder.gff3: Genomic-style coordinates of the final selected ORFs on the Trinity transcripts from the paired-end transcriptome of Zibrowius primnoidus.

• Zibrowius_primnoidus_assembly.Trinity.fasta.transdecoder.pep: Peptide sequences for the final candidate ORFs, predicted by TransDecoder from the paired-end transcriptome of Zibrowius primnoidus.

• Zibrowius_primnoidus_assembly.Trinity.fasta.transdecoder.bed: BED-formatted file describing ORF positions on the Trinity transcripts, suitable for visualisation in genome browsers such as IGV or GenomeView.

From similarity and domain-based annotation:

• Uniref90_metazoa.diamond.blastp.outfmt6.w_pct_hit_length: DIAMOND BLASTp results of predicted proteins against the UniRef90 metazoa database, including the top hit length and the percentage of the hit covered by the alignment for each ORF.

• pfam.domtblout: Pfam domain annotations for the predicted proteins in the de novo transcriptome assembly of Zibrowius primnoidus.

From Trinotate analyses:

• Zibrowius_primnoidus_assembly.Trinity.annotation_report.tsv: Comprehensive annotation table generated by Trinotate, including BLAST, Pfam, signal peptide and transmembrane predictions, and other functional annotations for the paired-end de novo assembly of Zibrowius primnoidus.

• Zibrowius_primnoidus_assembly.Trinity.annotation_report.html.cXp_summary.html: HTML summary report from Trinotate, providing an overview of the functional annotation and transcript features of the Zibrowius primnoidus assembly.
DOI: 10.17632/p7zffz7rv8
title: Behavioral Simulation and Discourse Analysis of Institutional Corruption Framing

description: This dataset supports the manuscript “Framing Institutional Corruption: A Behavioral Simulation of Moral Judgment and Accountability Narratives.” It provides the complete corpus, frame dictionaries, Python scripts, and simulation outputs used to examine how discursive framing—reformist, punitive/responsibility-forward, and neutral—reweights moral judgment, blame attribution, and trust under controlled, theory-guided conditions. The package enables full replication of the Phase 1 discourse analysis and the Phase 2 behavioral simulation and is intended for use in behavioral ethics, organizational studies, and computational social science.
DOI: 10.17632/p7zffz7rv8.3
title: Behavioral Simulation and Discourse Analysis of Institutional Corruption Framing

description: This dataset supports the manuscript “Framing Institutional Corruption: A Behavioral Simulation of Moral Judgment and Accountability Narratives.” It provides the complete corpus, frame dictionaries, Python scripts, and simulation outputs used to examine how discursive framing—reformist, punitive/responsibility-forward, and neutral—reweights moral judgment, blame attribution, and trust under controlled, theory-guided conditions. The package enables full replication of the Phase 1 discourse analysis and the Phase 2 behavioral simulation and is intended for use in behavioral ethics, organizational studies, and computational social science.
DOI: 10.17632/mz87hy4knp
title: Exploration of Microalgae from Tasik Tun Telanai in 2025

description: The dataset includes raw UV–Vis absorbance data at 680 nm for monitoring microalgal growth, BSLT toxicity data for lipids isolated from the cultures, and GC–MS lipid profiles for Ankistrodesmus sp explored and isolated from Tasik Tun Telanai, an artificial small lake in the vicinity of Universitas Jambi, Indonesia.
DOI: 10.17632/mz87hy4knp.1
title: Exploration of Microalgae from Tasik Tun Telanai in 2025

description: The dataset includes raw UV–Vis absorbance data at 680 nm for monitoring microalgal growth, BSLT toxicity data for lipids isolated from the cultures, and GC–MS lipid profiles for Ankistrodesmus sp explored and isolated from Tasik Tun Telanai, an artificial small lake in the vicinity of Universitas Jambi, Indonesia.
DOI: 10.17632/xhzmd6v29r
title: Tuberculous INAA

description: Tuberculous INAA
DOI: 10.17632/xhzmd6v29r.1
title: Tuberculous INAA

description: Tuberculous INAA
DOI: 10.17632/xtc69y5fny
title: Background data of Chengmai basaltic weathering profile

description: The dataset is the background data for the Chengmai basaltic weathering profile and contains the major elements, trace elements, mineralogical compositions, elemental and B isotopic compositions of the weathering production of the Chengmai basaltic weathering profile.
DOI: 10.17632/xtc69y5fny.2
title: Background data of Chengmai basaltic weathering profile

description: The dataset is the background data for the Chengmai basaltic weathering profile and contains the major elements, trace elements, mineralogical compositions, elemental and B isotopic compositions of the weathering production of the Chengmai basaltic weathering profile.
DOI: 10.17632/mrrxsgfrh2
title: Results and raw data - Ex-vivo culture of the human heart

description: Raw data for metabolomics and proteomics analysis performed on cultured living myocardial slices from HCM patients at different time points in culture (28 days).
DOI: 10.17632/mrrxsgfrh2.1
title: Results and raw data - Ex-vivo culture of the human heart

description: Raw data for metabolomics and proteomics analysis performed on cultured living myocardial slices from HCM patients at different time points in culture (28 days).
DOI: 10.17632/tp7ms4hrx4
title: Generation and NGS profiling of naïve rabbit antibody libraries for efficient monoclonal antibody selection

description: Illumina merge data of the variable domains of two naive rabbit scFv phage display libraries: VH domain (Vκ-VH and Vλ-VH library), Vκ domain (Vκ-VH) and Vλ domain (Vλ-VH library).
DOI: 10.17632/tp7ms4hrx4.1
title: Generation and NGS profiling of naïve rabbit antibody libraries for efficient monoclonal antibody selection

description: Illumina merge data of the variable domains of two naive rabbit scFv phage display libraries: VH domain (Vκ-VH and Vλ-VH library), Vκ domain (Vκ-VH) and Vλ domain (Vλ-VH library).
DOI: 10.17632/frjxbrfx38.1
title: Supplementary Data for "The Diversity of Emerging Tick-Borne Viruses Globally: From Discoveries to Zoonotic Risk Assessment"

description: This dataset contains supplementary materials supporting the research article "The Diversity of Emerging Tick-Borne Viruses Globally: From Discoveries to Zoonotic Risk Assessment" (Manuscript ID: MED-D-25-00650R3). It includes eight supplementary figures and one literature search results file. The supplementary figures (S1–S8) provide detailed phylogenetic analyses of emerging tick-borne viruses (TBVs): Figures S1–S6 and S8 present phylogenetic trees of 19 viral families (including RNA and DNA viruses) based on conserved genes (e.g., RdRp, ORF1, Capsid protein), while Figure S7 offers dual-gene phylogenetic analysis of the Nodaviridae family. These analyses complement the main text Figure 1 and validate the taxonomic classification and evolutionary relationships of TBVs described in the STAR Methods. The literature search results file lists all references included in the study’s dataset, supporting the data collection and analysis for Figures 1–4 and Data S1–S6 in the main manuscript. This dataset facilitates the reproduction of phylogenetic analyses and transparency of literature sources, aiding further research on TBV diversity and zoonotic risk.