cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26995557.v1
title: Additional file 4 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 4. Excel table summarizing proteotranscriptomic results. First sheet contains results for venom and defensive secretion for the Greifswald and Oslo populations, including contigs names, protein families, presence of signal peptide region, full and predicted mature sequence, secretion containing each protein, and number of high confidence peptide matches (&gt;95 %) in each sample. For the Oslo population, the differential expression results, and corresponding sub-cluster where applicable, are included either for each contig or for the contig retained after clustering nucleotide sequences at 95 % identity. Second sheet includes summary of results used for annotation of Greifswald data in the phylogenetic trees. Third and fourth sheets contain protein summary of the proteomic analyses of the leg proteomes of the anterior and posterior legs, respectively, trimmed to a local predicted false discovery rate &lt; 1 %.
DOI: 10.6084/m9.figshare.26995560.v1
title: Additional file 5 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 5. Text file containing multiple sequence alignments in fasta format separated by “## ” that were used for phylogenetic reconstruction of toxin-like protein families identified in the telopodal secretion.
DOI: 10.6084/m9.figshare.26995563.v1
title: Additional file 6 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 6. Compressed archive with matrices of counts, transcripts per million (TPM), and trimmed means of M-value (TMM) normalised expression values.
DOI: 10.6084/m9.figshare.26995566
title: Additional file 7 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 7. Compressed archive containing matrices of median-centered fpkm values for each differentially expressed sub-cluster, as well as fasta files with transcripts belonging to each sub-cluster.
DOI: 10.6084/m9.figshare.26995566.v1
title: Additional file 7 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 7. Compressed archive containing matrices of median-centered fpkm values for each differentially expressed sub-cluster, as well as fasta files with transcripts belonging to each sub-cluster.
DOI: 10.6084/m9.figshare.26995572
title: Additional file 9 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 9. All-against-all blastp similarity matrix of all 6029 sequences used in the CLANS clustering analysis.
DOI: 10.6084/m9.figshare.26995575
title: Additional file 1 of Colonization of the ocean floor by jawless vertebrates across three mass extinctions

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.26995569.v1
title: Additional file 8 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 8. Custom centipede toxin database with sequences obtained from published datasets [37].
DOI: 10.6084/m9.figshare.26995572.v1
title: Additional file 9 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 9. All-against-all blastp similarity matrix of all 6029 sequences used in the CLANS clustering analysis.
DOI: 10.6084/m9.figshare.26995578
title: Additional file 1 of Wnt/β-catenin signaling in the development and therapeutic resistance of non-small cell lung cancer

description: Supplementary Material 1
DOI: 10.15468/dl.5qfre2
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "TaxonKey is Psychotria viridis Ruiz & Pav."
 ]
}

 The dataset includes 79 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011694-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26995584
title: Additional file 2 of CpG island turnover events predict evolutionary changes in enhancer activity

description: Additional file 2: Supplementary tables S1-S12.
DOI: 10.6084/m9.figshare.26995584.v1
title: Additional file 2 of CpG island turnover events predict evolutionary changes in enhancer activity

description: Additional file 2: Supplementary tables S1-S12.
DOI: 10.6084/m9.figshare.26995548.v1
title: Additional file 4 of Not too old to rock: ESR and OSL dating reveal Quaternary activity of the Periadriatic Fault in the Alps

description: Additional file 4. Additional file data of the OSL dating results. Fit parameters of the laboratory dose response curves from the pIRIR225 and IR50 signals, Rho’, g values, and fit parameters of the simulated natural dose response curves.
DOI: 10.6084/m9.figshare.26995578.v1
title: Additional file 1 of Wnt/β-catenin signaling in the development and therapeutic resistance of non-small cell lung cancer

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26995575.v1
title: Additional file 1 of Colonization of the ocean floor by jawless vertebrates across three mass extinctions

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.26995590
title: Additional file 1 of From wings to whiskers to stem cells: why every model matters in fragile X syndrome research

description: Supplementary Table S1. Summary of phenotypes found in Fragile X Syndrome patients and the drosophila, mouse, and human in vitro models of Fragile X Syndrome
DOI: 10.6084/m9.figshare.26995590.v1
title: Additional file 1 of From wings to whiskers to stem cells: why every model matters in fragile X syndrome research

description: Supplementary Table S1. Summary of phenotypes found in Fragile X Syndrome patients and the drosophila, mouse, and human in vitro models of Fragile X Syndrome
DOI: 10.6084/m9.figshare.26995650
title: Additional file 1 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 1: Table S1. Statistics of base information before and after filtering.
DOI: 10.6084/m9.figshare.26995650.v1
title: Additional file 1 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 1: Table S1. Statistics of base information before and after filtering.
DOI: 10.6084/m9.figshare.26995653
title: Additional file 2 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 2: Table S2. Reads filter information statistics.
DOI: 10.6084/m9.figshare.26995680.v1
title: Additional file 11 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 11: Table S11. KEGG enrichment (shared genes).
DOI: 10.6084/m9.figshare.26995653.v1
title: Additional file 2 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 2: Table S2. Reads filter information statistics.
DOI: 10.6084/m9.figshare.26995656
title: Additional file 3 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 3: Table S3. The statistical results of each sample were compared with the reference genome.
DOI: 10.6084/m9.figshare.26995656.v1
title: Additional file 3 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 3: Table S3. The statistical results of each sample were compared with the reference genome.
DOI: 10.6084/m9.figshare.26995665
title: Additional file 6 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 6: Table S6. GO enrichment (GBB vs GBW).
DOI: 10.6084/m9.figshare.26995665.v1
title: Additional file 6 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 6: Table S6. GO enrichment (GBB vs GBW).
DOI: 10.6084/m9.figshare.26995659
title: Additional file 4 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 4: Table S4. Sequencing depth of each sample.
DOI: 10.6084/m9.figshare.26995668
title: Additional file 7 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 7: Table S7. KEGG enrichment (GBB vs GBW).
DOI: 10.6084/m9.figshare.26995674
title: Additional file 9 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 9: Table S9. KEGG enrichment (GBW vs GBB).
DOI: 10.6084/m9.figshare.26995662
title: Additional file 5 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 5: Table S5. Select the genes for signal screening.
DOI: 10.6084/m9.figshare.26995671
title: Additional file 8 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 8: Table S8. GO enrichment (GBW vs GBB).
DOI: 10.6084/m9.figshare.26995671.v1
title: Additional file 8 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 8: Table S8. GO enrichment (GBW vs GBB).
DOI: 10.6084/m9.figshare.26995674.v1
title: Additional file 9 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 9: Table S9. KEGG enrichment (GBW vs GBB).
DOI: 10.6084/m9.figshare.26995677
title: Additional file 10 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 10: Table S10. GO enrichment (shared genes).
DOI: 10.6084/m9.figshare.26995677.v1
title: Additional file 10 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 10: Table S10. GO enrichment (shared genes).
DOI: 10.6084/m9.figshare.26995680
title: Additional file 11 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 11: Table S11. KEGG enrichment (shared genes).
DOI: 10.6084/m9.figshare.26995659.v1
title: Additional file 4 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 4: Table S4. Sequencing depth of each sample.
DOI: 10.6084/m9.figshare.26995662.v1
title: Additional file 5 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 5: Table S5. Select the genes for signal screening.
DOI: 10.6084/m9.figshare.26995668.v1
title: Additional file 7 of Selection signatures of wool color in Gangba sheep revealed by genome-wide SNP discovery

description: Supplementary Material 7: Table S7. KEGG enrichment (GBB vs GBW).
DOI: 10.6084/m9.figshare.26995686.v1
title: Additional file 2 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 2. Related to Fig. 2A. List of differentially expressed genes (DEGs) in HEK-293T cells (1x106) treated with Solution-3 at 0.01x concentration for 24 hours. Vehicle-treated cells (0.08% NaCl) were used as negative control for the experiments. RNAseq analyses showed n.1210 differentially expressed genes (DEGs; fold-change of 2, p-value &lt;0.05). Among these, n.732 and n.478 genes were found up- or down-regulated, respectively. The gene symbol, the fold-change and the p-value are shown.
DOI: 10.6084/m9.figshare.26995695.v1
title: Additional file 5 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 5. Related to Fig. 2E and S2A. List of KEGG pathway enrichment test results showing the enrichment of each gene from the gene set obtained in RNAseq analyses performed on Caco-2 cells (1x106) treated with Solution-3 at 0.01x concentration for 24 hours. Vehicle-treated cells (0.08% NaCl) were used as negative control for the experiments. The pathway terms, the gene symbol, the fold-change and the p-value (from the modified fisher’s exact test) are shown.
DOI: 10.6084/m9.figshare.26995692
title: Additional file 4 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 4. Related to Fig. 2D. List of differentially expressed genes (DEGs) in Caco-2 cells (1x106) treated with Solution-3 at 0.01x concentration for 24 hours. Vehicle-treated cells (0.08% NaCl) were used as negative control for the experiments. RNAseq analyses showed n. 1292 differentially expressed genes (DEGs; fold-change of 2, p-value &lt;0.05). Among these, n. 700 and n. 592 genes were found up- or down-regulated, respectively. The gene symbol, the fold-change and the p-value are shown.
DOI: 10.6084/m9.figshare.26995695
title: Additional file 5 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 5. Related to Fig. 2E and S2A. List of KEGG pathway enrichment test results showing the enrichment of each gene from the gene set obtained in RNAseq analyses performed on Caco-2 cells (1x106) treated with Solution-3 at 0.01x concentration for 24 hours. Vehicle-treated cells (0.08% NaCl) were used as negative control for the experiments. The pathway terms, the gene symbol, the fold-change and the p-value (from the modified fisher’s exact test) are shown.
DOI: 10.6084/m9.figshare.26995686
title: Additional file 2 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 2. Related to Fig. 2A. List of differentially expressed genes (DEGs) in HEK-293T cells (1x106) treated with Solution-3 at 0.01x concentration for 24 hours. Vehicle-treated cells (0.08% NaCl) were used as negative control for the experiments. RNAseq analyses showed n.1210 differentially expressed genes (DEGs; fold-change of 2, p-value &lt;0.05). Among these, n.732 and n.478 genes were found up- or down-regulated, respectively. The gene symbol, the fold-change and the p-value are shown.
DOI: 10.6084/m9.figshare.26995692.v1
title: Additional file 4 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 4. Related to Fig. 2D. List of differentially expressed genes (DEGs) in Caco-2 cells (1x106) treated with Solution-3 at 0.01x concentration for 24 hours. Vehicle-treated cells (0.08% NaCl) were used as negative control for the experiments. RNAseq analyses showed n. 1292 differentially expressed genes (DEGs; fold-change of 2, p-value &lt;0.05). Among these, n. 700 and n. 592 genes were found up- or down-regulated, respectively. The gene symbol, the fold-change and the p-value are shown.
DOI: 10.6084/m9.figshare.26995698.v1
title: Additional file 6 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 6. Related to Figure S2B. List of the proteins encoded by those DEGs belonging to ‘pathway in cancer’ as obtained from KEGG enrichment analysis on RNAseq data performed in Caco-2 cells (1x106) treated with Solution-3 at 0.01x concentration or vehicle (0.8% NaCl) for 24 hours (see Additional file 5). These proteins are used as ‘input’ for the analysis with ‘Search Tool for Retrieval of Interacting Genes/Proteins’ (STRING) database. The protein names and the description of their pathways/ functions (from STRING Resources) are shown.
DOI: 10.6084/m9.figshare.26995704
title: Additional file 8 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 8. Related to Figure 4C. List of differentially expressed genes (DEGs) in SARS-CoV-2-infected Caco-2 cells (5x105) pre-treated with solution-3 or with vehicle (0.8% NaCl). RNAseq analyses showed n.5353 DEGs (fold-change of 2, p-value &lt;0.05) upon treatment with the nutraceutical formula, with n.2814 and n.2539 up- or down-regulated genes, respectively. The gene symbol, the fold-change and the p-value are shown.
DOI: 10.6084/m9.figshare.26995707
title: Additional file 9 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 9. Related to Fig. 4D. List of KEGG pathway enrichment test results showing the enrichment of each gene from the gene set obtained in RNAseq analyses performed on SARS-CoV-2-infected Caco-2 cells (5x105) pre-treated with solution-3 or with vehicle (0.8% NaCl). The pathway terms, the gene symbol, the fold-change and the p-value (from the modified fisher’s exact test) are shown.
DOI: 10.6084/m9.figshare.26995707.v1
title: Additional file 9 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 9. Related to Fig. 4D. List of KEGG pathway enrichment test results showing the enrichment of each gene from the gene set obtained in RNAseq analyses performed on SARS-CoV-2-infected Caco-2 cells (5x105) pre-treated with solution-3 or with vehicle (0.8% NaCl). The pathway terms, the gene symbol, the fold-change and the p-value (from the modified fisher’s exact test) are shown.
DOI: 10.6084/m9.figshare.26995689
title: Additional file 3 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 3. Related to Fig. 2B and S1A. List of KEGG pathway enrichment test results showing the enrichment of each gene from the gene set obtained in RNAseq analyses performed on HEK-293T cells (1x106) treated with Solution-3 at 0.01x concentration for 24 hours. Vehicle-treated cells (0.08% NaCl) were used as negative control for the experiments. The pathway terms, the gene symbol, the fold-change and the p-value (from the modified fisher’s exact test) are shown.
DOI: 10.6084/m9.figshare.26995689.v1
title: Additional file 3 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 3. Related to Fig. 2B and S1A. List of KEGG pathway enrichment test results showing the enrichment of each gene from the gene set obtained in RNAseq analyses performed on HEK-293T cells (1x106) treated with Solution-3 at 0.01x concentration for 24 hours. Vehicle-treated cells (0.08% NaCl) were used as negative control for the experiments. The pathway terms, the gene symbol, the fold-change and the p-value (from the modified fisher’s exact test) are shown.
DOI: 10.6084/m9.figshare.26995698
title: Additional file 6 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 6. Related to Figure S2B. List of the proteins encoded by those DEGs belonging to ‘pathway in cancer’ as obtained from KEGG enrichment analysis on RNAseq data performed in Caco-2 cells (1x106) treated with Solution-3 at 0.01x concentration or vehicle (0.8% NaCl) for 24 hours (see Additional file 5). These proteins are used as ‘input’ for the analysis with ‘Search Tool for Retrieval of Interacting Genes/Proteins’ (STRING) database. The protein names and the description of their pathways/ functions (from STRING Resources) are shown.
DOI: 10.6084/m9.figshare.26995710
title: Additional file 10 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 10. Densitometry analyses related to Fig. 1H, qPCR data with the relative expression values (i.e., 2-ΔCt) and fold on vehicle controls (i.e., 2-ΔΔCt) related to Figs. 2C, 4B, E, 5B, D, S2C, S3B, the number and percentage of syncytia related to Figures 5E-G, and the optical density at A600 nm values related to Fig. 3, are shown.
DOI: 10.6084/m9.figshare.26995701
title: Additional file 7 of Modulation of innate immunity related genes resulting in prophylactic antimicrobial and antiviral properties

description: Additional file 7. Related to Figure S2B. Biological processes related to the proteins of the interaction network generated via the Search Tool for the Retrieval of Interacting Genes/ Proteins (STRING) database ( https://string-db.org ) by using proteins encoded by those DEGs taking part to ‘pathway in cancer’ in KEGG pathway enrichment analyses performed on RNAseq data obtained from Caco-2 cells treated with Solution-3 (0.01x) or vehicle (0.8% NaCl) for 24 hours (see Additional file 5-6). The proteins belonging to biological processes involved in immune system and inflammation are indicated in bold: positive regulation of immune system process (GO:0002684, fdr = 0.0011), inflammatory response (GO:0006954, fdr = 0.0049), leukocyte differentiation (GO:0002521, fdr = 0.0051), regulation of T cell differentiation in thymus (GO:0033081, fdr = 0.0057), response to cytokine (GO:0034097, false discovery rate [fdr] = 0.0107), mononuclear cell differentiation (GO:1903131, fdr = 0.0110) regulation of phagocytosis (GO:0050764, fdr = 0.0112), cytokine-mediated signaling pathway (GO:0019221, fdr = 0.0197), cellular response to cytokine stimulus (GO:0071345, fdr = 0.0208), myeloid leukocyte differentiation (GO:0002573, fdr = 0.0228), leukocyte migration (GO:0050900, fdr = 0.0236), positive regulation of T cell differentiation in thymus (GO:0033089, fdr = 0.0268), regulation of leukocyte activation (GO:0002694, fdr = 0.0342), alpha-beta T cell differentiation (GO:0046632, fdr = 0.0394), T cell differentiation (GO:0030217, fdr = 0.0433) and positive regulation of phagocytosis (GO:0050766, fdr = 0.0448). The term ID, the term description, the observed gene count, the background gene count, the strength, the false discovery rate (frd) and the matching proteins in the network are shown.