cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.nq4x25
title: Occurrence Download

description: A dataset containing 12464 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pyrisitia nise (Cramer, 1775)"
 ]
}

 The dataset includes 12464 records from 98 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037971-241126133413365/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.c.3633470_d16.v1
title: Additional file 17: Tree S7. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: POY Tree, estimated using parameter scheme 121 (see Methods section). (TRE 12 kb)
DOI: 10.6084/m9.figshare.c.3633470_d17.v1
title: Additional file 12: Tree S3. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: Scarabaeinae ML tree of dataset DT3. (TREE 37 kb)
DOI: 10.6084/m9.figshare.c.3633470_d18.v1
title: Additional file 2: Table S2. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: List of genera with author citations. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3633470_d19.v1
title: Additional file 15: Tree S5. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: MrBayes 50% majority consensus tree with collapsed ambiguous branches (see Additional file 6 for details). (TRE 21 kb)
DOI: 10.15468/dl.2wmgy6
title: Occurrence Download

description: A dataset containing 495 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cichla kelberi Kullander & Ferreira, 2006"
 ]
}

 The dataset includes 495 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037972-241126133413365/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.c.3633470_d20.v1
title: Additional file 11: Tree S2. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: Scarabaeinae ML tree of dataset G20. (TREE 37 kb)
DOI: 10.6084/m9.figshare.c.3633539_d3.v1
title: Additional file 6: of Comparative genomics and biological characterization of sequential Pseudomonas aeruginosa isolates from persistent airways infection

description: Non-synonymous SNPs between prototype strain PA14 and strains RP73, RP45 and RP1 located in known virulence factors. (XLS 31Â kb)
DOI: 10.6084/m9.figshare.c.3633470_d21.v1
title: Additional file 3: Matrix S1. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: Data matrix used in the phylogenetic analyses. (NEX 3130 kb)
DOI: 10.6084/m9.figshare.c.3633656_d3.v1
title: Additional file 2: Table S2. of MicroRNA-200c and microRNA-31 regulate proliferation, colony formation, migration and invasion in serous ovarian cancer

description: Complete list of the 85 miRNAs evaluated across all samples. (XLSX 50 kb)
DOI: 10.6084/m9.figshare.c.3633665_d1.v1
title: Additional file 1: of 
                     Plasmodium parasites mount an arrest response to dihydroartemisinin, as revealed by whole transcriptome shotgun sequencing (RNA-seq) and microarray study

description: Microarray data analysis from DHA treatment. Limma results from 1, 2, and 3Â h 500 nM DHA treatments in P. falciparum K1 trophozoites. (XLS 2986Â kb)
DOI: 10.6084/m9.figshare.c.3633665_d2.v1
title: Additional file 6: of 
                     Plasmodium parasites mount an arrest response to dihydroartemisinin, as revealed by whole transcriptome shotgun sequencing (RNA-seq) and microarray study

description: Summary of RNA-seq data preprocessing and read mapping to reference genomes. (XLS 7464Â kb)
DOI: 10.6084/m9.figshare.c.3633623_d9.v1
title: Additional file 3: of Sea lampreys elicit strong transcriptomic responses in the lake trout liver during parasitism

description: Lean DESeq2: DESeq2 analysis of transcripts from parasitized versus nonparasitized lean livers. (XLSX 7559 kb)
DOI: 10.6084/m9.figshare.c.3633671_d1.v1
title: Additional file 3: of KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily

description: Supplementary File S3. KinMutRF predictions on the human Bruton agammaglobulinemia tyrosine kinase domain. (XLSX 141 kb)
DOI: 10.6084/m9.figshare.c.3633671_d2.v1
title: Additional file 4: of KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily

description: Supplementary File S2. KinMutRF predictions on the unclassified variants in UniProt, including the prediction features that describe each variant. (TXT 155 kb)
DOI: 10.6084/m9.figshare.c.3633665_d3.v1
title: Additional file 4: of 
                     Plasmodium parasites mount an arrest response to dihydroartemisinin, as revealed by whole transcriptome shotgun sequencing (RNA-seq) and microarray study

description: RNA-seq data analysis from DHA treatment of P. falciparum Limma results from 1Â h treatments with 500 nM DHA in P. falciparum K1 rings, trophozoites and schizonts. (XLS 2040Â kb)
DOI: 10.6084/m9.figshare.c.3633671_d3.v1
title: Additional file 2: of KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily

description: Supplementary File S1. Training datasets used for 10-fold cross-validation experiment. File formats include weka and plain text. (ZIP 482 kb)
DOI: 10.6084/m9.figshare.c.3633677_d1.v1
title: Additional file 1: Table S1. of Comparative Phylogeography of Ethiopian anurans: impact of the Great Rift Valley and Pleistocene climate change

description: Samples used in this study, including collecting localities and GenBank accession numbers. (XLSX 51 kb)
DOI: 10.6084/m9.figshare.c.3633665_d4.v1
title: Additional file 5: of 
                     Plasmodium parasites mount an arrest response to dihydroartemisinin, as revealed by whole transcriptome shotgun sequencing (RNA-seq) and microarray study

description: RNA-seq data analysis from DHA treatment of P. berghei. Limma results from in vivo 2Â h treatments of mice infected P. berghei ANKA and injected with 10Â mg/kg DHA or vehicle control. (XLS 809Â kb)
DOI: 10.6084/m9.figshare.c.3633677_d2.v1
title: Additional file 2: Table S2. of Comparative Phylogeography of Ethiopian anurans: impact of the Great Rift Valley and Pleistocene climate change

description: Primers used in this study. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3633665_d6.v1
title: Additional file 2: of 
                     Plasmodium parasites mount an arrest response to dihydroartemisinin, as revealed by whole transcriptome shotgun sequencing (RNA-seq) and microarray study

description: Microarray meta-analysis of ART treatments. Data input file and RPadvance meta-analysis of microarray data from DHA (this study), artemisinin [5] and artesunate [4] treatments of P. falciparum trophozoites. (XLS 1911Â kb)
DOI: 10.6084/m9.figshare.c.3634337_d2.v1
title: MOESM10 of Genome-wide association studies of immune, disease and production traits in indigenous chicken ecotypes

description: Additional file 10: Tables S9 and S10. List of selected candidate genes for immune, disease and productivity traits studied in Jarso (Table S9) and Horro (Table S10) chickens.
DOI: 10.6084/m9.figshare.c.3634457_d1.v1
title: Additional file 2 of ChromNet: Learning the human chromatin network from all ENCODE ChIP-seq data

description: ENCODE data sets used in ChromNet (1451 total). (TXT 34 kb)
DOI: 10.6084/m9.figshare.c.3634463_d1.v1
title: MOESM7 of Transcriptional analysis of porcine intestinal mucosa infected with Salmonella Typhimurium revealed a massive inflammatory response and disruption of bile acid absorption in ileum

description: Additional file 7: Biological pathway analysis of the predicted miRNA targets. Functional analysis of the miRNA target genes, showing the canonical pathways altered in S. Typhimurium infection.
DOI: 10.6084/m9.figshare.c.3634463_d2.v1
title: MOESM6 of Transcriptional analysis of porcine intestinal mucosa infected with Salmonella Typhimurium revealed a massive inflammatory response and disruption of bile acid absorption in ileum

description: Additional file 6: Results of prediction analysis of miRNA target genes. Prediction of target genes of miRNAs found differentially expressed in the porcine ileum at 2 dpi, describing data sources and confidence of the analysis.
DOI: 10.6084/m9.figshare.c.3634463_d3.v1
title: MOESM3 of Transcriptional analysis of porcine intestinal mucosa infected with Salmonella Typhimurium revealed a massive inflammatory response and disruption of bile acid absorption in ileum

description: Additional file 3: mRNA expression microarray results of the Salmonella-infected porcine gut. Results of the differential gene expression from infected pigs at 1, 2 and 6 dpi compared to the non-infected controls in the different sections of the porcine gut.
DOI: 10.6084/m9.figshare.c.3634463_d4.v1
title: MOESM2 of Transcriptional analysis of porcine intestinal mucosa infected with Salmonella Typhimurium revealed a massive inflammatory response and disruption of bile acid absorption in ileum

description: Additional file 2: Primers used for qPCR validations. List of designed primers used for mRNA and miRNA qPCR validations.
DOI: 10.6084/m9.figshare.c.3634463_d5.v1
title: MOESM1 of Transcriptional analysis of porcine intestinal mucosa infected with Salmonella Typhimurium revealed a massive inflammatory response and disruption of bile acid absorption in ileum

description: Additional file 1: Serum chemistry profile results from pigs along the time course of infection with S. Typhimurium. Table showing the results of the serum chemistry panel analysis and statistical results of the comparison among infection time points.
DOI: 10.6084/m9.figshare.c.3634463_d6.v1
title: MOESM5 of Transcriptional analysis of porcine intestinal mucosa infected with Salmonella Typhimurium revealed a massive inflammatory response and disruption of bile acid absorption in ileum

description: Additional file 5: miRNA expression microarray results of the Salmonella-infected porcine ileum at day 2 post infection. Results of the differential gene expression of miRNAs in the porcine ileum at 2 dpi, compared to the non-infected controls.
DOI: 10.6084/m9.figshare.c.3634463_d7.v1
title: MOESM4 of Transcriptional analysis of porcine intestinal mucosa infected with Salmonella Typhimurium revealed a massive inflammatory response and disruption of bile acid absorption in ileum

description: Additional file 4: Biological pathways and genes affected by S. Typhimurium infection in the porcine intestinal sections. Results from Ingenuity Pathway Analysis describing biological pathways impaired by S. Typhimurium infection in the three intestinal regions studied.
DOI: 10.6084/m9.figshare.c.3634469_d1.v1
title: MOESM1 of â  Nature or nurtureâ  : survival rate, oviposition interval, and possible gonotrophic discordance among South East Asian anophelines

description: Additional file 1. Â Bayesian model.
DOI: 10.6084/m9.figshare.c.3634469_d2.v1
title: MOESM2 of ‘Nature or nurture’: survival rate, oviposition interval, and possible gonotrophic discordance among South East Asian anophelines

description: Additional file 2.  Data for dissected mosquitoes.
DOI: 10.34770/hr5y-c816
title: Data for "Stability Analysis of WEST L-mode Discharges with Improved Confinement from Boron Powder Injection"

description: This dataset contains the publicly available data for the publication
 "Stability analysis of WEST L-mode discharges with improved
 confinement from boron powder injection" by Bodner et al. The data is
 stored as both matlab save files (.mat) and text files (.txt).
 Instructions on how to the reproduce the figures are detailed in the
 included README.txt file.
DOI: 10.6084/m9.figshare.c.3634592_d2.v1
title: Additional file 1: of Pinpointing the vesper bat transposon revolution using the Miniopterus natalensis genome

description: The average Kimura 2-parameter, genetic distance was calculated among all insertions for each element. Highly mutable CpG sites were excluded from distance calculations. Distances were only calculated if the element was occupied more than 10 kilobases in a species. For species where elements were absent or occupied less than 10 kilobases of their genome, values are given as "NA"s. Calculations for all meeting these critera are shown here. TableÂ 2 in the manuscript is reduced fascimilie of this table containing only elements specifically discussed in the text. (XLSX 22 kb)
DOI: 10.6084/m9.figshare.c.3634592_d1.v1
title: Additional file 2: of Pinpointing the vesper bat transposon revolution using the Miniopterus natalensis genome

description: Novel Miniopterus natalensis transpsoable elements were identified using de novo methods and manual curation. Sequences are in FastA format. (FAS 39 kb)
DOI: 10.6084/m9.figshare.c.3634598_d2.v1
title: MOESM2 of Seasonal rainfall at long-term migratory staging sites is associated with altered carry-over effects in a Palearctic-African migratory bird

description: Additional file 2. The raw data collected from great reed warblers at the Zambian study site. Information includes year, sex, age (1 = juvenile, 2 = adult) time at capture (time.count = minutes since 0600 h), winter CORTf (feathercort.C), staging CORTf (feathercort.F), BUTY, TRIG, scaled mass index, δ13C, δ15N, δ 2H, and the estimated isotope cluster.
DOI: 10.6084/m9.figshare.c.3634601_d2.v1
title: Additional file 2: of Closely related fungi employ diverse enzymatic strategies to degrade plant biomass

description: Combines Additional file Tables S2–S4 (excel format). Table S2A. Numbers of putative genes per CAZy family for the 10 genomes addressed in this study. Table S2B. Numbers of putative genes per Plant Polysaccharide Degradation-related CAZy family for the 10 genomes addressed in this study. Table S3A. Orthology clusters of feruloyl esterase (SF), glycoside hydrolase (GH), carbohydrate esterase and polysaccharide lyase (PL) families. Table S3B. Orthology clusters of auxiliary activities (AA). Table S4A. Detection of proteins in cultures grown on wheat bran sorted by CAZy family. Table S4B. Detection of proteins in cultures grown on sugar beet pulp sorted by CAZy family. Table S4C. Detected proteins in cultures grown on wheat bran sorted by number of species that contain an orthologue. Table S4D. Detected proteins in cultures grown on sugar beet pulp sorted by number of species that contain an orthologue.
DOI: 10.15468/dl.re56s4
title: Occurrence Download

description: A dataset containing 84 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Lomaria spannagelii (Rosenst.) Gasper & V.A.O.Dittrich"
 ]
}

 The dataset includes 84 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037973-241126133413365/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.c.3634841_d1.v1
title: Additional file 5: of The venom gland transcriptome of the parasitoid wasp Nasonia vitripennis highlights the importance of novel genes in venom function

description: DESeq based differential expression data for all Nasonia 2.0 gene models merged with the new gene models identified in this study. (XLSX 3636Â kb)
DOI: 10.6084/m9.figshare.c.3634841_d3.v1
title: Additional file 4: of The venom gland transcriptome of the parasitoid wasp Nasonia vitripennis highlights the importance of novel genes in venom function

description: Genomic locations of 472 new gene predictions based on the ovary and VG RNA-seq data. (XLSX 50Â kb)
DOI: 10.6084/m9.figshare.c.3634841_d2.v1
title: Additional file 3: of The venom gland transcriptome of the parasitoid wasp Nasonia vitripennis highlights the importance of novel genes in venom function

description: Novel venom gland and ovary transcribed regions predicted by cufflinks. (TXT 406Â kb)
DOI: 10.6084/m9.figshare.c.3634841_d5.v1
title: Additional file 1: of The venom gland transcriptome of the parasitoid wasp Nasonia vitripennis highlights the importance of novel genes in venom function

description: DESeq results from the VG and Ovary RNA-seq data for all Nasonia 2.0 gene models. (XLSX 3172Â kb)
DOI: 10.5281/zenodo.14069461
title: Swedish haplotype GWAS data for antibiotics

description: Supplementary Materials: Tables S1-S29: Results from haplotype GWAS for first analysis (chr 1 to 23) and replication of significant chromosomes in the second analysis (S24-S29).
DOI: 10.5281/zenodo.14069462
title: Swedish haplotype GWAS data antibiotics

description: Results for all chromosomes (1-23): Frequent antibiotic users versus healthy controls

Replication of the significant loci in frequent antibiotic users versus modest users of antibiotics
DOI: 10.5281/zenodo.14510496
title: Swedish haplotype GWAS data for antibiotics

description: Supplementary Materials: Tables S1-S29: Results from haplotype GWAS for first analysis (chr 1 to 23) and replication of significant chromosomes in the second analysis (S24-S29).
DOI: 10.6084/m9.figshare.c.3634859_d2.v1
title: Additional file 3: of Differential effect of mild and severe pulmonary embolism on the rat lung transcriptome

description: ANOVAs of 2-hour and 18-hour PE treatments. (XLS 1660 kb)
DOI: 10.6084/m9.figshare.c.3634859_d1.v1
title: Additional file 1: of Differential effect of mild and severe pulmonary embolism on the rat lung transcriptome

description: Rat lung 6-group 2-way ANOVA. (XLS 3757 kb)
DOI: 10.6084/m9.figshare.c.3634859_d3.v1
title: Additional file 2: of Differential effect of mild and severe pulmonary embolism on the rat lung transcriptome

description: Pairwise t-test of PE treatments. (XLS 2775 kb)
DOI: 10.6084/m9.figshare.c.3634937_d5.v1
title: Additional file 6: of A full-body transcriptome and proteome resource for the European common carp

description: FASTA file containg a set of 18241 ortholog groups that were obtained using InParanoid [35] for orthologs mapping between carp and zebrafish. (FA 1253Â kb)
DOI: 10.5519/qd.etlnh2bh
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (41 records)
DOI: 10.6084/m9.figshare.c.3634937_d7.v1
title: Additional file 10: of A full-body transcriptome and proteome resource for the European common carp

description: Carp transcriptome expression visualization tool containing the R-script and input files needed to create these visualization. This includes the carp shape file and RPKM normalized(log10) data for all the proteins measured. (ZIP 7041Â kb)
DOI: 10.6084/m9.figshare.c.3634937_d8.v1
title: Additional file 7: Table S3. of A full-body transcriptome and proteome resource for the European common carp

description: Carp putative ohnolog groups linked to expression data in 15 carp tissues. From 18241 carp ortholog groups mapped to zebrafish that are presented in the Additional file 6. we selected 3549 groups for 1 to 2 mapping between zebrafish and carp. This group of putative ohnolog gene pairs have been linked to the expression data of 15 different tissues. A numerical overview of this dataset is presented in Additional file 8: Figure S4. (XLSX 2042Â kb)
DOI: 10.6084/m9.figshare.c.3634937_d9.v1
title: Additional file 9: of A full-body transcriptome and proteome resource for the European common carp

description: Visualisations of carp organ data. Visualisations that can be used with the supplied R-script. (ZIP 2148Â kb)
DOI: 10.6084/m9.figshare.c.3634949_d1.v1
title: Additional file 6: Table S4. of Immunosenescence of the CD8+ T cell compartment is associated with HIV-infection, but only weakly reflects age-related processes of adipose tissue, metabolism, and muscle in antiretroviral therapy-treated HIV-infected patients and controls

description: Unadjusted and adjusted associations between PD-1+CD8+ T cell groups and ageing parameters in HIV+. Adjusted analyses are in grey. Age was adjusted for HIV-duration, ART-duration, and current ART; IL-6, suPAR, HOMA-IR, metabolic syndrome, VAT, and lLMI were adjusted for age, HIV-duration, ART-duration, and current ART. †Parameters were transformed using log2(x). Estimates and confidence intervals are back transformed using (2β-1) × 100, and shown as percent change in the outcome per unit increase of the covariate. Abbreviations: HOMA-IR: homeostatic model assessment of insulin resistance, IL-6: interleukin-6, PD-1: programmed death-1, lLMI: leg lean mass index, suPAR: soluble urokinase plasminogen activator receptor, TCM: central memory T cell, TED: early differentiated T cell, TEM: effector memory T cell, TEMRA: effector memory T cell re-expressing CD45RA, TID: intermediate differentiated T cell, TLD: late differentiated T cell, TN: naïve T cell, VAT: visceral adipose tissue. (XLSX 15 kb)
DOI: 10.34770/eb8a-4x71
title: Data for "TRANSP integrated modeling code for interpretive and predictive analysis of tokamak plasmas"

description: Data for figures 6 and 8 describing shine-through power computed in NUBEAM
 and effective diffusivities in the USER model
DOI: 10.6084/m9.figshare.c.3634949_d2.v1
title: Additional file 7: Table S5. of Immunosenescence of the CD8+ T cell compartment is associated with HIV-infection, but only weakly reflects age-related processes of adipose tissue, metabolism, and muscle in antiretroviral therapy-treated HIV-infected patients and controls

description: Unadjusted and adjusted associations between PD-1+CD8+ T cell subsets and ageing parameters in HIV+. Adjusted analyses are in grey. Age was adjusted for HIV-duration, ART-duration, and current ART; IL-6, suPAR, HOMA-IR, metabolic syndrome, VAT, and lLMI were adjusted for age, HIV-duration, ART-duration, and current ART. †Parameters were transformed using log2(x). Estimates and confidence intervals are back transformed using (2β-1) × 100, and shown as percent change in the outcome per unit increase of the covariate. Abbreviations: HOMA-IR: homeostatic model assessment of insulin resistance, IL-6: interleukin-6, PD-1: programmed death-1, lLMI: leg lean mass index, suPAR: soluble urokinase plasminogen activator receptor, TCM: central memory T cell, TED: early differentiated T cell, TEM: effector memory T cell, TEMRA: effector memory T cell re-expressing CD45RA, TID: intermediate differentiated T cell, TLD: late differentiated T cell, TN: naïve T cell, VAT: visceral adipose tissue. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3634949_d3.v1
title: Additional file 5: Table S3. of Immunosenescence of the CD8+ T cell compartment is associated with HIV-infection, but only weakly reflects age-related processes of adipose tissue, metabolism, and muscle in antiretroviral therapy-treated HIV-infected patients and controls

description: Unadjusted and adjusted associations between KLRG1+CD8+ T cell subsets and ageing parameters in HIV+. Adjusted analyses are in grey. Age was adjusted for HIV-duration, ART-duration, and current ART; IL-6, suPAR, HOMA-IR, metabolic syndrome, VAT, and lLMI were adjusted for age, HIV-duration, ART-duration, and current ART. †Parameters were transformed using log2(x). Estimates and confidence intervals are back transformed using (2β-1) × 100, and shown as percent change in the outcome per unit increase of the covariate. The bold values are statistically significant at *P