cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3633278_d4
title: Additional file 5: Figure S4. of 
                     Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance

description: The relationship between the total number of non-synonymous SNPs in candidate loci and the MIC values. The size of the circle represents the number of isolates. a) Ethambutol (embB, embA, embA promoter, embC, embR and ubiA). b) Streptomycin (rpsL, rrs). The size of the circles is proportional to the frequency. The MIC values tend to increase with the number of non-synonymous mutations (ethambutol: rho = 0.24, slope = 0.29, p = 0.003; streptomycin: rho = 0.48, slope = 3.59, p = 1.65 × 10-8). The horizontal blue lines refer to the resistance cut-offs. (ZIP 92 kb)
DOI: 10.6084/m9.figshare.c.3633278_d5
title: Additional file 4: Figure S3. of 
                     Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance

description: Population structure analysis of the 144 isolates show clustering by lineage (Lineages one to four are represented by blue, green, purple, and red points, respectively). (a) A phylogenetic tree rooted with M. canetti. (b) First two principal components represent 33Â % and 30.5Â % of the variation explained between isolates, respectively. (ZIP 105 kb)
DOI: 10.6084/m9.figshare.c.3633326_d1
title: Additional file 1: of Study of arsenic accumulation in rice and evaluation of protective effects of Chorchorus olitorius leaves against arsenic contaminated rice induced toxicities in Wistar albino rats

description: Supplementary data for arsenic accumulation and haemato biochemical parameter analysis in rat model. (XLSX 60Â kb)
DOI: 10.6084/m9.figshare.c.3633353_d3
title: Additional file 1: of Systematic identification and analysis of frequent gene fusion events in metabolic pathways

description: Is an excel file containing Supplemental Tables S1-S16. (XLSX 11230 kb)
DOI: 10.6084/m9.figshare.c.3633401_d1
title: Additional file 3: Table S3. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

description: List of differentially expressed transcripts between SG + MG+ vs SG-MG-. (XLS 2344 kb)
DOI: 10.15468/dl.f26mkv
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is El género Bursera en México. Parte II",
 "TaxonKey is Bursera graveolens (Kunth) Triana & Planch."
 ]
}

 The dataset includes 14 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033833-241126133413365/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.3633428_d4
title: Additional file 2: Table S2. of Identification of new heading date determinants in wheat 5B chromosome

description: Localization of markers due to N5BT5D/DT5BL analysis in current investigation and according to comparison with previously reported 5B mapping data. (XLSX 37Â kb)
DOI: 10.6084/m9.figshare.c.3633401_d9
title: Additional file 1: Table S1. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

description: List of genes added to the GmorY1 assembly. (XLS 27Â kb)
DOI: 10.6084/m9.figshare.c.3633455_d2
title: MOESM6 of Transcriptional program for nitrogen starvation-induced lipid accumulation in Chlamydomonas reinhardtii

description: Additional file 6: Table S5. List of metabolic TAG production related genes varying during N starvation and LAP. At least 30 metabolic genes that have a direct functional role in TAG production are differentially expressed during N starvation. Expression pattern of these metabolic targets in S starvation is much more similar than in P starved cells. N starvation co-regulated module membership and predicted TRs are also shown.
DOI: 10.6084/m9.figshare.c.3633455_d3
title: MOESM2 of Transcriptional program for nitrogen starvation-induced lipid accumulation in Chlamydomonas reinhardtii

description: Additional file 2: Table S2. Transcriptional changes on the cellular hallmarks of N starvation. For each functional hallmark, each differentially regulated transcript is grouped into a distinctive pathway. Phytozome locus name, gene names and description, co-regulated module membership, timestamp and direction of regulation are indicated.
DOI: 10.6084/m9.figshare.c.3633470_d1
title: Additional file 21: Tree S11. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: POY Tree, estimated using parameter scheme 3221 (see Methods section). (TRE 12 kb)
DOI: 10.6084/m9.figshare.c.3633455_d4
title: MOESM1 of Transcriptional program for nitrogen starvation-induced lipid accumulation in Chlamydomonas reinhardtii

description: Additional file 1: Table S1. Comprehensive list of the transcriptional changes. As in Table 1, each transcriptional stage is hierarchically itemized into transcriptional waves, co-regulated modules and finally transcripts. Each wave has a link to a different sheet where each of the transcripts are defined, including their co-regulated module membership. Timestamp of co-regulated module is highlighted with different colors, using the same color map as in Fig. 1c-d.
DOI: 10.6084/m9.figshare.24207429
title: Princeton RAtlas (PRA)

description: These data are described in Dennis EJ et al 2023 published in Bio-Protocol. Briefly, this is a tiff image stack of sagittal slices of an average brain of multiple Rattus norvegicus rats and serves as a common coordinate framework for rat researchers. mPRA is only male brains, defined by external genitalia (testes, penis). fPRA uses the same definition, but a lack of testes or penis.
DOI: 10.6084/m9.figshare.24207429.v4
title: Princeton RAtlas (PRA)

description: These data are described in Dennis EJ et al 2023 published in Bio-Protocol. Briefly, this is a tiff image stack of sagittal slices of an average brain of multiple Rattus norvegicus rats and serves as a common coordinate framework for rat researchers. mPRA is only male brains, defined by external genitalia (testes, penis). fPRA uses the same definition, but a lack of testes or penis.
DOI: 10.6084/m9.figshare.c.3633476_d5
title: Additional file 1: of Genotypic and phenotypic analyses of a Pseudomonas aeruginosa chronic bronchiectasis isolate reveal differences from cystic fibrosis and laboratory strains

description: (FA 6441Â kb)
DOI: 10.6084/m9.figshare.c.3633470_d9
title: Additional file 7: of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: Statistics for MrBayes Runs. (ZIP 395 kb)
DOI: 10.6084/m9.figshare.c.3633503_d3
title: Additional file 3: of Soybean transcription factor ORFeome associated with drought resistance: a valuable resource to accelerate research on abiotic stress resistance

description: Detailed information of soybean TF-ORFs cloned in this study.
DOI: 10.6084/m9.figshare.c.3633470_d10
title: Additional file 8: Tree S12. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: Scarabaeinae ML tree of dataset ALL using at least 4 genes (including 18Â s, 28sd2, 28sd3, CAD, 16Â s, Tp1). (TREE 17 kb)
DOI: 10.6084/m9.figshare.c.3633476_d7
title: Additional file 5: of Genotypic and phenotypic analyses of a Pseudomonas aeruginosa chronic bronchiectasis isolate reveal differences from cystic fibrosis and laboratory strains

description: (XLSX 63Â kb)
DOI: 10.6084/m9.figshare.c.3633503_d4
title: Additional file 6: of Soybean transcription factor ORFeome associated with drought resistance: a valuable resource to accelerate research on abiotic stress resistance

description: Primers used for qRT-PCR in this study.
DOI: 10.6084/m9.figshare.c.3633470_d12
title: Additional file 1: Table S1. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: Accession numbers and vouchers information. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.c.3633470_d20
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
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
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.3633470_d22
title: Additional file 18: Tree S8. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: POY Tree, estimated using parameter scheme 211 (see Methods section). (TRE 12 kb)
DOI: 10.6084/m9.figshare.c.3633470_d23
title: Additional file 23: Table S9. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: The list of Scarabaeinae genera attributed to the tribe Ateuchini and category incertae sedis. (XLS 40 kb)
DOI: 10.6084/m9.figshare.c.3633539_d5
title: Additional file 5: 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. (XLS 2195Â kb)
DOI: 10.6084/m9.figshare.c.3633470_d24
title: Additional file 22: Table S8. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: Bootstrap support in ML and posterior probabilities in BI analyses for the major inferred Scarabaeinae lineages. (XLSX 38 kb)
DOI: 10.15468/dl.qhsnxj
title: Occurrence Download

description: A dataset containing 53179 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plantae",
 "Geometry POLYGON ((-90.46806 17.81083, -89.15111 17.81083, -89.15111 19.2, -90.46806 19.2, -90.46806 17.81083))",
 "Year is greater than or equal to 1900",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material citation)"
 ]
 }
 }
 ]
}

 The dataset includes 53179 records from 143 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033835-241126133413365/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.3633623_d1
title: Additional file 6: of Sea lampreys elicit strong transcriptomic responses in the lake trout liver during parasitism

description: Siscowet edgeR: edgeR analysis of transcripts from parasitized versus nonparasitized siscowet livers. (XLSX 6375 kb)
DOI: 10.6084/m9.figshare.c.3633623_d2
title: Additional file 2: of Sea lampreys elicit strong transcriptomic responses in the lake trout liver during parasitism

description: Contigs: Full contigs produced by Trinity and used for mapping. (FA 25936 kb)
DOI: 10.6084/m9.figshare.c.3633623_d3
title: Additional file 7: of Sea lampreys elicit strong transcriptomic responses in the lake trout liver during parasitism

description: Lean IPA: All IPA pathways compared to the edgeR analysis of parasitized and nonparasitized lean lake trout. (XLSX 90 kb)
DOI: 10.6084/m9.figshare.c.3633623_d4
title: Additional file 5: of Sea lampreys elicit strong transcriptomic responses in the lake trout liver during parasitism

description: Siscowet DESeq2: DESeq2 analysis of transcripts from parasitized versus nonparasitized siscowet livers. (XLSX 7727 kb)
DOI: 10.6084/m9.figshare.c.3633638_d1
title: Additional file 1: of Volume kinetic evaluation of fluid turnover after oral intake of tap water, lemonade and saline in volunteers

description: Complete laboratory results. (XLS 48 kb)
DOI: 10.6084/m9.figshare.c.3633644_d1
title: Additional file 1: Table S1. of Multiple-locus variable-number tandem repeat analysis potentially reveals the existence of two groups of Anaplasma phagocytophilum circulating in cattle in France with different wild reservoirs

description: Characteristics and qPCR results for the 101 A. phagocytophilum wildlife samples used in this study. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3633644_d2
title: Additional file 2: Table S2. of Multiple-locus variable-number tandem repeat analysis potentially reveals the existence of two groups of Anaplasma phagocytophilum circulating in cattle in France with different wild reservoirs

description: MLVA profiles of the 19 A. phagocytophilum wildlife samples typed in this study. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.c.3633623_d5
title: Additional file 4: of Sea lampreys elicit strong transcriptomic responses in the lake trout liver during parasitism

description: Lean edgeR: edgeR analysis of transcripts from parasitized versus nonparasitized lean livers. (XLSX 6360 kb)
DOI: 10.6084/m9.figshare.c.3633671_d3
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
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
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.3633665_d6
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.3633677_d2
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.3634337_d2
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.3634337_d4
title: MOESM6 of Genome-wide association studies of immune, disease and production traits in indigenous chicken ecotypes

description: Additional file 6: Tables S6 and S7. List of genes located in the candidate genomic regions for the Jarso (Table S6) and Horro (Table S7) chickens. Candidate regions were defined 100 kb upstream and downstream of the significant SNPs. Gene lists for infectious bursal disease virus (IBDV) antibody titre, Mareksâ   disease virus (MDV) antibody titre, Salmonella enterica serovar Galinarum (SG) antibody titre, Pasteurella multocida (PM) antibody titre, Eimeria parasitism resistance, cestodes parasitism resistance, body weight and body condition score (BCS) are shown.
DOI: 10.5281/zenodo.14454159
title: PrEP data

description: This data is related to a manuscript titled "Low knowledge levels and high willingness to use oral preexposure prophylaxis (PrEP) among key populations in Kampala, Uganda: Implications for targeted educational interventions" 

The cluster variable refers to the Key populations
DOI: 10.5281/zenodo.14454160
title: PrEP data

description: This data is related to a manuscript titled "Low knowledge levels and high willingness to use oral preexposure prophylaxis (PrEP) among key populations in Kampala, Uganda: Implications for targeted educational interventions" 

The cluster variable refers to the Key populations
DOI: 10.6084/m9.figshare.c.3634337_d10
title: MOESM9 of Genome-wide association studies of immune, disease and production traits in indigenous chicken ecotypes

description: Additional file 9: Table S8. Functional annotation clustering analysis using DAVID software for Jarso and Horro chickens. The most highly represented functional gene clusters located in the candidate genomic regions for infectious bursal disease virus (IBDV) antibody titre, Salmonella enterica serovar Galinarum (SG) antibody titre, Pasteurella multosida (PM) antibody titre, Eimeria parasitism resistance, cestodes parasitism resistance and body condition score (BCS).
DOI: 10.6084/m9.figshare.c.3634409_d1
title: Additional file 1: of Annotation of pseudogenic gene segments by massively parallel sequencing of rearranged lymphocyte receptor loci

description: Table listing the number of sequences observed in the study (including total, unique, productive, and non-productive) that used each V gene segment in each individual. (XLSX 1183 kb)
DOI: 10.6084/m9.figshare.c.3634424_d1
title: MOESM6 of Large genomic differences between Moraxella bovoculi isolates acquired from the eyes of cattle with infectious bovine keratoconjunctivitis versus the deep nasopharynx of asymptomatic cattle

description: Additional file 6. Acquired antibiotic resistance genes in M. bovoculi IBK eye isolate Mb58069. Table containing the following information related to acquired antibiotic resistance genes in Mb58069: name of gene, % identity, matching accession number, position in Mb58069 genome and expected resistance phenotype.
DOI: 10.6084/m9.figshare.c.3634424_d3
title: MOESM2 of Large genomic differences between Moraxella bovoculi isolates acquired from the eyes of cattle with infectious bovine keratoconjunctivitis versus the deep nasopharynx of asymptomatic cattle

description: Additional file 2. Genome information for replicons. Table containing the following information related to each replicon: replicon type, isolate identifier, replicon size, GenBank accession number and RTX operon status. Also contained in the table are the following elemental counts: phages, CRISPRs, 16s rRNA genes, tRNA genes, the number of acquired antibiotic resistance genes and CDS counts for three genome annotation methods.
DOI: 10.6084/m9.figshare.c.3634424_d4
title: MOESM8 of Large genomic differences between Moraxella bovoculi isolates acquired from the eyes of cattle with infectious bovine keratoconjunctivitis versus the deep nasopharynx of asymptomatic cattle

description: Additional file 8. Top Mb58069 plasmid BLASTN hits. Table containing the following information related to the Mb58069 plasmid: BLAST hit, % identity, E-value and plasmid description.
DOI: 10.6084/m9.figshare.c.3634424_d5
title: MOESM1 of Large genomic differences between Moraxella bovoculi isolates acquired from the eyes of cattle with infectious bovine keratoconjunctivitis versus the deep nasopharynx of asymptomatic cattle

description: Additional file 1. Isolate information. Table containing the following information related to each isolate when available: Isolate identifier, IBK eye isolates or IBK asymptomatic nasopharyngeal isolates, location, specimen type, infection characteristics and microbial phenotype. The single epidemiologically linked isolate is also noted.
DOI: 10.6084/m9.figshare.c.3634424_d6
title: MOESM7 of Large genomic differences between Moraxella bovoculi isolates acquired from the eyes of cattle with infectious bovine keratoconjunctivitis versus the deep nasopharynx of asymptomatic cattle

description: Additional file 7. Selected minimum inhibitory concentrations (MICs) for each isolate/antimicrobial combination. Table containing the following information related to MIC testing for each isolate: antimicrobial, MIC and applied interpretive criteria (susceptible, intermediate or resistant) in parenthesis.
DOI: 10.6084/m9.figshare.c.3634463_d6
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
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_d2
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: 10.6084/m9.figshare.c.3634469_d1
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: 10.15468/dl.j2d4em
title: Occurrence Download

description: A dataset containing 53179 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plantae",
 "Geometry POLYGON ((-90.46806 17.81083, -89.15111 17.81083, -89.15111 19.2, -90.46806 19.2, -90.46806 17.81083))",
 "Year is greater than or equal to 1900",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material citation)"
 ]
 }
 }
 ]
}

 The dataset includes 53179 records from 143 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033836-241126133413365/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.3634541_d1
title: Additional file 1: Table S1. of Expression of chicken interleukin-2 by a highly virulent strain of Newcastle disease virus leads to decreased systemic viral load but does not significantly affect mortality in chickens

description: Summary of clinical signs and mortality in 4-week-old chickens infected with rZJ1-GFP, rZJ1-IL2, and BHI. Numbers in the cells represent the percentages of birds presenting the clinical sign over the total birds present in the group at the time. Highlighted cells represent groups where all the animals are dead. (XLSX 13 kb)