cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3608954_d6
title: Additional file 3: of Evolutionary patterns of Toll-like receptor signaling pathway genes in the Suidae

description: Multiple sequence alignments of the TLR signaling pathway orthologs across the suid species. Asteriks indicate same nucleotide and â  -â   represents missing nucleotide. (TXT 1867Â kb)
DOI: 10.6084/m9.figshare.c.3609947_d5
title: Additional file 1: Table S1. of Transcriptome analysis of complex I-deficient patients reveals distinct expression programs for subunits and assembly factors of the oxidative phosphorylation system

description: Overview of the structural subunits and assembly factors of OXPHOS complexes as used in this study. (XLSX 67 kb)
DOI: 10.6084/m9.figshare.c.3609962_d3
title: Additional file 3: of Genome-wide copy number variation (CNV) detection in Nelore cattle reveals highly frequent variants in genome regions harboring QTLs affecting production traits

description: Descriptive statistics of CNVRs per individual bovine chromosome. (XLSX 5510 kb)
DOI: 10.6084/m9.figshare.c.3609968_d3
title: Additional file 1: of Increased expression of dedicator-cytokinesis-10, caspase-2 and Synaptotagmin-like 2 is associated with clinical disease activity in multiple sclerosis

description: Probe sets 45 DEG. (XLS 35Â kb)
DOI: 10.6084/m9.figshare.c.3609947_d6
title: Additional file 6: Table S5. of Transcriptome analysis of complex I-deficient patients reveals distinct expression programs for subunits and assembly factors of the oxidative phosphorylation system

description: TF binding site enrichment analysis of promoter regions of the top five percent complex I co-expressing genes (full results). (XLSX 65 kb)
DOI: 10.6084/m9.figshare.c.3609962_d4
title: Additional file 8: of Genome-wide copy number variation (CNV) detection in Nelore cattle reveals highly frequent variants in genome regions harboring QTLs affecting production traits

description: Overlap of all CNVs identified in Nelore cattle with CNVRs currently listed at DVGarcheive database. (XLSX 57 kb)
DOI: 10.6084/m9.figshare.c.3609971_d3
title: Additional file 2: of Genomic profiling of fungal cell wall-interfering compounds: identification of a common gene signature

description: Saccharomyces cerevisiae mutant strains hypersensitive to Congo red, caspofungin and zymolyase classified by functional groups. (XLS 121 kb)
DOI: 10.6084/m9.figshare.c.3609962_d5
title: Additional file 11: of Genome-wide copy number variation (CNV) detection in Nelore cattle reveals highly frequent variants in genome regions harboring QTLs affecting production traits

description: Gene Ontology annotation in CNVRs detected in Nelore HD SNP genotyping data. (XLSX 313 kb)
DOI: 10.6084/m9.figshare.c.3610013_d3
title: Additional file 3: Table S3. of Similar striatal gene expression profiles in the striatum of the YAC128 and HdhQ150 mouse models of Huntingtonâ  s disease are not reflected in mutant Huntingtin inclusion prevalence

description: Genes differentially expressed between WT and YAC128 striata. (XLS 393 kb)
DOI: 10.6084/m9.figshare.c.3610025_d1
title: Additional file 3: Table S2. of The structure and diversity of human, animal and environmental resistomes

description: Detected antibiotic resistance genes (ARGs) across environments. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3610013_d4
title: Additional file 2: Table S2. of Similar striatal gene expression profiles in the striatum of the YAC128 and HdhQ150 mouse models of Huntingtonâ  s disease are not reflected in mutant Huntingtin inclusion prevalence

description: Over-representation analysis of the gene expression differences with age in YAC128 and WT striata (XLS 116 kb)
DOI: 10.6084/m9.figshare.c.3610025_d3
title: Additional file 5: Table S4. of The structure and diversity of human, animal and environmental resistomes

description: Metadata for samples collected from MG-RAST repository. (XLSX 55Â kb)
DOI: 10.6084/m9.figshare.c.3611012_d10
title: Additional file 5: of Sex chromosome evolution in snakes inferred from divergence patterns of two gametologous genes and chromosome distribution of sex chromosome-linked repetitive sequences

description: Accession numbers of CTNNB1 and WAC gene sequences for snake species determined in this study. This table shows accession numbers of partialÂ or full-length CTNNB1 and WAC gene sequences for snake species determined in this study. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.c.3611054_d2
title: Additional file 2: of Characterization of B cells in healthy pregnant women from late pregnancy to post-partum: a prospective observational study

description: Comparison of counts (and percentages) of B cell subsets between nulliparous, primiparous, and multiparous women, both for pregnant and non-pregnant women. Values presented as median (Interquartile range); Three classes were compared using one-way ANOVA, or Kuskal-Wallis tests; Two classes were compared with t-Student or Wilcoxon tests; There was only one multiparous women among the pregnant, and this woman was excluded from this analysis. aNon-pregnant women; bThird trimester of pregnancy; cWithin 15 min after placental expulsion; dAt least 6 weeks after delivery; eKuskal-Wallis test; f Wilcoxon test; * p
DOI: 10.6084/m9.figshare.c.3611012_d11
title: Additional file 3: of Sex chromosome evolution in snakes inferred from divergence patterns of two gametologous genes and chromosome distribution of sex chromosome-linked repetitive sequences

description: Accession numbers of snake contigs that contain genomic sequences of CTNNB1 and WAC genes. This table shows accession numbers of contigs containing genomic sequences of CTNNB1 and WAC genes of four snake species, P. bivittatus, O. hannah, C. mitchellii and V. berus. (XLSX 33 kb)
DOI: 10.6084/m9.figshare.c.3611048_d2
title: Additional file 3: of NeuroRDF: semantic integration of highly curated data to prioritize biomarker candidates in Alzheimer's disease

description: Detailed count of literature evidences for prioritized candidates. This file contains the detailed count of number of evidences available for each prioritized candidate for each year since 2005 in context of Alzheimer's disease. These statistics were retrieved using SCAIView knowledge discovery tool (as of 18 May, 2016). (XLSX 35 kb)
DOI: 10.6084/m9.figshare.c.3611045_d3
title: Additional file 4: of RNAseq analysis of heart tissue from mice treated with atenolol and isoproterenol reveals a reciprocal transcriptional response

description: Supplementary data. Compressed HTML files of 98 expression modules annotated for genes, strains and GO or KEGG terms (see Additional file 3 for navigation details). (GZ 11006 kb)
DOI: 10.6084/m9.figshare.c.3611054_d3
title: Additional file 6: of Characterization of B cells in healthy pregnant women from late pregnancy to post-partum: a prospective observational study

description: Correlation coefficients between counts (and percentages) of B cell subsets and time since last pregnancy, in the non-pregnant women. Corr. Coef., Spearman correlation coefficient. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3611054_d4
title: Additional file 3: of Characterization of B cells in healthy pregnant women from late pregnancy to post-partum: a prospective observational study

description: Correlation coefficients between counts (and percentages) of B cell subsets and gestational age at the 3rd trimester of pregnancy. Corr. Coef., Spearman correlation coefficient. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3611087_d2
title: Additional file 19: Table S16. of Overlapping cell population expression profiling and regulatory inference in C. elegans

description: ChIP signals enriched upstream of clustered genes. (XLSX 239Â kb)
DOI: 10.6084/m9.figshare.c.3611087_d3
title: Additional file 4: Table S3. of Overlapping cell population expression profiling and regulatory inference in C. elegans

description: Total mapped reads for each experiment. (XLSX 5Â kb)
DOI: 10.6084/m9.figshare.c.3611087_d4
title: Additional file 9: Table S7. of Overlapping cell population expression profiling and regulatory inference in C. elegans

description: Expression annotation enriched in FACS-sorted samples. (XLSX 162Â kb)
DOI: 10.6084/m9.figshare.c.3611996_d3
title: Additional file 5: of Mechanisms of sex determination and transmission ratio distortion in Aedes aegypti

description: The accession numbers of the RRM sequences: [GenBank: KJ147314, KJ147315, KJ147316, KJ147317, KJ147318, KJ147319, KJ147320, KJ147321]. (XLSX 26Â kb)
DOI: 10.15468/dl.kmfb4m
title: Occurrence Download

description: A dataset containing 105 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Aedes luteocephalus (Newstead, 1907)"
 ]
}

 The dataset includes 105 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033699-241126133413365/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.3612044_d4
title: Additional file 6 of A statistical approach to detection of copy number variations in PCR-enriched targeted sequencing data

description: Archive with ONCOCNV results. Set of files (png plots and txt files) in zip archive that were provided by ONCOCNV after specificity and sensitivity testing. (ZIP 5007 kb)
DOI: 10.6084/m9.figshare.c.3612059_d1
title: Additional file 1: of 
                     Actinobacillus pleuropneumoniae induces SJPL cell cycle arrest in G2/M-phase and inhibits porcine reproductive and respiratory syndrome virus replication

description: Protein profiling of SJPL cells after infection or not with PRRSV for 4 h (MOI = 0.5) and/or treatment for 18 h with the AppΔapxICΔapxIIC culture supernatant using the Kinex KAM-850 antibody microarray. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.c.3612044_d5
title: Additional file 8 of A statistical approach to detection of copy number variations in PCR-enriched targeted sequencing data

description: Archive with Conifer results. txt files with CNV calls made by Conifer. (ZIP 1157 kb)
DOI: 10.6084/m9.figshare.c.3612044_d6
title: Additional file 4 of A statistical approach to detection of copy number variations in PCR-enriched targeted sequencing data

description: Supplementary table with comparison of CONVector, ONCOCNV, IR. xlsx file with data about samples: panel used for sequencing, id of experiment, internal sampleâ  s code, laboratory, name of CNV, results of three methods. Status field denotes if particular variant was confirmed before analysis or was found by CONVector and validated. (XLSX 14.6 kb)
DOI: 10.6084/m9.figshare.c.3612044_d7
title: Additional file 7 of A statistical approach to detection of copy number variations in PCR-enriched targeted sequencing data

description: Final reports on CNVs analysis of whole dataset by CONVector. Tab delimited xls files with final reports of CONVector and short summary of calls. (ZIP 42.1 kb)
DOI: 10.6084/m9.figshare.c.3612959_d10
title: Additional file 6: of Changes in the composition of the RNA virome mark evolutionary transitions in green plants

description: Alignment (Phylip format) of RdRP from viruses with (â  )ssRNA. (TXT 146 kb)
DOI: 10.6084/m9.figshare.c.3612992_d4
title: Additional file 16: of Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum L.)

description: Gene ontology and their effects for the line specific variations in 35 genotypes. (XLSX 727Â kb)
DOI: 10.6084/m9.figshare.c.3612959_d11
title: Additional file 4: of Changes in the composition of the RNA virome mark evolutionary transitions in green plants

description: Alignment (Phylip format) of RdRP from viruses with dsRNA and related picorna-like viruses. (TXT 33 kb)
DOI: 10.6084/m9.figshare.c.3612959_d12
title: Additional file 7: of Changes in the composition of the RNA virome mark evolutionary transitions in green plants

description: Maximum-likelihood tree (Newick format) of RdRPs from (-)ssRNA viruses. (TXT 12 kb)
DOI: 10.6084/m9.figshare.c.3613004_d1
title: Additional file 2: of How the temperate world was colonised by bindweeds: biogeography of the Convolvuleae (Convolvulaceae)

description: BAMM outputs. Phylorate plots (2a) and speciation rate through time curve for Convolvuleae (2b). Additional file 2a represents the distinct shift configurations that account for 95% of the probability of the data (f-values denote the posterior probability of each shift configuration). Branches are scale colour-coded to indicate rate variation from red (acceleration) to blue (deceleration). Circles indicate the location of core rate shifts and are similarly colour-coded, with circle size proportional to the marginal probability of a shift. Additional file 2b represents a speciation rate through time curve (red) for Convolvuleae. Blue shading represents the confidence on speciation rate at any point in time. (ZIP 474 kb)
DOI: 10.6084/m9.figshare.c.3612992_d6
title: Additional file 4: of Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum L.)

description: Pairwise SNPs identified among 35 chickpea genotypes used in this study. (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3612992_d17
title: Additional file 20: of Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum L.)

description: Classification of homozygous SNPs using SNPEff program in 35 chickpea genotypes. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3612992_d19
title: Additional file 14: of Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum L.)

description: Summary of line specific variations in coding region identified in each chickpeaÂ genotype. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3612992_d20
title: Additional file 19: of Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum L.)

description: Classification of heterozygous SNPs using SNPEff program in 35 chickpea genotypes. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3613058_d2
title: Additional file 1: of SWIFT-Review: a text-mining workbench for systematic review

description: OHAT datasets. (XLSX 4022 kb)
DOI: 10.15468/dl.sa4dmk
title: Occurrence Download

description: A dataset containing 163 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Aedes mcintoshi Huang, 1985"
 ]
}

 The dataset includes 163 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033700-241126133413365/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.3613622_d2
title: Additional file 2: Table S1. of The common stress responsive transcription factor ATF3 binds genomic sites enriched with p300 and H3K27ac for transcriptional regulation

description: A list of unique genes containing overlapped ATF3 and p53 peaks where both ATF3 and p53 motifs are present. (XLSX 32 kb)
DOI: 10.6084/m9.figshare.c.3613637_d1
title: Additional file 1: of A large deletion in RPGR causes XLPRA in Weimaraner dogs

description: A Candidate genes for PRA exome screening (n = 346). B and C Primers used for breakpoint analysis (B) and qPCR (C) with their corresponding product size. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3613640_d1
title: Additional file 2: of Reporting of harms outcomes: a comparison of journal publications with unpublished clinical study reports of orlistat trials

description: Reporting of AEs.xlsâ  , Table S2 Reporting of adverse events in Clinical Study Reports (CSRs) and journal articles for Olistat trials. (XLS 31 kb)
DOI: 10.6084/m9.figshare.c.3613640_d2
title: Additional file 3: of Reporting of harms outcomes: a comparison of journal publications with unpublished clinical study reports of orlistat trials

description: Reporting of SAEs.xlsâ  , Table S3 Reporting of serious adverse events (SAEs) in Clinical study reports (CSRs) and journal articles for Olistat trials. (XLS 65 kb)
DOI: 10.6084/m9.figshare.c.3613682_d1
title: Additional file 8: of Adjusting microbiome profiles for differences in microbial load by spike-in bacteria

description: ASCT experiment mapping file as used for reproduction. (TXT 1 kb)
DOI: 10.15468/dl.spbpyc
title: Occurrence Download

description: A dataset listing the 11 species recorded in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Continent is one of (Africa, Antarctica, Asia, Europe, Oceania, North America, South America)",
 "Geometry POLYGON((-5.47703 36.1175,-5.4823 36.11497,-5.49008 36.11531,-5.49555 36.11274,-5.49243 36.11217,-5.48895 36.11472,-5.48694 36.11404,-5.48173 36.11451,-5.47703 36.1175))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset's 11 records were derived from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033696-241126133413365/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.3613670_d3
title: Additional file 1 of Exploiting HIV-1 protease and reverse transcriptase cross-resistance information for improved drug resistance prediction by means of multi-label classification

description: Sequence data. All sequences used in the study with information on cross-resistance. (XLS 402 kb)
DOI: 10.6084/m9.figshare.c.3613679_d2
title: Additional file 1: of Bloom and bust: intestinal microbiota dynamics in response to hospital exposures and Clostridium difficile colonization or infection

description: Table S1. Significant associations between medication use and intestinal microbiota genera (univariable analysis). (XLSX 433 KB)
DOI: 10.6084/m9.figshare.c.3613682_d2
title: Additional file 5: of Adjusting microbiome profiles for differences in microbial load by spike-in bacteria

description: 16S rDNA reference sequences of S. ruber, A. acidiphilus and R. radiobacter. (FASTA 4 kb)
DOI: 10.6084/m9.figshare.c.3614120_d1
title: Additional file 1: of Regulatory complexity revealed by integrated cytological and RNA-seq analyses of meiotic substages in mouse spermatocytes

description: This file contains a mini-website of Tables S1-S10. The same mini-website is available at http://carterdev.jax.org/dtx/a2/index.html. Interactive expression plots. Table S1. Number and proportion of isolated cells for cytological analysis and RNA-seq. Table S2. Gene lists and gene expression values for each of the substages, separated by worksheets. An additional worksheet provides results for X-linked genes. Abbreviations for each substage are as follows: Sp’gonia for spermatogonia, PL for preleptotene, EL for early leptotene, LL + Z for late leptotene and zygotene, LL + Z + EP for those genes found in late leptotene, zygotene, and early pachytene, EP for early pachytene, EP + LP + D for early pachytene, late pachytene, and diplotene, and LP + D for late pachytene and diplotene. Sheet names prefixed with “Anti-“correspond to genes that are negatively concordant with the substage, (e.g., Anti-PL corresponds to genes that are negatively concordant with preleptotene. Genes are ranked by how closely the expression pattern follows the substage pattern (rank = 1 is best). Gene ids and Gene names for piRNA precursors and NONCODE lncRNAs have prefix “pi-” and “NON”, respectively. Expression is given in log2(TPM + 1). Table S3. GO analysis for substage-negatively concordant genes. Abbreviations for each substage are as follows: Sp’gonia for spermatogonia, EL for early leptotene, LL-Z for late leptotene and zygotene, EP for early pachytene, and LP-D for late pachytene and diplotene. Table S4. GO analysis for substage-concordant genes. Abbreviations for each substage are as follows: Sp’gonia for spermatogonia, EL for early leptotene, LL-Z for late leptotene and zygotene, EP for early pachytene, and LP-D for late pachytene and diplotene. Table S5. Analysis of genes annotated to meiosis. Table S6. TFs for substage-concordant genes. The column names are explained as follows: “NES” is short for Normalized Enrichment Score in iRegulon, “ngenes” is the number of substage-concordant genes associated with the TF, “name” used in the arc-diagram (* indicates a family of genes, e.g., Rfx* for Rfx1, Rfx2, Rfx3, Rfx4). Bolded TFs are highly expressed in the testis and those highlighted in red are associated with male reproduction. Table S7. TFs for substage-negatively concordant genes. The column names are explained as follows: “NES” is short for Normalized Enrichment Score in iRegulon, “ngenes” is the number of substage negatively-concordant genes associated with the TF, “name” used in the arc-diagram (* indicates a family of genes, e.g., Rfx* for Rfx1, Rfx2, Rfx3, Rfx4). Table S8. Comparison of substage-concordant gene lists with derived clusters in Margolin, et al. [14]. Table S9. Comparison of substage-concordant gene lists with sets derived from FACS-sorted cells [5, 6]. Table S10. Primers for qRT-PCR. (ZIP 6513 kb)
DOI: 10.15468/dl.g6c32t
title: Occurrence Download

description: A dataset containing 2014 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Aedes melanimon Dyar, 1924"
 ]
}

 The dataset includes 2014 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033702-241126133413365/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.3614093_d4
title: Additional file 6: of A transcriptome-based model of central memory CD4 T cell death in HIV infection

description: RT-PCR validation of TCM cell signature in HIV infection. Table that lists the results of RT-PCR validation of 91 genes of TCM cell signature in HIV infection. (XLS 40 kb)
DOI: 10.15468/dl.5fj6d3
title: Occurrence Download

description: A dataset containing 1031779 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "Country is United States of America",
 "OccurrenceStatus is Present",
 "TaxonKey is Squamata",
 "Year 2000-2024"
 ]
}

 The dataset includes 1031779 records from 110 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003852-240202131308920/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yu8fpy
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Boltonia decurrens (Torr. & A.Gray) Wood",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 15 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0161516-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8n4k8h
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Freycinetia longiramulosa Huynh"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009007-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.