cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.csrwx7
title: Occurrence Download

description: A dataset containing 547 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GbifRegion is North America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Amanita pachycolea D.E.Stuntz"
 ]
}

 The dataset includes 547 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037995-241126133413365/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.3643847_d1.v1
title: Additional file 1: Table S1. of An assessment of sex bias in neurodevelopmental disorders

description: Keywords used to bin phenotypic indications from clinical referrals into phenotypic categories. Table S2. A list of CNV artifacts used for removing false positive calls is provided as an Excel file. Table S3. A list of all rare CNV calls is provided as an Excel file. Table S4. Frequency of comorbid features among boys and girls with autism in the (clinical and rare CNV) study cohort. Table S5. Frequency of comorbid features among boys and girls with ID/DD in the (clinical and rare CNV) study cohort. Table S6. Frequency of comorbid specific OHI features among boys and girls with autism in the (clinical and rare CNV) study cohort. Table S7. Frequency of comorbid specific OHI features among boys and girls with ID/DD in the (clinical and rare CNV) study cohort. Table S8. Frequency of comorbid features in boys and girls carrying specific CNVs associated with genomic disorders. Table S9. Ratio of boys to girls in individuals with autism and ID/DD and showing specific comorbid features. Table S10. Ratio of boys to girls in individuals with autism or ID/DD and carrying specific CNVs. Table S11. Comparison of rare CNV load for specific combination of comorbid features in autism and ID/DD. Table S12. Comparison of CNV burden between boys and girls ascertained for autism or controls in two independent cohort studies. Figure S1. Age specific prevalence of ID/DD/MCA and neuropsychiatric/behavioral features within the clinical dataset. Figure S2. Frequency of comorbid features within the OHI category for clinical and rare CNV cohorts. Figure S3. Replication of CNV burden results in two independent cohort studies. Figure S4. Explanation of the comparisons made in the family history matrices. (ZIP 1274 kb)
DOI: 10.6084/m9.figshare.c.3643853_d1.v1
title: Additional file 1: Table S1. of Optic disc morphology in unilateral branch retinal vein occlusion using spectral domain optical coherence tomography

description: Demographical data (age; gender; hypertension, diabetes mellitus) type of occlusion, affected eye, SER, BCVA, AL, ONH parameters and SSI of affected and unaffected fellow eyes of our BRVO study subjects. (XLS 59 kb)
DOI: 10.6084/m9.figshare.c.3643865_d1.v1
title: Additional file 1: of T-helper-1, T-helper-17, T-regulatory lymphocytes in hypertensive patients with diabetes mellitus type 2 or impaired glucose tolerance: association with clinical and metabolic parameters in a case control study

description: Dataset. (XLS 72 kb)
DOI: 10.6084/m9.figshare.28001450.v17
title: GBM-Reservoir: Dataset and Segmentations

description: In this repository, we present a brain tumor database collection comprising 23,049 samples, with each sample including four different types of MRI brain scans: FLAIR, T1, T1ce, and T2. Additionally, two segmentation masks (ground truth) are provided for each sample. The first mask is the raw output from the registration process, while the second is a post-processed version of the first, designed to simplify interpretation and optimize it for network training. These samples have been acquired via registration process of 438 samples available at the moment of registration from the original dataset provided by the BraTS 2022 Challenge. Registering each pair of existing brain scans results in two additional scans that retain a similar brain shape while featuring varying tumor locations. Consequently, by registering all possible pairs, a dataset originally consisting of n samples can be expanded to n<sup>2</sup> samples. The original dataset was collected from different institutions under standard clinical conditions, but with different equipment and imaging protocols. As a result, the image quality is heterogeneous, reflecting the diversity of clinical practices across institutions. This dataset can be utilized for various tasks, such as developing fully automated segmentation algorithms for new, unseen brain tumor cases, particularly through deep learning-based approaches, since ground truth is provided for each sample.
DOI: 10.6084/m9.figshare.c.3643922_d3.v1
title: Additional file 5: Table S5. of Single-cell TCRseq: paired recovery of entire T-cell alpha and beta chain transcripts in T-cell receptors from single-cell RNAseq

description: Summary of recovered alpha and beta chains in 71 selected single-cell mouse T-cell RNAseq samples. Provided as a separate Excel file. Samples with multiple productive alpha or beta chain sequences highlighted in yellow. (XLSX 96 kb)
DOI: 10.6084/m9.figshare.c.3643922_d5.v1
title: Additional file 2: Table S2. of Single-cell TCRseq: paired recovery of entire T-cell alpha and beta chain transcripts in T-cell receptors from single-cell RNAseq

description: Results of scTCRseq and VIDJIL run on three replicate Jurkat T-cell RNAseq samples. Provided as a separate Excel file. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3643922_d4.v1
title: Additional file 4: Table S4. of Single-cell TCRseq: paired recovery of entire T-cell alpha and beta chain transcripts in T-cell receptors from single-cell RNAseq

description: Raw counts of reads mapping to TRA and TRB variable gene loci in 71 selected single-cell mouse T-cell RNAseq samples. Provided as a separate Excel file. (XLSX 69 kb)
DOI: 10.6084/m9.figshare.c.3643928_d2.v1
title: Additional file 1: Table S1. of Distribution of Îą-synuclein in the spinal cord and dorsal root ganglia in an autopsy cohort of elderly persons

description: Clinicopathological characteristics of 265 subjects with LBAS. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3643934_d1.v1
title: Additional file 1: of Birth weight-for-gestational age is associated with DNA methylation at birth and in childhood

description: Descriptive characteristics of methylation levels in birth weight-for-gestational age (BW/GA)-associated DNA methylation sites in venous umbilical cord blood at delivery, among 476 participants in Project Viva. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3643946_d2.v1
title: Additional file 13: Dataset S1. of The Drosophila transcriptional network is structured by microbiota

description: Read counts per gene. Each column denotes a different sample. See Table S4 for line name information. Samples suffixed by “a” are axenic, samples suffixed by “g” are gnotobiotic. Reads aligning to genomic regions coding for multiple genes are tabulated to a feature representing the multiple possible genes. (CSV 2506 kb)
DOI: 10.6084/m9.figshare.c.3643946_d3.v1
title: Additional file 9: Table S5. of The Drosophila transcriptional network is structured by microbiota

description: GO enrichment amongst microbiota-dependent transcriptional modules. Enrichment of GO terms in microbiota-dependent modules was analyzed in Cytoscape using BINGO. The table shows transcriptional module identifiers, description of GO terms enriched (FDR ≤ 0.05) in each module, the GO term identifiers, and p-values (FDR). (CSV 31 kb)
DOI: 10.6084/m9.figshare.c.3643946_d5.v1
title: Additional file 14: Dataset S2. of The Drosophila transcriptional network is structured by microbiota

description: Variance-stabilized read counts. Dataset S1 with a variance-stabilising transformation applied using functions provided by the DESeq library. (CSV 7395Â kb)
DOI: 10.6084/m9.figshare.c.3643946_d7.v1
title: Additional file 4: Table S2. of The Drosophila transcriptional network is structured by microbiota

description: Gene ontology enrichment, full sets of terms and differentially expressed genes for (a) biological process enriched in axenic flies, (b) molecular function enriched in axenic flies, (c) cellular component enriched in axenic flies, (d) biological process depleted in axenic flies, (e) molecular function depleted in axenic flies, (f) cellular component depleted in axenic flies. (CSV 55Â kb)
DOI: 10.6084/m9.figshare.c.3643946_d11.v1
title: Additional file 12: of The Drosophila transcriptional network is structured by microbiota

description: Data analysis tools. The unzipped folder contains (1) parameters used to align and count reads (align_count_index_reads.txt) and (2) an R script to replicate the data analysis. See README file and R script within folder for instructions. (ZIP 15304Â kb)
DOI: 10.6084/m9.figshare.c.3643949_d22.v1
title: Additional file 9: of Relationships between putative G-quadruplex-forming sequences, RecQ helicases, and transcription

description: R code for extracting DNAse 1 genomic track signal near TSS for epigenetic modeling of gene expression method. Program written in R that calculates DNAse track signal in 100 bp bins spanning 1 kbp upstream and downstream of the TSS. Takes .bigwig file of DNAse 1 hypersesitivity epigenomic track and output of Additional file 8 as input. (R 4 kb)
DOI: 10.15468/dl.sxdqmq
title: Occurrence Download

description: A dataset containing 10215 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Urbanus dorantes (Stoll, 1790)"
 ]
}

 The dataset includes 10215 records from 148 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037996-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bvpfed
title: Occurrence Download

description: A dataset containing 56706 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "Country is Canada",
 "Geometry POLYGON((-66.4 43.4,-59.8 43.4,-59.8 47.1,-66.4 47.1,-66.4 43.4))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is one of (EN, CR, EW, EX, VU)",
 "OccurrenceStatus is Present",
 "StateProvince is Nova Scotia",
 "TaxonKey is Aves"
 ]
}

 The dataset includes 56706 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037997-241126133413365/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.3643982_d1.v1
title: Additional file 4: Table S2. of Polymorphism in microRNA-binding site in HNF1B influences the susceptibility of type 2 diabetes mellitus: a population based caseâ  control study

description: The pairwise linkage disequilibrium (LD) values of |D'| (upper) and r2 (lower) (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3643988_d1.v1
title: Additional file 1: of Frequent down-regulation of ABC transporter genes in prostate cancer

description: Significant changes (p
DOI: 10.6084/m9.figshare.c.3644060_d3.v1
title: Additional file 4: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

description: Neutralization summary of DENV RVPs by human sera. The 50 % neutralization titers (NT50) are shown as reciprocal serum dilutions. (XLS 29 kb)
DOI: 10.6084/m9.figshare.c.3644060_d1.v1
title: Additional file 5: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

description: Reads, clonal groups, and lineages numbers per individual and condition. The table shows the number of raw and used sequences as well as the number of clonotypes and lineages per individual. (XLS 30 kb)
DOI: 10.6084/m9.figshare.c.3644078_d5.v1
title: Additional file 7: Table S7. of Integrative analyses of proteomics and RNA transcriptomics implicate mitochondrial processes, protein folding pathways and GWAS loci in Parkinson disease

description: MS3 proteomics and RNA-Seq PD/control comparison results for the 166 genes that were present within 100 kb (based on Annovar annotation) of the 551 genome-wide significant SNPs identified in the Nalls et al. study [7]. When the proteomics or mRNA dataset does not contain a particular gene, “NA” values are displayed in the corresponding columns. (XLSX 62 kb)
DOI: 10.6084/m9.figshare.c.3644078_d4.v1
title: Additional file 5: Table S5. of Integrative analyses of proteomics and RNA transcriptomics implicate mitochondrial processes, protein folding pathways and GWAS loci in Parkinson disease

description: Results for the mRNA abundance comparison between 19 PD and 24 control samples present in the microarray expression dataset E-MTAB-812 from ArrayExpress and also included in the RNA-Seq study. (XLSX 3194Â kb)
DOI: 10.6084/m9.figshare.c.3644084_d1.v1
title: Additional file 1: Table S1. of Past seawater experience enhances seawater adaptability in medaka, Oryzias latipes

description: Primers used for cloning and real-time qPCR analyses. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3644096_d2.v1
title: Additional file 7: of The polymyxin B-induced transcriptomic response of a clinical, multidrug-resistant Klebsiella pneumoniae involves multiple regulatory elements and intracellular targets

description: Modules of co-expressed genes as revealed by weighted gene correlation network analysis. Description: Reported are the modules (labeled by different colours) to which each gene belongs, as well as the associated Gene Ontology terms. (XLS 734 kb)
DOI: 10.6084/m9.figshare.c.3644096_d7.v1
title: Additional file 2: of The polymyxin B-induced transcriptomic response of a clinical, multidrug-resistant Klebsiella pneumoniae involves multiple regulatory elements and intracellular targets

description: Differentially expressed genes in polymyxin in comparison with five environmental conditions. (XLS 1099 kb)
DOI: 10.6084/m9.figshare.c.3644099_d1.v1
title: Additional file 8: Table S8. of Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi

description: Up-regulated and down-regulated peroxidase genes. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3644099_d4.v1
title: Additional file 3: Table S3. of Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi

description: Expression values of all detected transcribed genes and non-coding RNAs reported as DESeq-normalized read counts and log2 fold changes. (XLSX 41091 kb)
DOI: 10.6084/m9.figshare.c.3644099_d6.v1
title: Additional file 10: Table S10. of Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi

description: Up-regulated and down-regulated MAP kinase genes. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3644099_d7.v1
title: Additional file 11: Table S11. of Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi

description: Up-regulated and down-regulated WRKY genes. (XLSX 22 kb)
DOI: 10.6084/m9.figshare.c.3644099_d10.v1
title: Additional file 9: Table S9. of Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi

description: Up-regulated and down-regulated germin-like protein genes. (XLSX 17 kb)
DOI: 10.6073/pasta/2030fd4090076c839ffa21c7c25f8671
title: Mohonk Preserve Ground Water Springs Data, 1930 to Present

description: In a region strongly affected by acid precipitation, the Mohonk Preserve's Daniel Smiley Research Center, has been monitoring the monthly pH and temperature of eight ground springs (Chestnut, Rock, Mohonk, Rhododendron, Mossy Brook Bank, Mossy East Box, Mossy West Box, Rock Rift) on the Preserve dating as far back as 1930 to present day. Monitoring before January 1991 was intermittent and opportunistic but starting in 1991 sampling became more consistent. Monitoring of dissolved oxygen, nitrate concentrations, and conductivity of the springs using a YSI Sonde Professional Plus Instrument began in November 2017.
DOI: 10.6084/m9.figshare.c.3644135_d2.v1
title: Additional file 2: of Comparative genomics of European avian pathogenic E. Coli (APEC)

description: Cumulative table. (XLSX 87Â kb)
DOI: 10.6084/m9.figshare.c.3644135_d3.v1
title: Additional file 3: of Comparative genomics of European avian pathogenic E. Coli (APEC)

description: Hits. (XLSX 2118Â kb)
DOI: 10.6084/m9.figshare.c.3644135_d1.v1
title: Additional file 1: of Comparative genomics of European avian pathogenic E. Coli (APEC)

description: Assembly statistics. (XLSX 51Â kb)
DOI: 10.15468/dl.hdts8g
title: Occurrence Download

description: A dataset containing 811261 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "GadmGid is USA.47_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia",
 "Year 2014-2024"
 ]
}

 The dataset includes 811261 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037983-241126133413365/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.3644144_d3.v1
title: MOESM2 of Differential expression of the aryl hydrocarbon receptor pathway associates with craniofacial polymorphism in sympatric Arctic charr

description: Additional file 2: Table S2. Primers designed for cDNA cloning and qPCR study of Arctic charr.
DOI: 10.6084/m9.figshare.c.3644144_d2.v1
title: MOESM3 of Differential expression of the aryl hydrocarbon receptor pathway associates with craniofacial polymorphism in sympatric Arctic charr

description: Additional file 3: Table S3. Chd4-Cspp1-Dlg1 co-expressed genes in humans and mice retrieved from COXPRESdb. More than 200 genes were identified to have co-expression with Chd4, Cspp1 and Dlg1 after setting the mutual rank (MR) to the top-ranked 2000 genes and the reliability score of 1 to 3.
DOI: 10.6084/m9.figshare.c.3644144_d1.v1
title: MOESM4 of Differential expression of the aryl hydrocarbon receptor pathway associates with craniofacial polymorphism in sympatric Arctic charr

description: Additional file 4: Table S4. Transcription factor enrichment analysis using WEB-based GEne SeT AnaLysis Toolkit (WebGestalt v2). The list of more than 200 genes co-expressed with Chd4, Cspp1 and Dlg1 in human and mice are used as input. (Cut-off criteria: p
DOI: 10.6084/m9.figshare.c.3644207_d3.v1
title: Additional file 9: Table S6. of Towards a scientific interpretation of the terroir concept: plasticity of the grape berry metabolome

description: List of markers in the non-volatile metabolite data set for the three geographical macrozones. a) ID based on the data set in Additional file 5: Table S3; b) raw m/z of parent ion; c) retention time (RT) in minutes; d) putative identification; e) class; aa: amino acids; ac: anthocyanins; flav: flavonoids; fr: fragment; hb: hydroxybenzoic acids; hc: hydroxycinnamic acids; oa: organic acids; pr: procyanidins; s: sugars; st: stilbenes; ui: unidentified; f) marker type: molecules found at low levels () in the selected macrozone are indicated; g) pcorr [1]; h) pcorr [2]. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3644207_d5.v1
title: Additional file 7: Table S5. of Towards a scientific interpretation of the terroir concept: plasticity of the grape berry metabolome

description: Lists of the volatile and non-volatile annotated metabolites, classified according to the ANOVA analysis. The metabolites that significantly varied according to the vintage or the year (p-value
DOI: 10.6084/m9.figshare.c.3644207_d6.v1
title: Additional file 5: Table S3. of Towards a scientific interpretation of the terroir concept: plasticity of the grape berry metabolome

description: List of molecules identified in the HPLC-ESI-MS data set generated by MZmine software. a) ID based on MZmine data matrix; b) row m/z of parent ions; c) retention time (RT) in minutes; d) putative identification; e) class; aa: amino acids; ac: anthocyanins; flav: flavonoids; fr: fragment; hb: hydroxybenzoic acids; hc: hydroxycinnamic acids; oa: organic acids; pr: procyanidins; s: sugars; st: stilbenes; t: tannins; ui: unidentified; f) MS/MS fragments of parent ions; fragments selected for further fragmentation are shown in bold; g) MS3fragments generated from ions reported in bold in the MS/MS column. (XLSX 42 kb)
DOI: 10.6084/m9.figshare.c.3644207_d7.v1
title: Additional file 11: Table S8. of Towards a scientific interpretation of the terroir concept: plasticity of the grape berry metabolome

description: List of non-volatile markers for the seven vineyards, divided by macrozone; a) Lake Garda (vineyards BA and CS); b) Valpolicella (vineyards BM, FA and MN); c) Soave (vineyards AM and PM). Each data set shows: a) ID based on the data set in Additional file 5: Table S3; b) raw m/z of parent ion; c) retention time (RT) in minutes; d) putative identification; e) class; aa: amino acids; ac: anthocyanins; flav: flavonoids; fr: fragment; hb: hydroxybenzoic acids; hc: hydroxycinnamic acids; oa: organic acids; pr: procyanidins; s: sugars; st: stilbenes; t: tannins; ui: unidentified; f) marker type: molecules found at low levels () in the selected macrozone are indicated; g) cor (tp, x) values; h) cov (tp, x) values. (XLSX 163 kb)
DOI: 10.6084/m9.figshare.c.3644207_d9.v1
title: Additional file 10: Table S7. of Towards a scientific interpretation of the terroir concept: plasticity of the grape berry metabolome

description: Macrozone-specific markers in the non-volatile metabolite data set classified according to their chemical class and macrozone relevance; the classification is the same as used in Fig.Â 3. (XLSX 135 kb)
DOI: 10.6084/m9.figshare.c.3644207_d8.v1
title: Additional file 6: Table S4. of Towards a scientific interpretation of the terroir concept: plasticity of the grape berry metabolome

description: List of molecules identified in the GC-MS data set generated by Agilent Chemstation software. a) ID generated by Agilent Chemstation software; b) retention time (RT) in minutes; c) Kovats retention Index (KI); d) putative identification; e) class; f) typical descriptors. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3644207_d12.v1
title: Additional file 14: Table S10. of Towards a scientific interpretation of the terroir concept: plasticity of the grape berry metabolome

description: Transcript data sets related to non-volatile and volatile markers of the different vineyards according to the oCPLS2-DA method. Microarray fluorescence intensities were downloaded from Gene Expression Omnibus (GEO) using accession number GSE41633. Negative () markers for each vineyard are indicated. (XLSX 328 kb)
DOI: 10.6084/m9.figshare.c.3644207_d14.v1
title: Additional file 12: Figure S2. of Towards a scientific interpretation of the terroir concept: plasticity of the grape berry metabolome

description: Heat map of the laccase gene family, showing transcriptional profiles. The heat map was generated with TMeV v4.8.1 using the average expression level of three replicates. Data were normalized based on the mean center genes/rows adjustment and Pearsonâ  s correlation was chosen as a statistical metric. The legend indicates the enzyme class predicted by LacSubPred software as described by Weirick et al. [21]. (XLSX 27 kb)