cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3610064_d4
title: Additional file 7: of Anchoring genome sequence to chromosomes of the central bearded dragon (Pogona vitticeps) enables reconstruction of ancestral squamate macrochromosomes and identifies sequence content of the Z chromosome

description: Script A2 to take output from synteny_pairwise.cgi and simultaneously combine species information. (CGI 9Â kb)
DOI: 10.5281/zenodo.13841400
title: A global dataset of specialty crop biomass and N2O emissions

description: We reviewed global field studies of vineyard, orchard, and vegetable cropping systems, which were also included in a meta-analysis (https://doi.org/10.1111/gcb.17233). We narrowed down the studies to those with field measurements of adequate variables (biomass C, N, and N2O) covering at least one growing season. As a result, seasonal and/or annual N₂O emission measurements, along with biomass data of different plant organs from the same regions, were compiled for grape (Vitis vinifera), almond [Prunus dulcis (Mill.) D.A. Webb], peach (Prunus persica L.), walnut (Juglans regia), lettuce (Lactuca sativa), broccoli (Brassica oleracea var. italica P.), cauliflower (Brassica oleracea var. botrytis L.), and tomato (Lycopersicon esculentum L.) planting system. These observations were collected from fields spanning seven Koppen-Geiger climate types and five countries (the United States, Germany, Spain, France, and Australia). When only dry mass was measured, biomass C content for aboveground vegetable crops and berry fruit was assumed at 43%; nut fruit and woody organs of orchard tree at 48%. Area-weighted averages of N2O emissions were used (tree/vine row and interrow).

 

Corresponding author: Mu Hong (mu.hong@colostate.edu)
DOI: 10.15468/dl.f5qq3k
title: Occurrence Download

description: A dataset listing the 1003 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((40.4029 56.11499,40.49231 56.11499,40.49231 56.14842,40.4029 56.14842,40.4029 56.11499))",
 "TaxonKey is Plantae"
 ]
}

 The dataset's 1003 records were derived from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032733-241126133413365/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.3610043_d12
title: Additional file 9: of Integrative molecular profiling indicates a central role of transitory starch breakdown in establishing a stable C/N homeostasis during cold acclimation in two natural accessions of Arabidopsis thaliana

description: Table S6. Components of the acclimation-induced protein-protein interaction network of Rsch shown in Fig.Â 8b of the main document. (XLSX 392 kb)
DOI: 10.6084/m9.figshare.c.3610043_d13
title: Additional file 11: of Integrative molecular profiling indicates a central role of transitory starch breakdown in establishing a stable C/N homeostasis during cold acclimation in two natural accessions of Arabidopsis thaliana

description: Table S9. Protein dynamics related to photosynthetic dark and light reactions. (XLSX 34 kb)
DOI: 10.6084/m9.figshare.c.3610091_d2
title: Additional file 2: Table S1. of Effects of thromboprophylaxis on mesenchymal stromal cells during osteogenic differentiation: an in-vitro study comparing enoxaparin with rivaroxaban

description: Showing the primer sequences. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3610103_d1
title: Additional file 1: of Comparative effectiveness of levetiracetam, valproate and carbamazepine among elderly patients with newly diagnosed epilepsy: subgroup analysis of the randomized, unblinded KOMET study

description: Full names of all Institutional Review Boards that approved the KOMET protocol. (XLSX 28Â kb)
DOI: 10.6084/m9.figshare.c.3610106_d1
title: Additional file 1: of Identification of QTL for resistance to Mediterranean corn borer in a maize tropical line to improve temperate germplasm

description: Phenotypic data of a RIL population derived from B73 × CML103. Data set containing the result of the evaluation of resistance and agronomic traits in two year with two replications per year at Pontevedra, Spain. (XLSX 73 kb)
DOI: 10.6084/m9.figshare.c.3610112_d1
title: Additional file 1: Table S1. of Characteristics of gliomas in patients with somatic IDH mosaicism

description: The characteristics of those of the 32 previously published patients. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3610115_d1
title: Additional file 1: of A bioinformatic survey of RNA-binding proteins in Plasmodium

description: A comprehensive list of putative RNA-binding proteins retrieved from Plasmodium spp.: This summary table shows each of the putative RNA-binding proteins retrieved from P. falciparum and provides their Gene ID, their protein length, orthologs in P. vivax and P. yoelii, search results against model species, functional annotations, domain organizations, structural similarity to homologs, and Gene Ontology (GO) terms. Blue, pink, and green boxes are used to denote transmembrane, low complexity, and coiled-coil regions respectively, and NH for no homologs. Naming of Plasmodium genes is tentative, and should be used cautiously until further evidences are available about their functions. (XLSX 2203 kb)
DOI: 10.6084/m9.figshare.c.3610106_d2
title: Additional file 2: of Identification of QTL for resistance to Mediterranean corn borer in a maize tropical line to improve temperate germplasm

description: Code used in phenotypic statistical analysis and QTL analysis. SAS code used to estimate BLUE, heritabilities and genotypic and phenotypic correlation. PlabMQTL code used in QTL analysis. (TXT 13Â kb)
DOI: 10.6084/m9.figshare.c.3610109_d2
title: Additional file 2: of Viewing alcohol warning advertising reduces urges to drink in young adults: an online experiment

description: Supplementary material S2. Dataset. (DAT 123Â kb)
DOI: 10.6084/m9.figshare.c.3610148_d5
title: Additional file 9: of 
                     X. couchianus and X. hellerii genome models provide genomic variation insight among Xiphophorus species

description: An AGP file describes the assembly of chromosomes X. hellerii from contigs. (AGP 11213 kb)
DOI: 10.6084/m9.figshare.c.3610148_d6
title: Additional file 3: Table S3. of 
                     X. couchianus and X. hellerii genome models provide genomic variation insight among Xiphophorus species

description: Genes with high impact variants in both X. couchianus and X. hellerii genomes compared with X. maculatus. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.c.3610157_d3
title: Additional file 5: Table S4. of Rice Chloroplast Genome Variation Architecture and Phylogenetic Dissection in Diverse Oryza Species Assessed by Whole-Genome Resequencing

description: Overall Tajimaâ  s D testing of the chloroplast genome in a 1kb bin. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.c.3610157_d4
title: Additional file 4: Table S3. of Rice Chloroplast Genome Variation Architecture and Phylogenetic Dissection in Diverse Oryza Species Assessed by Whole-Genome Resequencing

description: Nucleotide diversity of the overall chloroplast genome with a 1000bp sliding window and 500bp step size. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3610169_d1
title: Additional file 1: of An analysis of national collaboration with Spanish researchers abroad in the health sciences

description: Profile of Spanish researchers abroad. (XLS 34 kb)
DOI: 10.6084/m9.figshare.c.3610148_d7
title: Additional file 2: Table S2. of 
                     X. couchianus and X. hellerii genome models provide genomic variation insight among Xiphophorus species

description: 4 inter-chromosomal rearrangement events between X. hellerii and X. maculatus. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.c.3610148_d9
title: Additional file 8: of 
                     X. couchianus and X. hellerii genome models provide genomic variation insight among Xiphophorus species

description: An AGP file describes the assembly of chromosomes of X. couchianus from contigs. (AGP 7629 kb)
DOI: 10.6084/m9.figshare.c.3610157_d7
title: Additional file 1: Table S1. of Rice Chloroplast Genome Variation Architecture and Phylogenetic Dissection in Diverse Oryza Species Assessed by Whole-Genome Resequencing

description: Summary of the 295 rice whole genome re-sequencing. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.c.3610157_d8
title: Additional file 2: Table S2. of Rice Chloroplast Genome Variation Architecture and Phylogenetic Dissection in Diverse Oryza Species Assessed by Whole-Genome Resequencing

description: Location of all the SNPs and Indels and their gene region in the reference detected in this study. (XLSX 121 kb)
DOI: 10.6084/m9.figshare.c.3610187_d8
title: MOESM9 of Multimodal interaction in the insect brain

description: Additional file 9. Â Data forÂ different stimulus timings with lower odour concentration for Experiment 5.
DOI: 10.6084/m9.figshare.c.3610187_d9
title: MOESM1 of Multimodal interaction in the insect brain

description: Additional file 1. Â Dose-response data for Experiment 1.
DOI: 10.6084/m9.figshare.c.3610235_d1
title: Additional file 1: of Distribution of FDG-avid nodes in esophageal cancer: implications for radiotherapy target delineation

description: Deidentified patient data. (XLSX 145 kb)
DOI: 10.6084/m9.figshare.c.3610244_d1
title: Additional file 1: of Implementing the US air quality standard for PM2.5 worldwide can prevent millions of premature deaths per year

description: Mortality calculations: Main cases and Sensitivity scenarios. (ZIP 56740Â kb)
DOI: 10.6084/m9.figshare.c.3610250_d1
title: Additional file 2: of Motif oriented high-resolution analysis of ChIP-seq data reveals the topological order of CTCF and cohesin proteins on DNA

description: Table S1 and S2. Basic statistics (and availability, SRA numbers) of human and mouse datasets, respectively. (XLSX 58 kb)
DOI: 10.6084/m9.figshare.c.3610292_d1
title: Additional file 1: of Pregnancy and estrogen enhance neural progenitor-cell proliferation in the vomeronasal sensory epithelium

description: Excel workbook containing the raw data from Fig.Â  4b , d and f . (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3610292_d2
title: Additional file 2: of Pregnancy and estrogen enhance neural progenitor-cell proliferation in the vomeronasal sensory epithelium

description: Excel workbook containing the mapping statistics of the RNAseq data for each sample, along with the accession numbers for the raw data; the normalized counts for the whole transcriptome; the differential expression analysis between the pregnant and control samples; the gene ontology categories significantly overrepresented in the differentially expressed genes; the normalized counts for the VR genes, accounting for total VSN number; and the differential expression analysis on the VR genes only, after normalization for VSN number, between the pregnant and control samples. The column ‘length’ corresponds to the total exonic bases in all transcripts from the gene. For the differential expression sheets, the columns contain the following data: ‘baseMean’, corresponds to the mean normalized expression value for the gene across all samples; ‘log2FoldChange’, is the fold change between the pregnant and control samples, log2 transformed; ‘lfcSE’, corresponds to the standard error associated with the fold change estimation; ‘stat’, is the Wald statistic; ‘pvalue’ is the P value of the test; and ‘padj’ is the P value after adjusting for multiple testing (Benjamini-Hochberg). Genes that have both their ‘pvalue’ and ‘padj’ set to NA contain outliers; genes with only their ‘padj’ set to NA were filtered prior to the test because their normalized counts were too low. (XLSX 11150 kb)
DOI: 10.6084/m9.figshare.c.3610298_d5
title: Additional file 6: of Longitudinal survey of Clostridium difficile presence and gut microbiota composition in a Belgian nursing home

description: MOTHUR script used for 16S rRNA gene analysis. (TXT 1Â kb)
DOI: 10.6084/m9.figshare.c.3610367_d1
title: Additional file 1: of Childhood diarrhea in high and low hotspot districts of Amhara Region, northwest Ethiopia: a multilevel modeling

description: Additional file on results of high and low hotspot districts in the study area. (XLS 31 kb)
DOI: 10.6084/m9.figshare.c.3610400_d1
title: Additional file 1: of Identification of epigenetic factors regulating the mesenchyme to epithelium transition by RNA interference screening in breast cancer cells

description: Raw Data. An excel file containing 10 spreadsheets. Each spreadsheet has the name of the figure in which the data were used. (XLS 788 kb)
DOI: 10.6084/m9.figshare.c.3610427_d2
title: Additional file 2: Movie 1. of Integrated ordination of miRNA and mRNA expression profiles

description: 360Â° rotation of 3D MDS dispersion ellipses of mRNA functional clusters of ALF livers. Labels are shown in the two last frames (38â  39) at the end of the rotation cycle. If the media player runs continuously, it should be stopped manually to visualize the labels. The original frame size is 731x712. The player window should be properly resized to optimize the image quality. (SWF 1150 kb)
DOI: 10.6084/m9.figshare.c.3610451_d2
title: Additional file 1: Table S1. of Genome-wide identification of copy number variation using high-density single-nucleotide polymorphism array in Japanese Black cattle

description: Characterization of cattle autosomal CNVRs based on previously published studies. Table S2 – Detailed features of 861 autosomal CNVRs identified in this study. Table S3 – Comparison of CNVRs detected in this study with the results from three other CNV studies using the Illumina BovineHD BeadChip Array. Table S4 – Comparison of CNVRs detected in this study with structural variants deposited in the DGVa. Table S5 – Detailed features of Ensembl genes in CNVRs. Table S6 – PANTHER pathway analysis of genes in CNVRs in this study. Table S7 – The corresponding MGI gene to Bovine Ensembl gene in CNVRs. Table S8 – Detailed phenotypic description of mouse orthologous genes for Bovine Ensembl genes in CNVRs. Table S9 – Detailed features of excluded centromeric and telemeric regions in this study. Table S10 – Detailed features of excluded immunoglobulin regions in this study. Table S11 – Primers and probes for CNVR validation. Table S12 – Primers and probes for the basic transcriptional factor 3. (XLSX 686 kb)
DOI: 10.6084/m9.figshare.c.3610427_d4
title: Additional file 3: Movie 2. of Integrated ordination of miRNA and mRNA expression profiles

description: 360Â° rotation of 3D MDS dispersion ellipses of mRNA functional clusters of control livers. Labels are shown in the two last frames (38â  39) at the end of the rotation cycle. If the media player runs continuously, it should be stopped manually to visualize the labels. The original frame size is 731x712. The player window should be properly resized to optimize the image quality. (SWF 1101 kb)
DOI: 10.6084/m9.figshare.c.3610463_d1
title: Additional file 1: Table S1. of Establishment of a patient-derived intrahepatic cholangiocarcinoma xenograft model with KRAS mutation

description: Gene Ontology categories (biological processes, cellular components, molecular functions, and pathways) altered in PDX. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3610427_d5
title: Additional file 1: Table S1. of Integrated ordination of miRNA and mRNA expression profiles

description: List of 109 miRNAs differentially expressed in patients with HBV-associated acute liver failure (ALF). Table S2. List of 531 mRNAs differentially expressed in patients with HBV-associated acute liver failure (ALF). (XLSX 37 kb)
DOI: 10.6084/m9.figshare.c.3610469_d1
title: Additional file 2: of Chloroplast genomes as a tool to resolve red algal phylogenies: a case study in the Nemaliales

description: Details of individual evolutionary relative rates per gene: slow category (&lt;0.75), medium category (0.75-1.5) and fast category (&gt;1.5). All genes are represented but for further analysis only alignments ≥ 800 bp were considered. (XLSX 41 kb)
DOI: 10.6084/m9.figshare.c.3610463_d2
title: Additional file 2: Table S2. of Establishment of a patient-derived intrahepatic cholangiocarcinoma xenograft model with KRAS mutation

description: Differentially expressed genes in PDX versus primary tumor (PR). (XLSX 22 kb)
DOI: 10.15468/dl.nd5fed
title: Occurrence Download

description: A dataset containing 24 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Tantilla striata Dunn, 1928"
 ]
}

 The dataset includes 24 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032734-241126133413365/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.3610484_d6
title: Additional file 2: of Vitamin D interacts with Esr1 and Igf1 to regulate molecular pathways relevant to Alzheimer’s disease

description: Comparative analysis of DEGs between different conditions. Table S2. Common DEGs between cortex and hippocampus in Wt mice supplemented with vitamin D3. Table S3. Specific DEGs in cortex of Wt mice supplemented with vitamin D3. Table S4. Specific DEGs in hippocampus of Wt mice supplemented with vitamin D3. Table S5. Common DEGs between cortex and hippocampus in Tg mice supplemented with vitamin D3. Table S6. Specific DEGs in cortex of Tg mice supplemented with vitamin D3. Table S7. Specific DEGs in hippocampus of Tg mice supplemented with vitamin D3. Table S8. Common DEGs between cortex and hippocampus of both Wt and Tg mice supplemented with vitamin D3. (XLSX 214 kb)
DOI: 10.6084/m9.figshare.c.3610529_d1
title: Additional file 3: of Transcriptional reprogramming of metabolic pathways in critically ill patients

description: Correlation between neutrophils counts and glycolytic genes.
DOI: 10.6084/m9.figshare.c.3610529_d2
title: Additional file 1: of Transcriptional reprogramming of metabolic pathways in critically ill patients

description: Full analysis results of metabolic pathways.
DOI: 10.6084/m9.figshare.c.3610529_d3
title: Additional file 2: of Transcriptional reprogramming of metabolic pathways in critically ill patients

description: Analysis of regulatory genes that govern cell proliferation/growth.
DOI: 10.6084/m9.figshare.c.3610538_d2
title: Additional file 3: Dataset S2. of Transcriptome analysis of highly purified mouse spermatogenic cell populations: gene expression signatures switch from meiotic-to postmeiotic-related processes at pachytene stage

description: Top five canonical pathways and molecular and cellular functions from pairwise comparisons of the four cell populations in chronological order (LZ relative to 2C; PS relative to LZ; RS relative to PS). (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3610538_d3
title: Additional file 2: Dataset S1. of Transcriptome analysis of highly purified mouse spermatogenic cell populations: gene expression signatures switch from meiotic-to postmeiotic-related processes at pachytene stage

description: Lists of genes and their normalized expression values in mouse 2C, LZ, PS, and RS testicular cell populations. (XLSX 570 kb)
DOI: 10.6084/m9.figshare.c.3610538_d4
title: Additional file 4: Dataset S3. of Transcriptome analysis of highly purified mouse spermatogenic cell populations: gene expression signatures switch from meiotic-to postmeiotic-related processes at pachytene stage

description: List of X-linked genes showing a 5- to 1000-fold increase from LZ to PS. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3610607_d4
title: Additional file 3: of Transcriptomic analysis reveals specific osmoregulatory adaptive responses in gill mitochondria-rich cells and pavement cells of the Japanese eel

description: Comparison of the present cell-type specific transcriptome data to our previous whole-gill tissue transcriptome. (XLSX 1505 kb)
DOI: 10.6084/m9.figshare.c.3610607_d5
title: Additional file 4: of Transcriptomic analysis reveals specific osmoregulatory adaptive responses in gill mitochondria-rich cells and pavement cells of the Japanese eel

description: List of the 970 DEGs identified from FW PVCs and SW PVCs. (XLSX 117 kb)
DOI: 10.6084/m9.figshare.c.3610607_d6
title: Additional file 5: of Transcriptomic analysis reveals specific osmoregulatory adaptive responses in gill mitochondria-rich cells and pavement cells of the Japanese eel

description: Gene ontology of DEGs identified from FW PVCs and SW PVCs. (XLSX 29 kb)
DOI: 10.6084/m9.figshare.c.3610607_d7
title: Additional file 11: of Transcriptomic analysis reveals specific osmoregulatory adaptive responses in gill mitochondria-rich cells and pavement cells of the Japanese eel

description: Primers for real-time PCR of selected genes. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3610649_d1
title: Additional file 1: Table S1. of Association of pre-operative medication use with post-operative delirium in surgical oncology patients receiving comprehensive geriatric assessment

description: Raw data for the study of association between pre-operative medication use and post-operative delirium in surgical oncology patients receiving comprehensive geriatric assessment. (XLSX 129 kb)
DOI: 10.6084/m9.figshare.c.3610628_d5
title: Additional file 7: of Identification of the novel activity-driven interaction between synaptotagmin 1 and presenilin 1 links calcium, synapse, and amyloid beta

description: Supporting data values. The file presents individual values recorded in the experiments where nâ
DOI: 10.6084/m9.figshare.c.3610628_d6
title: Additional file 2: of Identification of the novel activity-driven interaction between synaptotagmin 1 and presenilin 1 links calcium, synapse, and amyloid beta

description: Proteins identified in mass spectrometry screen of mouse brain lysates for novel PS1 calcium-dependent interactors. Synaptotagmin 1 (Syt1) was detected in high calcium condition (calcium +) when GST-PS1 L6-7 and GST-PS1 NT recombinant peptides were used for pull-down. Excised band size and protein matches are indicated. (nâ  =â  3; Data from one representative experiment is shown). (XLSX 20 kb)
DOI: 10.6084/m9.figshare.c.3610643_d4
title: Additional file 4: of Small area synthetic estimates of smoking prevalence during pregnancy in England

description: Point estimates and 95Â % credible intervals for the prevalence of smoking ever during pregnancy and at delivery by PCT. (XLSX 49Â kb)
DOI: 10.6084/m9.figshare.c.3610667_d3
title: Additional file 6: of Rare and common epilepsies converge on a shared gene regulatory network providing opportunities for novel antiepileptic drug discovery

description: Enrichment for differentially expressed genes in epileptic hippocampi versus controls for several sets of genes. (XLSX 57 kb)
DOI: 10.6084/m9.figshare.c.3610667_d5
title: Additional file 1: of Rare and common epilepsies converge on a shared gene regulatory network providing opportunities for novel antiepileptic drug discovery

description: Top functional enrichment in GO biological process for gene co-expression modules inferred from UKBEC nine brain regions using consensus WGCNA and DiffCoEx. In second and third sheet: gene lists for the gene co-expression modules. (XLSX 2435 kb)
DOI: 10.6084/m9.figshare.c.3610667_d6
title: Additional file 5: of Rare and common epilepsies converge on a shared gene regulatory network providing opportunities for novel antiepileptic drug discovery

description: Enrichment of association of M30 with epileptic and non-epileptic phenotypes. (XLSX 34 kb)
DOI: 10.6084/m9.figshare.c.3610667_d7
title: Additional file 4: of Rare and common epilepsies converge on a shared gene regulatory network providing opportunities for novel antiepileptic drug discovery

description: Enrichment of non-synonymous DNM from patients with neurodevelopmental disease. (XLSX 107 kb)
DOI: 10.6084/m9.figshare.c.3610697_d2
title: MOESM9 of HDAC inhibitors cause site-specific chromatin remodeling at PU.1-bound enhancers in K562 cells

description: Additional file 9: Table S4. Cuffdiff output for differentially expressed (RNA-seq) genes following PU.1 shRNA knockdown in K562 cells.