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

description: A dataset containing 1534 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pyramidellidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1534 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033074-241126133413365/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.3605243_d3
title: Additional file 3: of Global DNA methylation profiling uncovers distinct methylation patterns of protocadherin alpha4 in metastatic and non-metastatic rhabdomyosarcoma

description: Results of DNA microarray data analysis using iChip. The main output of iChip is a bed file format that we modified to include the reference gene for the enriched region and the reference probe enrichment score (the probe with the largest enrichment value in the region). More specifically, the fields are the following: chromosome (chr), genomic start and end position of the enriched region (gstart and gend respectively), the gene name associated to the probe with the largest enrichment value (gene), the enrichment value expressed as moderated t-statistics using eBayes function (limma-t), the row number of gstart and gend in the position matrix (rstart and rend respectively), the genomic position where the probe has the largest enrichment value (peakpos), the mean posterior probability of the probes in the enriched region (meanpp), the maximum posterior probability of the probes in the enriched region (maxpp) and the number of probes in the enriched region (nprobe). (XLS 242 kb)
DOI: 10.6084/m9.figshare.c.3605309_d9
title: Additional file 3: Table S3. of Combined de novo and genome guided assembly and annotation of the Pinus patula juvenile shoot transcriptome

description: Predicted species distribution for non-pine origin sequences removed from the Pinus patula v1.0 transcriptome. (TSV 7 kb)
DOI: 10.6084/m9.figshare.c.3605345_d2
title: Additional file 2: of mAPKL: R/ Bioconductor package for detecting gene exemplars and revealing their characteristics

description: Package â  mAPKLData_1.0.0.tar.gzâ   including microarray data and documentation. (GZ 9281 kb)
DOI: 10.6084/m9.figshare.c.3605363_d1
title: Additional file 1: Table S2. of The Nipponbare genome and the next-generation of rice genomics research in Japan

description: Rice varieties and landraces with whole-genome short-read sequences submitted by Japanese research organizations in the NCBI database. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.c.3605327_d7
title: Additional file 7: of Amnion as a surrogate tissue reporter of the effects of maternal preeclampsia on the fetus

description: Codes used in this study. (TXT 66.7 kb)
DOI: 10.6084/m9.figshare.c.3605363_d2
title: Additional file 2: Table S1. of The Nipponbare genome and the next-generation of rice genomics research in Japan

description: Rice genes reported by Japanese researchers in various scientific journals in 2005–2014. Literatures were searched and obtained from PubMed with ‘rice’ and ‘Oryza’ as keywords in either the title or abstract, and further selected by natural language processing and manual curation. The data can be accessed from Oryzabase ( http://shigen.nig.ac.jp/rice/oryzabase/download/reference ). (XLSX 215 kb)
DOI: 10.6084/m9.figshare.c.3605375_d1
title: Additional file 5: of Genome-wide binding analysis of the transcriptional regulator TrmBL1 in Pyrococcus furiosus

description: Functional annotation of genes of the TrmBL1 regulon. (XLSX 15Â kb)
DOI: 10.15468/dl.t9p29f
title: Occurrence Download

description: A dataset containing 1571 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Fissurellidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1571 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033075-241126133413365/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.3605480_d4
title: Additional file 4:Â Folder S1. of Non contiguous-finished genome sequence and description of Microbacterium gorillae sp. nov.

description: Annotation results. (RAR 1566Â kb)
DOI: 10.6084/m9.figshare.c.3605597_d2
title: Additional file 9: of RNA-seq analyses of changes in the Anopheles gambiae transcriptome associated with resistance to pyrethroids in Kenya: identification of candidate-resistance genes and candidate-resistance SNPs

description: SNP-genes. List of genes with SNPs identified only in resistant mosquitoes from RNA-seq data and Odd ratio analyses for the genes that were genotyped in single mosquitoe. (XLSX 49 kb)
DOI: 10.6084/m9.figshare.c.3605603_d1
title: Additional file 1: of Testing the price and affordability of healthy and current (unhealthy) diets and the potential impacts of policy change in Australia

description: Detailed calculation of diet basket contents and price. (XLSX 485 kb)
DOI: 10.6084/m9.figshare.c.3605597_d3
title: Additional file 6: of RNA-seq analyses of changes in the Anopheles gambiae transcriptome associated with resistance to pyrethroids in Kenya: identification of candidate-resistance genes and candidate-resistance SNPs

description: Candidate-resistance genes. List of candidate resistance genes detected in An. gambiae mosquitoes from West and East Africa. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3605612_d1
title: Additional file 1 of Exploration of the Drosophila buzzatii transposable element content suggests underestimation of repeats in Drosophila genomes

description: Supplementary Figures. Supplementary Figure 1 (a to h). Chromosomal TE density. Main transposable element order density in 50 kb non-overlapping windows. Only mapped and oriented scaffolds are present, N90 scaffolds for D. buzzatii st-1 (a to d), and N80 scaffolds for D. mojavensis (e to h). Changes in dot colors denote scaffold changes. Supplementary Figure 2. D. buzzatii j-19 Order correction. Order contribution (kb) to D. buzzatii j-19 genome before (blue) and after (red) the coverage-based correction. Supplementary Figure 3. D. buzzatii j-19 Superfamily correction. Superfamily contribution (kb) to D. buzzatii j-19 genome before (blue) and after (red) the coverage-based correction. (ZIP 792 kb)
DOI: 10.6084/m9.figshare.c.3605597_d5
title: Additional file 3: of RNA-seq analyses of changes in the Anopheles gambiae transcriptome associated with resistance to pyrethroids in Kenya: identification of candidate-resistance genes and candidate-resistance SNPs

description: Output of the Tuxedo pipeline on gene differential expression. List of genes analyzed, gene quantification levels (output of Cufflinks) and analyses of differential expression (output of Cuffdiff). (XLSX 6499 kb)
DOI: 10.6084/m9.figshare.c.3605624_d1
title: Additional file 3: of Chemotherapy and radiation therapy elicits tumor specific T cell responses in a breast cancer patient

description: TCR raw data sequence from PBMCs obtained before and after therapy and TILs obtained from FFPE tumor. (XLSX 27054 kb)
DOI: 10.25835/2a5wun45
title: Notes on data-driven output-feedback control of linear MIMO systems

description: Complementary MATLAB code for the simulation example in the paper
DOI: 10.5281/zenodo.13981083
title: Supplementary Materials to "Including a pressure dependent relation between static and dynamic elastic moduli in a Finite Element deformation model of Grímsvötn Volcano, Iceland"

description: Supplementary materials for the research article "Including a pressure dependent relation between static and dynamic elastic moduli in a Finite Element deformation model of Grímsvötn Volcano, Iceland" published by Greiner & Geirsson in 2024 in Volcanica (doi: https://doi.org/10.30909/vol.07.02.907924 ). 

 

Contents: 



Supporting information on benchmarking and additional figures to the main text of the research article

Directory "Model_files": all models used in this study (.mph-files)

Directory "Model_input":  all files used as input for models; see Read-me file for references

Directory "Model_output": Displacement (for the surface and for the entire model domain) of each model

Directory "Screenshots": Figures showing displacement and stresses along a cross-section passing through the center of the magma body and the GNSS_station GFUM for each model.
DOI: 10.5281/zenodo.13981084
title: Supplementary Materials to "Including a pressure dependent relation between static and dynamic elastic moduli in a Finite Element deformation model of Grímsvötn Volcano, Iceland"

description: Supplementary materials for the research article "Including a pressure dependent relation between static and dynamic elastic moduli in a Finite Element deformation model of Grímsvötn Volcano, Iceland" published by Greiner & Geirsson in 2024 in Volcanica (doi: https://doi.org/10.30909/vol.07.02.907924 ). 

 

Contents: 



Supporting information on benchmarking and additional figures to the main text of the research article

Directory "Model_files": all models used in this study (.mph-files)

Directory "Model_input":  all files used as input for models; see Read-me file for references

Directory "Model_output": Displacement (for the surface and for the entire model domain) of each model

Directory "Screenshots": Figures showing displacement and stresses along a cross-section passing through the center of the magma body and the GNSS_station GFUM for each model.
DOI: 10.6084/m9.figshare.c.3605759_d2
title: Additional file 6: Table S5. of Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

description: Summary of Ingenuity IPA-based pathway analyses. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.c.3605870_d7
title: Additional file 6: of Effect of a diet enriched with omega-6 and omega-3 fatty acids on the pig liver transcriptome

description: The list of DEGs specific to control (C) group. A list of significant annotation clusters based on the analysis of functional ontologies using the DAVID tools including DEGs detected only in the C diet group. (XLS 773 kb)
DOI: 10.25403/upresearchdata.28006535
title: Interaction of nitrogen application rates and harvest stages on enteric methane emission potential of selected pasture species

description: These data sets provide a comprehensive overview of forage growth characteristics, nutritional value, digestibility, and environmental impact potential through enteric methane emissions. The data categories include growth parameters (plant height, leaf number, leaf-to-stem ratio and shoot-to-root ratio), nutritional analyses (crude protein, neutral detergent fiber, acid detergent fiber, acid detergent lignin %), in-vitro methane (mL CH<sub>4</sub> g<sup>-1</sup> DM), in-vitro gas production (mL gas g<sup>-1</sup> DM) and in-vitro organic matter digestibility (%). These data sets serve as a resource for farmers, researchers, and environmental agencies, for enhancing forage use in sustainable agriculture.This study investigated the effects of nitrogen (N) fertilisation and harvest stages on forage yield, quality, and enteric CH₄ emissions for five forage species: oats (Avena sativa), Italian ryegrass (Lolium multiflorum), Japanese radish (Raphanus sativus), sorghum (Sorghum bicolor), and cowpea (Vigna unguiculata). The experiment used a factorial design with three N fertilisation levels (15, 30, and 60 kg N ha⁻¹) and two harvest stages (boot and mature) represented by early and late harvest respectively, replicated five times. The study concludes that early harvest improves forage quality and reduces in-vitro CH₄ emissions. This emphasizes the importance of harvest stage and N fertilisation in forage production, forage quality, and potentially minimising enteric CH<sub>4</sub> production once consumed by ruminants automatically resulting in environmental sustainability.
DOI: 10.25403/upresearchdata.28006535.v1
title: Interaction of nitrogen application rates and harvest stages on enteric methane emission potential of selected pasture species

description: These data sets provide a comprehensive overview of forage growth characteristics, nutritional value, digestibility, and environmental impact potential through enteric methane emissions. The data categories include growth parameters (plant height, leaf number, leaf-to-stem ratio and shoot-to-root ratio), nutritional analyses (crude protein, neutral detergent fiber, acid detergent fiber, acid detergent lignin %), in-vitro methane (mL CH<sub>4</sub> g<sup>-1</sup> DM), in-vitro gas production (mL gas g<sup>-1</sup> DM) and in-vitro organic matter digestibility (%). These data sets serve as a resource for farmers, researchers, and environmental agencies, for enhancing forage use in sustainable agriculture.This study investigated the effects of nitrogen (N) fertilisation and harvest stages on forage yield, quality, and enteric CH₄ emissions for five forage species: oats (Avena sativa), Italian ryegrass (Lolium multiflorum), Japanese radish (Raphanus sativus), sorghum (Sorghum bicolor), and cowpea (Vigna unguiculata). The experiment used a factorial design with three N fertilisation levels (15, 30, and 60 kg N ha⁻¹) and two harvest stages (boot and mature) represented by early and late harvest respectively, replicated five times. The study concludes that early harvest improves forage quality and reduces in-vitro CH₄ emissions. This emphasizes the importance of harvest stage and N fertilisation in forage production, forage quality, and potentially minimising enteric CH<sub>4</sub> production once consumed by ruminants automatically resulting in environmental sustainability.
DOI: 10.15468/dl.v4up8f
title: Occurrence Download

description: A dataset containing 189 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acteonidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 189 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033076-241126133413365/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.3606032_d1
title: Additional file 7: Table S5. of A transcriptional time-course analysis of oral vs. aboral whole-body regeneration in the Sea anemone Nematostella vectensis

description: Homeobox and other TF groups that are highly DE. (XLSX 790Â kb)
DOI: 10.6084/m9.figshare.c.3606110_d3
title: Additional file 3 of 
                     Plasmodium falciparum and soil-transmitted helminth co-infections among children in sub-Saharan Africa: a systematic review and meta-analysis

description: Figure S1. Funnel plot. Odds ratio against standard error of odds ratio for seven studies, which compared the prevalence of asymptomatic/uncomplicated P. falciparum infection between children who were infected with STH and not infected with intestinal helminth in SSA. Figure S2. Funnel plot. Odds ratio against standard error of odds ratio for three studies, which compared the prevalence of anaemia between children who were co-infected with STH and asymptomatic/uncomplicated P. falciparum and those infected with only P. falciparum in SSA. (ZIP 35 kb)
DOI: 10.6084/m9.figshare.c.3606131_d1
title: Additional file 1: of How size matters: exploring the association between quality of mental health services and catchment area size

description: Catchment areas background information. (XLSX 41 kb)
DOI: 10.6084/m9.figshare.c.3606122_d5
title: Additional file 4: of 
                     In silico identification of essential proteins in Corynebacterium pseudotuberculosis based on protein-protein interaction networks

description: List of 181 essential proteins. The amino acid sequence of hubs proteins was compared against bacterial proteins sequence from Database of Essential Genes (DEG). (TXT 62 kb)
DOI: 10.6084/m9.figshare.c.3606341_d2
title: MOESM1 of Genome-wide redistribution of MeCP2 in dorsal root ganglia after peripheral nerve injury

description: Additional file 1: Table S1. Complete GO data.
DOI: 10.6084/m9.figshare.c.3606344_d2
title: Additional file 4: of Improved taxonomic assignment of human intestinal 16S rRNA sequences by a dedicated reference database

description: Synthetic reads. A table listing the V1-V3 and V4-V6 16S sequences from known human intestinal bacterial species used in the study. (XLS 1406Â kb)
DOI: 10.15468/dl.864mv7
title: Occurrence Download

description: A dataset containing 227556 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Human Observation)",
 "Country is Spain",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "TaxonKey is Milvus milvus (Linnaeus, 1758)",
 "Year 2014-2024"
 ]
}

 The dataset includes 227556 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033067-241126133413365/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.3606356_d1
title: Additional file 2: Table S2. of A simple gene set-based method accurately predicts the synergy of drug pairs

description: Prediction of all 1,038,710 drug combinations in the CMap dataset. (XLSX 28927 kb)
DOI: 10.6084/m9.figshare.c.3606329_d9
title: Additional file 10: Table S5. of Adaptive patterns in the p53 protein sequence of the hypoxia- and cancer-tolerant blind mole rat Spalax

description: Positive selection results. (XLS 443 kb)
DOI: 10.6084/m9.figshare.c.3606341_d4
title: MOESM2 of Genome-wide redistribution of MeCP2 in dorsal root ganglia after peripheral nerve injury

description: Additional file 2: Table S2. Complete ChIP-seq data.
DOI: 10.6084/m9.figshare.c.3606329_d10
title: Additional file 4: Table S3. of Adaptive patterns in the p53 protein sequence of the hypoxia- and cancer-tolerant blind mole rat Spalax

description: Stress related patterns and classification analysis. (XLS 83 kb)
DOI: 10.6084/m9.figshare.c.3606356_d2
title: Additional file 1: Table S1. of A simple gene set-based method accurately predicts the synergy of drug pairs

description: List of co-enriched gene sets for all drug combinations in the DREAM dataset. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.c.3606611_d2
title: Additional file 6: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 5. SSR primers derived from P. axillaris transcriptome. (XLSX 414Â kb)
DOI: 10.15468/dl.h38x46
title: Occurrence Download

description: A dataset containing 6776 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Naviculaceae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 6776 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033077-241126133413365/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.3606611_d3
title: Additional file 2: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 1. Petunia unigene locus identifiers, expression levels, annotation and sequences. (XLSX 11680Â kb)
DOI: 10.6084/m9.figshare.c.3606611_d4
title: Additional file 7: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 6. SSR validation results. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3606629_d1
title: Additional file 1: Table e1. of High mannose-binding Pseudomonas fluorescens lectin (PFL) downregulates cell surface integrin/EGFR and induces autophagy in gastric cancer cells

description: Aligent Expression Array Analysis with SurePrint G3 Human GE 8x60K v2 (Takara Bio, Japan). (XLS 9492 kb)
DOI: 10.6084/m9.figshare.c.3606611_d5
title: Additional file 5: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 4. CAPS markers developed from SNPs. (XLSX 1499Â kb)
DOI: 10.6084/m9.figshare.28023143
title: Raw data for FT-ICR MS spectrometry

description: The integration of oxidation and membrane technologies demonstrates significant potential in shale gas wastewater (SGW) treatment. However, the molecular-level transformation mechanisms of the complex dissolved organic matter (DOM) in SGW during this coupled process remain unclear. This study systematically assessed the performance of UV/H<sub>2</sub>O<sub>2</sub>-ultrafiltration (UF)-reverse osmosis (RO) combined process in removing contaminations from SGW and used Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) to elucidate the transformation characteristics and mechanisms of DOM during treatment.
DOI: 10.15468/vv9xnb
title: Standardized survey dataset of amphibian and reptile across different land-use types in Guinea-Bissau, West Africa

description: A comprehensive dataset of standardized surveys of amphibians and reptiles (Testudines and Squamata) conducted primarily across forest fragments, cashew orchards, and rice paddies in northern Guinea-Bissau is presented. Standardized surveys were conducted at 21 sampling sites, with seven sites in each habitat type. A total of 703 amphibian and 265 reptile encounters were recorded, corresponding to nine and 13 taxa, respectively.
DOI: 10.6084/m9.figshare.c.3606836_d6
title: Additional file 18: Text S1. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The list of NCBI Genbank accession numbers for sweetpotato BESs. (TXT 298 kb)
DOI: 10.6084/m9.figshare.c.3606857_d3
title: Additional file 2: Table S2. of Abnormal serum microRNA profiles in tuberous sclerosis are normalized during treatment with everolimus: possible clinical implications

description: Univariate comparison results of miRNA expression in patients with tuberous sclerosis (TSC) before treatment and the control group. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.c.3606836_d7
title: Additional file 9: Table S9. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: Distribution and frequency of SSRs detected in different plant species. (XLS 28 kb)
DOI: 10.6084/m9.figshare.c.3606869_d2
title: Additional file 1: Table S1. of Integrated analysis of gene expression from carbon metabolism, proteome and metabolome, reveals altered primary metabolism in Eucalyptus grandis bark, in response to seasonal variation

description: Primers used in real-time PCR analysis. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3606836_d8
title: Additional file 5: Table S5. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The BLASTX searching results of 4428 BESs with protein databases of S. lycopersicum. (XLS 416 kb)
DOI: 10.6084/m9.figshare.c.3606836_d9
title: Additional file 7: Table S7. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The BLASTN searching results of 11542 BESs with Mx23Hm database. (XLS 479 kb)
DOI: 10.6084/m9.figshare.c.3606878_d4
title: Additional file 6: of Which type of social activities may reduce cognitive decline in the elderly?: a longitudinal population-based study

description: 4wave KLoSA CodeBook English version_2012. (XLSX 944 kb)
DOI: 10.6084/m9.figshare.c.3606890_d1
title: Additional file 1: Table S1. of Booster vaccination against tetanus and diphtheria: insufficient protection against diphtheria in young and elderly adults

description: Complete raw data. (XLSX 30Â kb)