cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26995063.v1
title: Additional file 3 of Oviductal extracellular vesicles miRNA cargo varies in response to embryos and their quality

description: Supplementary Material 3: Supplementary data S3. Integrative analysis of EV and embryos datasets and comparative analysis with other studies. Table 1. Comparison of EV miRNAs identified in in our study to oviductal EV miRNAs from other studies. Table 2. Comparison of EV miRNAs identified in in our study to embryonic EV miRNAs from other studies. Table 3. Comparison of miRNAs identified in embryos in our study to other studies. Table 4. Lists of target genes of miR-184 and miR-200a obtained by using MIENTURNET. Table 5. Functional enrichment analysis of target genes of miR-184 by using Metascape. Table 6. Functional enrichment analysis of target genes of miR-200a by using Metascape.
DOI: 10.6084/m9.figshare.26995063
title: Additional file 3 of Oviductal extracellular vesicles miRNA cargo varies in response to embryos and their quality

description: Supplementary Material 3: Supplementary data S3. Integrative analysis of EV and embryos datasets and comparative analysis with other studies. Table 1. Comparison of EV miRNAs identified in in our study to oviductal EV miRNAs from other studies. Table 2. Comparison of EV miRNAs identified in in our study to embryonic EV miRNAs from other studies. Table 3. Comparison of miRNAs identified in embryos in our study to other studies. Table 4. Lists of target genes of miR-184 and miR-200a obtained by using MIENTURNET. Table 5. Functional enrichment analysis of target genes of miR-184 by using Metascape. Table 6. Functional enrichment analysis of target genes of miR-200a by using Metascape.
DOI: 10.6084/m9.figshare.26995084
title: Additional file 1 of The socio-economic issues of agroecology: a scoping review

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.26995084.v1
title: Additional file 1 of The socio-economic issues of agroecology: a scoping review

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.26995087
title: Additional file 1 of The circadian clock in the choroid plexus drives rhythms in multiple cellular processes under the control of the suprachiasmatic nucleus

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26995087.v1
title: Additional file 1 of The circadian clock in the choroid plexus drives rhythms in multiple cellular processes under the control of the suprachiasmatic nucleus

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26948134
title: The Rice Genome Annotation Project: An updated database for mining the rice genome

description: <b>The Rice Os-Nipponbare-Reference-IRGSP-1.0 genome assembly and the UGA (formerly MSU) Rice Genome Annotation Release 7. We have updated the data files to give them more user friendly names and to separate the gene models from the TE-related elements.</b><b>The legacy download / FTP site</b><b> </b><b>https://rice.uga.edu/pub/data/Eukaryotic_Projects/o_sativa/annotation_dbs/</b><b> </b><b>with the original files will still be maintained.</b>For more information, please see the Rice Genome Annotation Project website (https://rice.uga.edu/) and the Rice Genome Annotation Project Data Download Page (https://rice.uga.edu/download_osa1r7.shtml).
DOI: 10.6084/m9.figshare.26995129
title: Additional file 1 of Natures instead of nature—plural perceptions and representations of nature and its challenges for ecological transition: a systematic review of the scientific production

description: Additional file1 (XLSX 68 KB)
DOI: 10.6084/m9.figshare.26995129.v1
title: Additional file 1 of Natures instead of nature—plural perceptions and representations of nature and its challenges for ecological transition: a systematic review of the scientific production

description: Additional file1 (XLSX 68 KB)
DOI: 10.6084/m9.figshare.26995132
title: Additional file 1 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 1: Table S1. Sample and sequencing information.
DOI: 10.6084/m9.figshare.26995132.v1
title: Additional file 1 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 1: Table S1. Sample and sequencing information.
DOI: 10.6084/m9.figshare.26995138
title: Additional file 3 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 3: Table S3. tsDMR GO analysis for brain.
DOI: 10.6084/m9.figshare.26995141
title: Additional file 4 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 4: Table S4. tsDMR GO analysis for kidney.
DOI: 10.6084/m9.figshare.26995138.v1
title: Additional file 3 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 3: Table S3. tsDMR GO analysis for brain.
DOI: 10.6084/m9.figshare.26995144
title: Additional file 5 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 5: Table S5. tsDMR GO analysis for liver.
DOI: 10.6084/m9.figshare.26995147
title: Additional file 6 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 6: Table S6. tsDMR GO analysis for testis.
DOI: 10.6084/m9.figshare.26995141.v1
title: Additional file 4 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 4: Table S4. tsDMR GO analysis for kidney.
DOI: 10.6084/m9.figshare.26995144.v1
title: Additional file 5 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 5: Table S5. tsDMR GO analysis for liver.
DOI: 10.6084/m9.figshare.26995147.v1
title: Additional file 6 of Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids

description: Additional file 6: Table S6. tsDMR GO analysis for testis.
DOI: 10.6084/m9.figshare.26995153
title: Additional file 2 of Mixed response of trace element concentrations in fluvial sediments to a flash flood in a former mining area

description: Supplementary Material 2
DOI: 10.6084/m9.figshare.26995153.v1
title: Additional file 2 of Mixed response of trace element concentrations in fluvial sediments to a flash flood in a former mining area

description: Supplementary Material 2
DOI: 10.6084/m9.figshare.26995168
title: Additional file 2 of Predicting gene expression state and prioritizing putative enhancers using 5hmC signal

description: Additional file 2: Table S1-S11. Supplementary Tables with their descriptions and captions.
DOI: 10.6084/m9.figshare.26995188
title: Additional file 2 of Genetics of flight in spongy moths (Lymantria dispar ssp.): functionally integrated profiling of a complex invasive trait

description: Additional file 2.
DOI: 10.6084/m9.figshare.26995188.v1
title: Additional file 2 of Genetics of flight in spongy moths (Lymantria dispar ssp.): functionally integrated profiling of a complex invasive trait

description: Additional file 2.
DOI: 10.6084/m9.figshare.26995168.v1
title: Additional file 2 of Predicting gene expression state and prioritizing putative enhancers using 5hmC signal

description: Additional file 2: Table S1-S11. Supplementary Tables with their descriptions and captions.
DOI: 10.6084/m9.figshare.26995254
title: Additional file 1 of Consistent cord blood DNA methylation signatures of gestational age between South Asian and white European cohorts

description: Additional file1 Table S1. Quality controls for the inclusion/exclusion of samples and methylation probes. Table S2. Characteristics of CHILD and START epigenetic subsample vs. the overall cohort. Table S3. CpGs associated with gestational age in CHILD or START with FDR adjusted p-value &lt; 0.05. Table S4. Measures of type I error inflation for EWAS association p-values in CHILD and START. Table S5. Significantly associated DMR identified in CHILD. Table S6. Significantly associated DMR identified in START. Table S7. Significantly enriched biological pathways for DMRs associated with chronological GA at birth in CHILD and START. Table S8. GWAS genes associated with T2D or GDM mapped to CpGs significantly associated with GA in START or CHILD. Table S9. Enrichment of GWAS genes associated with T2D or GDM using a two-sample binomial test. Table S10. Differences in gestational age, epigenetic gestational age and acceleration between studies or sex. Table S11. Associations between gestational age, epigenetic gestational age, acceleration of gestational age, and maternal and offspring characteristics in CHILD. Table S12. Associations between gestational age, epigenetic gestational age, acceleration of gestational age, and maternal and offspring characteristics in START
DOI: 10.5281/zenodo.10723643
title: MD Simulation Files for Dual BACH1 regulation by complementary SCF-type E3 ligases

description: MD Simulation input files and analysis files for the SKP1-FBXO22/BACH1BTB complex, SKP1-FBXO22 by itself, BACH1BTB, and the BACH1BTB F9A mutant.
DOI: 10.5281/zenodo.10723644
title: MD Simulation Files for Structural basis of BACH1 ubiquitylation by SCFFBXO22

description: MD Simulation input files and analysis files for the SKP1-FBXO22/BACH1BTB complex as well as SKP1-FBXO22 by itself.
DOI: 10.5281/zenodo.13747123
title: MD Simulation Files for Dual BACH1 regulation by complementary SCF-type E3 ligases

description: MD Simulation input files and analysis files for the SKP1-FBXO22/BACH1BTB complex, SKP1-FBXO22 by itself, BACH1BTB, and the BACH1BTB F9A mutant.
DOI: 10.6084/m9.figshare.26995254.v1
title: Additional file 1 of Consistent cord blood DNA methylation signatures of gestational age between South Asian and white European cohorts

description: Additional file1 Table S1. Quality controls for the inclusion/exclusion of samples and methylation probes. Table S2. Characteristics of CHILD and START epigenetic subsample vs. the overall cohort. Table S3. CpGs associated with gestational age in CHILD or START with FDR adjusted p-value &lt; 0.05. Table S4. Measures of type I error inflation for EWAS association p-values in CHILD and START. Table S5. Significantly associated DMR identified in CHILD. Table S6. Significantly associated DMR identified in START. Table S7. Significantly enriched biological pathways for DMRs associated with chronological GA at birth in CHILD and START. Table S8. GWAS genes associated with T2D or GDM mapped to CpGs significantly associated with GA in START or CHILD. Table S9. Enrichment of GWAS genes associated with T2D or GDM using a two-sample binomial test. Table S10. Differences in gestational age, epigenetic gestational age and acceleration between studies or sex. Table S11. Associations between gestational age, epigenetic gestational age, acceleration of gestational age, and maternal and offspring characteristics in CHILD. Table S12. Associations between gestational age, epigenetic gestational age, acceleration of gestational age, and maternal and offspring characteristics in START
DOI: 10.6084/m9.figshare.26995290
title: Additional file 1 of Keeping up with the pathogens: improved antimicrobial resistance detection and prediction from Pseudomonas aeruginosa genomes

description: Additional file 1: Pseudomonas aeruginosa ARDaP-compatible antimicrobial resistance variant database.
DOI: 10.6084/m9.figshare.26995290.v1
title: Additional file 1 of Keeping up with the pathogens: improved antimicrobial resistance detection and prediction from Pseudomonas aeruginosa genomes

description: Additional file 1: Pseudomonas aeruginosa ARDaP-compatible antimicrobial resistance variant database.
DOI: 10.6084/m9.figshare.26995314
title: Additional file 5 of Progression of monoclonal gammopathy of undetermined significance to multiple myeloma is associated with enhanced translational quality control and overall loss of surface antigens

description: Supplementary Material5 (XLSX 3186 KB)
DOI: 10.6084/m9.figshare.26995311.v1
title: Additional file 4 of Progression of monoclonal gammopathy of undetermined significance to multiple myeloma is associated with enhanced translational quality control and overall loss of surface antigens

description: Supplementary Material4 (XLSX 28 KB)
DOI: 10.6084/m9.figshare.26995314.v1
title: Additional file 5 of Progression of monoclonal gammopathy of undetermined significance to multiple myeloma is associated with enhanced translational quality control and overall loss of surface antigens

description: Supplementary Material5 (XLSX 3186 KB)
DOI: 10.15468/dl.6k4s44
title: Occurrence Download

description: A dataset containing 31015 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "Year is greater than or equal to 1624",
 "TaxonKey is Leucaena leucocephala (Lam.) de Wit",
 {
 "not" : {
 "DatasetKey" : [
 "is Pl@ntNet automatically identified occurrences"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 }
 ]
}

 The dataset includes 31015 records from 551 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011691-240906103802322/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.26995326.v1
title: Additional file 2 of Efficacy and safety of mesenchymal stem cells therapy in COVID-19 patients: a systematic review and meta-analysis of randomized controlled trials

description: Additional file 2. Detailed search strategy.
DOI: 10.6084/m9.figshare.26995326
title: Additional file 2 of Efficacy and safety of mesenchymal stem cells therapy in COVID-19 patients: a systematic review and meta-analysis of randomized controlled trials

description: Additional file 2. Detailed search strategy.
DOI: 10.15468/dl.xndhwj
title: Occurrence Download

description: A dataset containing 466 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Continent is South America",
 "Country is Brazil",
 {
 "or" : [
 "Geometry POLYGON((-62.91852 -31.89904,-32.75543 -31.89904,-32.75543 0.17667,-62.91852 0.17667,-62.91852 -31.89904))",
 "Geometry POLYGON((-68.25632 -36.59317,-33.33183 -36.59317,-33.33183 4.62503,-68.25632 4.62503,-68.25632 -36.59317))"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Vellozia squamata Pohl",
 {
 "or" : [
 "Year 1960-2024",
 "Year is less than or equal to 1972"
 ]
 }
 ]
}

 The dataset includes 466 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011692-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eucmgh
title: Occurrence Download

description: A dataset containing 801 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Identificación de insectos plaga y benéficos del café en Colombia"
 ]
}

 The dataset includes 801 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011693-240906103802322/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.26995374
title: Additional file 3 of Combinatorial metabolomic and transcriptomic analysis of muscle growth in hybrid striped bass (female white bass Morone chrysops x male striped bass M. saxatilis)

description: Supplementary Material 3.
DOI: 10.6084/m9.figshare.26995374.v1
title: Additional file 3 of Combinatorial metabolomic and transcriptomic analysis of muscle growth in hybrid striped bass (female white bass Morone chrysops x male striped bass M. saxatilis)

description: Supplementary Material 3.
DOI: 10.6084/m9.figshare.26995377
title: Additional file 4 of Combinatorial metabolomic and transcriptomic analysis of muscle growth in hybrid striped bass (female white bass Morone chrysops x male striped bass M. saxatilis)

description: Supplementary Material 4.
DOI: 10.6084/m9.figshare.26995377.v1
title: Additional file 4 of Combinatorial metabolomic and transcriptomic analysis of muscle growth in hybrid striped bass (female white bass Morone chrysops x male striped bass M. saxatilis)

description: Supplementary Material 4.
DOI: 10.6084/m9.figshare.26995389
title: Additional file 8 of Combinatorial metabolomic and transcriptomic analysis of muscle growth in hybrid striped bass (female white bass Morone chrysops x male striped bass M. saxatilis)

description: Supplementary Material 8.
DOI: 10.6084/m9.figshare.26995311
title: Additional file 4 of Progression of monoclonal gammopathy of undetermined significance to multiple myeloma is associated with enhanced translational quality control and overall loss of surface antigens

description: Supplementary Material4 (XLSX 28 KB)
DOI: 10.6084/m9.figshare.26995362
title: Additional file 2 of Genetic variants affecting mitochondrial function provide further insights for kidney disease

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.26995317
title: Additional file 6 of Progression of monoclonal gammopathy of undetermined significance to multiple myeloma is associated with enhanced translational quality control and overall loss of surface antigens

description: Supplementary Material6 (XLSX 2349 KB)
DOI: 10.6084/m9.figshare.26995389.v1
title: Additional file 8 of Combinatorial metabolomic and transcriptomic analysis of muscle growth in hybrid striped bass (female white bass Morone chrysops x male striped bass M. saxatilis)

description: Supplementary Material 8.
DOI: 10.6084/m9.figshare.26995317.v1
title: Additional file 6 of Progression of monoclonal gammopathy of undetermined significance to multiple myeloma is associated with enhanced translational quality control and overall loss of surface antigens

description: Supplementary Material6 (XLSX 2349 KB)
DOI: 10.6084/m9.figshare.26995362.v1
title: Additional file 2 of Genetic variants affecting mitochondrial function provide further insights for kidney disease

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.26995470
title: Additional file 1 of Machine learning integrative approaches to advance computational immunology

description: Additional file 1: Table S1. Integration methods cited in the review.
DOI: 10.6084/m9.figshare.26995491
title: Additional file 7 of The nuclear and mitochondrial genome assemblies of Tetragonisca angustula (Apidae: Meliponini), a tiny yet remarkable pollinator in the Neotropics

description: Table S7. Non-coding RNA genes (2nd column) classified by type (3rd column) that were identified in the genome of Tetragonisca angustula
DOI: 10.6084/m9.figshare.26995491.v1
title: Additional file 7 of The nuclear and mitochondrial genome assemblies of Tetragonisca angustula (Apidae: Meliponini), a tiny yet remarkable pollinator in the Neotropics

description: Table S7. Non-coding RNA genes (2nd column) classified by type (3rd column) that were identified in the genome of Tetragonisca angustula
DOI: 10.6084/m9.figshare.26995494
title: Additional file 8 of The nuclear and mitochondrial genome assemblies of Tetragonisca angustula (Apidae: Meliponini), a tiny yet remarkable pollinator in the Neotropics

description: Table S8. Transport RNA genes along with their bounds (3rd and 4th columns), type (5th column) and anti codon (6th column) that were identified in the genome of Tetragonisca angustula
DOI: 10.6084/m9.figshare.26995494.v1
title: Additional file 8 of The nuclear and mitochondrial genome assemblies of Tetragonisca angustula (Apidae: Meliponini), a tiny yet remarkable pollinator in the Neotropics

description: Table S8. Transport RNA genes along with their bounds (3rd and 4th columns), type (5th column) and anti codon (6th column) that were identified in the genome of Tetragonisca angustula
DOI: 10.6084/m9.figshare.26995470.v1
title: Additional file 1 of Machine learning integrative approaches to advance computational immunology

description: Additional file 1: Table S1. Integration methods cited in the review.
DOI: 10.6084/m9.figshare.26995545
title: Additional file 3 of Not too old to rock: ESR and OSL dating reveal Quaternary activity of the Periadriatic Fault in the Alps

description: Additional file 3. Additional file data of the Monte Carlo simulations for ESR. Comparison of the equivalent dose distributions resulting from 2000 simulations after applying the SAAD (blue distributions) and SAR (red distributions) protocols.
DOI: 10.6084/m9.figshare.26995545.v1
title: Additional file 3 of Not too old to rock: ESR and OSL dating reveal Quaternary activity of the Periadriatic Fault in the Alps

description: Additional file 3. Additional file data of the Monte Carlo simulations for ESR. Comparison of the equivalent dose distributions resulting from 2000 simulations after applying the SAAD (blue distributions) and SAR (red distributions) protocols.
DOI: 10.6084/m9.figshare.26995548
title: Additional file 4 of Not too old to rock: ESR and OSL dating reveal Quaternary activity of the Periadriatic Fault in the Alps

description: Additional file 4. Additional file data of the OSL dating results. Fit parameters of the laboratory dose response curves from the pIRIR225 and IR50 signals, Rho’, g values, and fit parameters of the simulated natural dose response curves.
DOI: 10.6084/m9.figshare.26995563
title: Additional file 6 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 6. Compressed archive with matrices of counts, transcripts per million (TPM), and trimmed means of M-value (TMM) normalised expression values.
DOI: 10.6084/m9.figshare.26995557
title: Additional file 4 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 4. Excel table summarizing proteotranscriptomic results. First sheet contains results for venom and defensive secretion for the Greifswald and Oslo populations, including contigs names, protein families, presence of signal peptide region, full and predicted mature sequence, secretion containing each protein, and number of high confidence peptide matches (&gt;95 %) in each sample. For the Oslo population, the differential expression results, and corresponding sub-cluster where applicable, are included either for each contig or for the contig retained after clustering nucleotide sequences at 95 % identity. Second sheet includes summary of results used for annotation of Greifswald data in the phylogenetic trees. Third and fourth sheets contain protein summary of the proteomic analyses of the leg proteomes of the anterior and posterior legs, respectively, trimmed to a local predicted false discovery rate &lt; 1 %.
DOI: 10.6084/m9.figshare.26995560
title: Additional file 5 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 5. Text file containing multiple sequence alignments in fasta format separated by “## ” that were used for phylogenetic reconstruction of toxin-like protein families identified in the telopodal secretion.
DOI: 10.6084/m9.figshare.26995569
title: Additional file 8 of The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues

description: Additional file 8. Custom centipede toxin database with sequences obtained from published datasets [37].