cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12577082
title: Additional file 6 of A genome-wide survey of copy number variations reveals an asymmetric evolution of duplicated genes in rice

description: Additional file 6: Table S18. The statistics of correlation analysis. a for each gene, the TPM values were divided into groups by different copy numbers. Difference analysis were performed in R. If there was/were significant difference between at least two groups of TPM values, this gene was defined as Exp_diff gene. Table S19. The changes in the average rate of increase with the copy number gradient of positively correlated genes. Values are means ± s.d.. Table S20. The fate of duplicated genes. a corresponds to the pairs at least one copy pseudogenized. b-d correspond to the pairs at least one copy neo-functionalized, sub-functionalized, and neo-functionalized/sub-functionalized, respectively. e corresponds to the pairs whose copy numbers were in line with the assembly results of 93 rice accessions. Table S21. The number of copy specific reads. Table S22. Primers used in this study.
DOI: 10.48597/y5bx-zmfd
title: Measurement of Calcium at Payerne

description: Measurement of Calcium at Payerne
DOI: 10.6084/m9.figshare.12577073.v1
title: Additional file 5 of A genome-wide survey of copy number variations reveals an asymmetric evolution of duplicated genes in rice

description: Additional file 5: Table S15. The loci without significant correlation between copy number and expression level. Table S16. The positively correlated loci between copy number and expression level. Table S17. The negatively correlated loci between copy number and expression level.
DOI: 10.48597/ya7p-bs2c
title: Measurement of Nitrogen_dioxide at Payerne

description: Measurement of Nitrogen_dioxide at Payerne
DOI: 10.6084/m9.figshare.12577064.v1
title: Additional file 4 of A genome-wide survey of copy number variations reveals an asymmetric evolution of duplicated genes in rice

description: Additional file 4: Table S3. The tandem duplications identified around GL7 loci and the promotor of IPA1. a equal to Average_depthCNV/Average_depthChr. b the read with a insert size close to the length of the CNV. c the region within 500 bp upstream and downstream of the breakpoint were used to detect the discordant reads. Table S4. The copy number matrix of the 10 CNVs identified by qPCT. Table S5. Genes with high copy number (≥10) in more than 5 accessions. Table S6. The copy number matrices of 10 loci in 15 accessions called by CNVnator, Delly, and CtgRef-CNV. The DUP, DEL, and CN1 loci, were marked as yellow, purple, and green, respectively. Table S7. The weighted accuracies of three softwares based on the qPCT results of 10 loci in 15 accessions. Table S8. The comparisons of CNV results generated by three methods. Table S9. The accuracy of the selected 150 CNVs detected by CtgRef-CNV but not detected by CNVnator. Table S10. The accuracy of the selected 150 CNVs detected by CNVnator but not detected by CtgRef-CNV. Table S11. The comparison of CNVs between Yu et al. and present study. Table S12. The comparison of CNVs between Du et al. and present study. Table S13. The comparison of CNVs between Wang et al. (3 K rice genomes) and present study. Table S14. The comparison of CNVs between Fuentes et al. (3 K rice genomes) and present study.
DOI: 10.6084/m9.figshare.12577112
title: Additional file 12 of Diverse and unique viruses discovered in the surface water of the East China Sea

description: Additional file 12: Table S8. Physical and chemical index values of the sampled water.
DOI: 10.48597/z2bd-fmhz
title: Measurement of Heavy metals at De Zilk

description: Measurement of Heavy metals at De Zilk
DOI: 10.48597/z48j-794u
title: Measurement of Inorganics in air and particle phase at De Zilk

description: Measurement of Inorganics in air and particle phase at De Zilk
DOI: 10.48597/29nw-gsez
title: Measurement of Inorganics in precipitation at Danki

description: Measurement of Inorganics in precipitation at Danki
DOI: 10.6084/m9.figshare.12577106
title: Additional file 10 of Diverse and unique viruses discovered in the surface water of the East China Sea

description: Additional file 10: Table S6. Spacers targeting sites.
DOI: 10.48597/2emj-6jfe
title: Measurement of Sodium at Payerne

description: Measurement of Sodium at Payerne
DOI: 10.6084/m9.figshare.12577106.v1
title: Additional file 10 of Diverse and unique viruses discovered in the surface water of the East China Sea

description: Additional file 10: Table S6. Spacers targeting sites.
DOI: 10.48597/2h5j-pq7y
title: Measurement of Calcium at Rigi

description: Measurement of Calcium at Rigi
DOI: 10.48597/3kch-fjdt
title: Measurement of Calcium at Rigi

description: Measurement of Calcium at Rigi
DOI: 10.48597/3t8g-9xxs
title: Measurement of Calcium at Payerne

description: Measurement of Calcium at Payerne
DOI: 10.48597/436m-ffg7
title: Measurement of Sulphate_total at Payerne

description: Measurement of Sulphate_total at Payerne
DOI: 10.48597/4njc-2vda
title: Measurement of Elemental_carbon at Rigi

description: Measurement of Elemental_carbon at Rigi
DOI: 10.6084/m9.figshare.12577154.v1
title: Additional file 7 of Diverse and unique viruses discovered in the surface water of the East China Sea

description: Additional file 7: Table S3. Function annotation using the Conserved Domains Database (CDD) of predicted viral ORFs from the ECS viromes.
DOI: 10.48597/627a-yk2p
title: Measurement of Ammonium at Payerne

description: Measurement of Ammonium at Payerne
DOI: 10.6084/m9.figshare.25334070
title: Why Care for Humanity?

description: Data Motherhood
DOI: 10.48597/6b5v-n3jv
title: Measurement of Ammonium at Rigi

description: Measurement of Ammonium at Rigi
DOI: 10.48597/6cqv-5b3b
title: Measurement of Magnesium at Rigi

description: Measurement of Magnesium at Rigi
DOI: 10.6084/m9.figshare.25334076.v1
title: Why Care for Humanity?

description: Data Biology
DOI: 10.48597/6s97-8pv3
title: Measurement of Nitrogen_dioxide at Payerne

description: Measurement of Nitrogen_dioxide at Payerne
DOI: 10.48597/6zc8-qqpb
title: Measurement of Conductivity at Payerne

description: Measurement of Conductivity at Payerne
DOI: 10.6084/m9.figshare.6809963
title: Cumulative lifetime maternal stress and epigenome-wide placental DNA methylation in the PRISM cohort

description: Evolving evidence links maternal stress exposure to changes in placental DNA methylation of specific genes regulating placental function that may have implications for the programming of a host of chronic disorders. Few studies have implemented an epigenome-wide approach. Using the Infinium HumanMethylation450 BeadChip (450K), we investigated epigenome-wide placental DNA methylation in relation to maternal experiences of traumatic and non-traumatic stressors over her lifetime assessed using the Life Stressor Checklist-Revised (LSC-R) survey (n = 207). We found differential DNA methylation at epigenome-wide statistical significance (FDR = 0.05) for 112 CpGs. Additionally, we observed three clusters that exhibited differential methylation in response to high maternal lifetime stress. Enrichment analyses, conducted at an FDR = 0.20, revealed lysine degradation to be the most significant pathway associated with maternal lifetimes stress exposure. Targeted enrichment analyses of the three largest clusters of probes, identified using the gap statistic, were enriched for genes associated with endocytosis (i.e., <i>SMAP1, ANKFY1</i>), tight junctions (i.e., <i>EPB41L4B</i>), and metabolic pathways (i.e., <i>INPP5E, EEF1B2</i>). These pathways, also identified in the top 10 KEGG pathways associated with maternal lifetime stress exposure, play important roles in multiple physiological functions necessary for proper fetal development. Further, two genes were identified to exhibit multiple probes associated with maternal lifetime stress (i.e., <i>ANKFY1, TM6SF1</i>). The methylation status of the probes belonging to each cluster and/or genes exhibiting multiple hits, may play a role in the pathogenesis of adverse health outcomes in children born to mothers with increased lifetime stress exposure.
DOI: 10.48597/7ybc-qjdu
title: Measurement of Sum_ammonia_and_ammonium at Rigi

description: Measurement of Sum_ammonia_and_ammonium at Rigi
DOI: 10.48597/857s-82qs
title: Measurement of Pm1_mass at Payerne

description: Measurement of Pm1_mass at Payerne
DOI: 10.48597/86be-cx46
title: Measurement of Ammonium at Chaumont

description: Measurement of Ammonium at Chaumont
DOI: 10.48597/8fqc-vza5
title: Measurement of Magnesium at Payerne

description: Measurement of Magnesium at Payerne
DOI: 10.48597/8xtm-b6gk
title: Measurement of Sum_nitric_acid_and_nitrate at Rigi

description: Measurement of Sum_nitric_acid_and_nitrate at Rigi
DOI: 10.6084/m9.figshare.12577223.v1
title: Additional file 13 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 13: Table S7. Taxonomic information of OTUs that deviated from the Sloan neutral model prediction.
DOI: 10.6084/m9.figshare.12577244.v1
title: Additional file 18 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 18: Table S11. Good's coverage of the bacterial and fungal communities.
DOI: 10.48597/amez-e6ce
title: Measurement of Nitrate at Payerne

description: Measurement of Nitrate at Payerne
DOI: 10.6084/m9.figshare.12577166.v1
title: Additional file 9 of Diverse and unique viruses discovered in the surface water of the East China Sea

description: Additional file 9: Table S5. Protospacers targeting analysis of the ECS viromes.
DOI: 10.48597/b2r3-tbnd
title: Measurement of Pm25_mass at Payerne

description: Measurement of Pm25_mass at Payerne
DOI: 10.6084/m9.figshare.12577244
title: Additional file 18 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 18: Table S11. Good's coverage of the bacterial and fungal communities.
DOI: 10.48597/bnkk-aekb
title: Measurement of Nitrate at Payerne

description: Measurement of Nitrate at Payerne
DOI: 10.48597/byav-tava
title: Measurement of Chloride at Rigi

description: Measurement of Chloride at Rigi
DOI: 10.48597/dpwf-8n8p
title: Measurement of Elemental_carbon at Payerne

description: Measurement of Elemental_carbon at Payerne
DOI: 10.48597/dxae-zv43
title: Measurement of Chloride at Payerne

description: Measurement of Chloride at Payerne
DOI: 10.6084/m9.figshare.12577232.v1
title: Additional file 15 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 15: Table S8. Significant associations between city and/or PAH exposure levels and species relative abundance.
DOI: 10.48597/eavy-grn2
title: Measurement of Conductivity at Rigi

description: Measurement of Conductivity at Rigi
DOI: 10.48597/ebba-wg5p
title: Measurement of Potassium at Payerne

description: Measurement of Potassium at Payerne
DOI: 10.48597/eg4k-9tgg
title: Measurement of Nitrate at Chaumont

description: Measurement of Nitrate at Chaumont
DOI: 10.6084/m9.figshare.6809963.v1
title: Cumulative lifetime maternal stress and epigenome-wide placental DNA methylation in the PRISM cohort

description: Evolving evidence links maternal stress exposure to changes in placental DNA methylation of specific genes regulating placental function that may have implications for the programming of a host of chronic disorders. Few studies have implemented an epigenome-wide approach. Using the Infinium HumanMethylation450 BeadChip (450K), we investigated epigenome-wide placental DNA methylation in relation to maternal experiences of traumatic and non-traumatic stressors over her lifetime assessed using the Life Stressor Checklist-Revised (LSC-R) survey (n = 207). We found differential DNA methylation at epigenome-wide statistical significance (FDR = 0.05) for 112 CpGs. Additionally, we observed three clusters that exhibited differential methylation in response to high maternal lifetime stress. Enrichment analyses, conducted at an FDR = 0.20, revealed lysine degradation to be the most significant pathway associated with maternal lifetimes stress exposure. Targeted enrichment analyses of the three largest clusters of probes, identified using the gap statistic, were enriched for genes associated with endocytosis (i.e., <i>SMAP1, ANKFY1</i>), tight junctions (i.e., <i>EPB41L4B</i>), and metabolic pathways (i.e., <i>INPP5E, EEF1B2</i>). These pathways, also identified in the top 10 KEGG pathways associated with maternal lifetime stress exposure, play important roles in multiple physiological functions necessary for proper fetal development. Further, two genes were identified to exhibit multiple probes associated with maternal lifetime stress (i.e., <i>ANKFY1, TM6SF1</i>). The methylation status of the probes belonging to each cluster and/or genes exhibiting multiple hits, may play a role in the pathogenesis of adverse health outcomes in children born to mothers with increased lifetime stress exposure.
DOI: 10.48597/fc2g-63vu
title: Measurement of Inorganics in precipitation at Lesnoy

description: Measurement of Inorganics in precipitation at Lesnoy
DOI: 10.48597/g9pv-j7py
title: Measurement of Sodium at Payerne

description: Measurement of Sodium at Payerne
DOI: 10.48597/gag2-4x9q
title: Measurement of pH at Chaumont

description: Measurement of pH at Chaumont
DOI: 10.48597/h8f4-ps8s
title: Measurement of Ammonia at Payerne

description: Measurement of Ammonia at Payerne
DOI: 10.48597/hkr4-xnzs
title: Measurement of Calcium at Chaumont

description: Measurement of Calcium at Chaumont
DOI: 10.48597/hx6c-b5c8
title: Measurement of Sulphate_total at Chaumont

description: Measurement of Sulphate_total at Chaumont
DOI: 10.48597/jcuj-pnx9
title: Measurement of Nitric_acid at Rigi

description: Measurement of Nitric_acid at Rigi
DOI: 10.6084/m9.figshare.12577151.v1
title: Additional file 6 of Diverse and unique viruses discovered in the surface water of the East China Sea

description: Additional file 6: Table S2. Category of function class of predicted viral ORFs from the ECS viromes.
DOI: 10.6084/m9.figshare.12577154
title: Additional file 7 of Diverse and unique viruses discovered in the surface water of the East China Sea

description: Additional file 7: Table S3. Function annotation using the Conserved Domains Database (CDD) of predicted viral ORFs from the ECS viromes.
DOI: 10.6084/m9.figshare.12577214
title: Additional file 12 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 12: Table S6. Percentage of OTUs fitted within the Sloan model neutral prediction.
DOI: 10.6084/m9.figshare.25334070.v1
title: Why Care for Humanity?

description: Data Motherhood
DOI: 10.48597/k34h-5m33
title: Measurement of Ammonia at Rigi

description: Measurement of Ammonia at Rigi
DOI: 10.6084/m9.figshare.12577241.v1
title: Additional file 17 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 17: Table S10. Individual and sample metadata including PAH exposure levels.
DOI: 10.6084/m9.figshare.12577247
title: Additional file 19 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 19: Table S12. Metagenomics sequencing quality control information of samples.
DOI: 10.48597/kmbw-e26r
title: Measurement of Nitrate at Rigi

description: Measurement of Nitrate at Rigi
DOI: 10.6084/m9.figshare.12577166
title: Additional file 9 of Diverse and unique viruses discovered in the surface water of the East China Sea

description: Additional file 9: Table S5. Protospacers targeting analysis of the ECS viromes.
DOI: 10.48597/kwq8-6rj8
title: Measurement of Magnesium at Payerne

description: Measurement of Magnesium at Payerne
DOI: 10.48597/m8ka-k6ze
title: Measurement of Sulphate_total at Jungfraujoch

description: Measurement of Sulphate_total at Jungfraujoch
DOI: 10.5281/zenodo.10728375
title: Title: Replication package for: The Demand for News: Accuracy Concerns versus Belief Confirmation Motives

description: The Demand for News: Accuracy Concerns versus Belief Confirmation
DOI: 10.5281/zenodo.10728376
title: Title: Replication package for: The Demand for News: Accuracy Concerns versus Belief Confirmation Motives

description: The Demand for News: Accuracy Concerns versus Belief Confirmation
DOI: 10.6084/m9.figshare.12577286
title: Additional file 6 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 6: Table S2. Significant cross-domain correlations across sample groups based on skin site, city, and skin phenotype.
DOI: 10.6084/m9.figshare.12577199
title: Additional file 10 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 10: Table S4. Bacterial and fungal OTUs selected by sparse canonical correlation analysis.
DOI: 10.6084/m9.figshare.12577208
title: Additional file 11 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 11: Table S5. Significant relationships between PAH exposure and relative abundance of OTUs, and Sloan model prediction for significant OTUs.
DOI: 10.6084/m9.figshare.12577208.v1
title: Additional file 11 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 11: Table S5. Significant relationships between PAH exposure and relative abundance of OTUs, and Sloan model prediction for significant OTUs.
DOI: 10.48597/n776-ecbb
title: Measurement of Pm25_mass at Rigi

description: Measurement of Pm25_mass at Rigi
DOI: 10.6084/m9.figshare.12577199.v1
title: Additional file 10 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 10: Table S4. Bacterial and fungal OTUs selected by sparse canonical correlation analysis.
DOI: 10.6084/m9.figshare.12577223
title: Additional file 13 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 13: Table S7. Taxonomic information of OTUs that deviated from the Sloan neutral model prediction.
DOI: 10.48597/nqj4-zby6
title: Measurement of Precipitation_amount at Chaumont

description: Measurement of Precipitation_amount at Chaumont
DOI: 10.6084/m9.figshare.12577214.v1
title: Additional file 12 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 12: Table S6. Percentage of OTUs fitted within the Sloan model neutral prediction.
DOI: 10.48597/pcsm-3w3t
title: Measurement of Nitrogen_dioxide at Rigi

description: Measurement of Nitrogen_dioxide at Rigi
DOI: 10.6084/m9.figshare.12577235
title: Additional file 16 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 16: Table S9. Significant associations between city, skin site, and/or PAH exposure levels and relative abundance of KEGG orthology genes.
DOI: 10.6084/m9.figshare.12577286.v1
title: Additional file 6 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 6: Table S2. Significant cross-domain correlations across sample groups based on skin site, city, and skin phenotype.
DOI: 10.48597/prdk-r2s9
title: Measurement of Nitrogen_dioxide at Tänikon

description: Measurement of Nitrogen_dioxide at Tänikon
DOI: 10.48597/q9kw-64vq
title: Measurement of Chloride at Chaumont

description: Measurement of Chloride at Chaumont
DOI: 10.48597/qpdj-n4jv
title: Measurement of Sodium at Rigi

description: Measurement of Sodium at Rigi
DOI: 10.48597/qtua-zas4
title: Measurement of Nitrogen_dioxide at Chaumont

description: Measurement of Nitrogen_dioxide at Chaumont
DOI: 10.6084/m9.figshare.12577235.v1
title: Additional file 16 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 16: Table S9. Significant associations between city, skin site, and/or PAH exposure levels and relative abundance of KEGG orthology genes.
DOI: 10.6084/m9.figshare.12577241
title: Additional file 17 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 17: Table S10. Individual and sample metadata including PAH exposure levels.
DOI: 10.6084/m9.figshare.12577232
title: Additional file 15 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 15: Table S8. Significant associations between city and/or PAH exposure levels and species relative abundance.
DOI: 10.6084/m9.figshare.12577247.v1
title: Additional file 19 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 19: Table S12. Metagenomics sequencing quality control information of samples.
DOI: 10.48597/t9ha-9gr2
title: Measurement of Inorganics in air and particle phase at Melpitz

description: Measurement of Inorganics in air and particle phase at Melpitz
DOI: 10.48597/tay5-tzr7
title: Measurement of Precipitation_amount at Payerne

description: Measurement of Precipitation_amount at Payerne
DOI: 10.6084/m9.figshare.12577295
title: Additional file 8 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 8: Table S3. PAH exposure grouping of individuals.
DOI: 10.6084/m9.figshare.12577295.v1
title: Additional file 8 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 8: Table S3. PAH exposure grouping of individuals.
DOI: 10.6084/m9.figshare.13101055.v1
title: Additional file 3 of Clonal tracing reveals diverse patterns of response to immune checkpoint blockade

description: Additional file 3: Table S2. Enriched pathways in responders vs non-responders by GSEA.
DOI: 10.48597/u5hu-ah5u
title: Measurement of Calcium at Payerne

description: Measurement of Calcium at Payerne
DOI: 10.6084/m9.figshare.12577274.v1
title: Additional file 4 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 4: Table S1. Bacterial and fungal community membership and composition analyses between different sample groups.
DOI: 10.6084/m9.figshare.13101061
title: Additional file 4 of Clonal tracing reveals diverse patterns of response to immune checkpoint blockade

description: Additional file 4: Table S3. Cistrome Toolkit inference of transcription regulators with highest overlap with differential ATAC-seq peaks.
DOI: 10.48597/uzvn-bd6w
title: Measurement of Sodium at Chaumont

description: Measurement of Sodium at Chaumont
DOI: 10.48597/v659-2nvq
title: Measurement of Inorganics in precipitation at Janiskoski

description: Measurement of Inorganics in precipitation at Janiskoski
DOI: 10.48597/v8kp-x9yf
title: Measurement of Sulphur_dioxide at Payerne

description: Measurement of Sulphur_dioxide at Payerne
DOI: 10.6084/m9.figshare.12577274
title: Additional file 4 of Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants

description: Additional File 4: Table S1. Bacterial and fungal community membership and composition analyses between different sample groups.
DOI: 10.48597/vaqj-847e
title: Measurement of Sum_ammonia_and_ammonium at Payerne

description: Measurement of Sum_ammonia_and_ammonium at Payerne