cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14570111
title: Additional file 4 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 4. Cluster metrics and annotations. Cluster metric standard deviations, cluster annotations, cluster gene correlations and gene pathways conserved across cryopreserved conditions. a, Standard deviations for silhouette scores, mixing metrics and local structure metrics, computed for the comparisons between the down sampled cells from Fresh Tissue (FT) with cells from FT (positive control), Cryopreserved Cell Suspensions (CCS), Cryopreserved Tissue (CT) and Cryopreserved Overnight (CO). b, Integrated cluster annotations. c, Cluster level correlation values. Adjusted-R2 values computed using linear regression in R to model log-normalised gene expression values between integrated clustered cells from different cryopreserved replicates. d, Conservation of cluster Gene Ontology (GO) pathways following cryopreservation. Functional enrichment was first performed for all differentially expressed genes in each integrated cluster in FT samples. Enrichment scores for these pathways were then compared to the respective integrated cluster in each cryopreserved replicate (CCS, CT, CO). All DEGs from each cluster were passed on to the ClusterProfiler package for functional enrichment with the CC sub-ontology under the human org.Hs.eg.db database. Specific GO pathways that were unique to FT clusters, CCS vs CT clusters or CT vs CCS clusters are listed with the cluster and number of tumours that they were identified in.
DOI: 10.6084/m9.figshare.14570114
title: Additional file 5 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 5. Differentially expressed genes for all cells across cryopreservation conditions. Differential gene expression was performed using the MAST method within Seurat v3 with the RNA assay and default parameters. Differential gene expression was performed using integrated data. Data from all conditions from each matched tumour datasets were down sampled to the same number of mapped sequencing reads using CellRanger. The number of cells in each condition was randomly down sampled to match the condition with the lowest number of cells.
DOI: 10.6084/m9.figshare.14570105
title: Additional file 3 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 3. Differentially expressed genes for clusters. Differentially expressed genes for integrated clusters. Differential gene expression was performed using the MAST method within Seurat v3 with the RNA assay and default parameters.
DOI: 10.6084/m9.figshare.14570111.v1
title: Additional file 4 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 4. Cluster metrics and annotations. Cluster metric standard deviations, cluster annotations, cluster gene correlations and gene pathways conserved across cryopreserved conditions. a, Standard deviations for silhouette scores, mixing metrics and local structure metrics, computed for the comparisons between the down sampled cells from Fresh Tissue (FT) with cells from FT (positive control), Cryopreserved Cell Suspensions (CCS), Cryopreserved Tissue (CT) and Cryopreserved Overnight (CO). b, Integrated cluster annotations. c, Cluster level correlation values. Adjusted-R2 values computed using linear regression in R to model log-normalised gene expression values between integrated clustered cells from different cryopreserved replicates. d, Conservation of cluster Gene Ontology (GO) pathways following cryopreservation. Functional enrichment was first performed for all differentially expressed genes in each integrated cluster in FT samples. Enrichment scores for these pathways were then compared to the respective integrated cluster in each cryopreserved replicate (CCS, CT, CO). All DEGs from each cluster were passed on to the ClusterProfiler package for functional enrichment with the CC sub-ontology under the human org.Hs.eg.db database. Specific GO pathways that were unique to FT clusters, CCS vs CT clusters or CT vs CCS clusters are listed with the cluster and number of tumours that they were identified in.
DOI: 10.6084/m9.figshare.14570117
title: Additional file 6 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 6. Gene pathways for all cells across cryopreservation conditions. Shared Gene Ontology (GO) pathways for each cryopreservation condition across the five tumours analysed. Only pathways detected in the same condition in more than two tumours were analysed. All DEGs from the comparison of all cells across cryopreservation conditions (Additional file 5) were passed on to the ClusterProfiler package for functional enrichment with the CC sub-ontology under the human org.Hs.eg.db database.
DOI: 10.6084/m9.figshare.14570117.v1
title: Additional file 6 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 6. Gene pathways for all cells across cryopreservation conditions. Shared Gene Ontology (GO) pathways for each cryopreservation condition across the five tumours analysed. Only pathways detected in the same condition in more than two tumours were analysed. All DEGs from the comparison of all cells across cryopreservation conditions (Additional file 5) were passed on to the ClusterProfiler package for functional enrichment with the CC sub-ontology under the human org.Hs.eg.db database.
DOI: 10.6084/m9.figshare.14570120
title: Additional file 7 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 7. Differentially expressed genes for each cell type across cryopreservation conditions. Differential gene expression was performed using the MAST method within Seurat v3 with the RNA assay and default parameters. Differential gene expression was performed using integrated cluster data. Data from all conditions from each matched tumour dataset were down sampled to the same number of mapped sequencing reads using CellRanger. The number of cells in each condition was randomly down sampled to match the condition with the lowest number of cells.
DOI: 10.6084/m9.figshare.14570114.v1
title: Additional file 5 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 5. Differentially expressed genes for all cells across cryopreservation conditions. Differential gene expression was performed using the MAST method within Seurat v3 with the RNA assay and default parameters. Differential gene expression was performed using integrated data. Data from all conditions from each matched tumour datasets were down sampled to the same number of mapped sequencing reads using CellRanger. The number of cells in each condition was randomly down sampled to match the condition with the lowest number of cells.
DOI: 10.6084/m9.figshare.14570123
title: Additional file 8 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 8. Gene pathways for each cell type across cryopreservation conditions. Shared Gene Ontology (GO) pathways for each cell type and cryopreservation condition across the five tumours analysed. Only pathways detected in the same cell type and cryopreservation condition in more than two tumours were analysed. All DEGs from the comparison of annotated cell types across cryopreservation conditions (Additional file 7) were passed on to the ClusterProfiler package for functional enrichment with the CC sub-ontology under the human org.Hs.eg.db database.
DOI: 10.6084/m9.figshare.14570123.v1
title: Additional file 8 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 8. Gene pathways for each cell type across cryopreservation conditions. Shared Gene Ontology (GO) pathways for each cell type and cryopreservation condition across the five tumours analysed. Only pathways detected in the same cell type and cryopreservation condition in more than two tumours were analysed. All DEGs from the comparison of annotated cell types across cryopreservation conditions (Additional file 7) were passed on to the ClusterProfiler package for functional enrichment with the CC sub-ontology under the human org.Hs.eg.db database.
DOI: 10.6084/m9.figshare.14570120.v1
title: Additional file 7 of Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

description: Additional file 7. Differentially expressed genes for each cell type across cryopreservation conditions. Differential gene expression was performed using the MAST method within Seurat v3 with the RNA assay and default parameters. Differential gene expression was performed using integrated cluster data. Data from all conditions from each matched tumour dataset were down sampled to the same number of mapped sequencing reads using CellRanger. The number of cells in each condition was randomly down sampled to match the condition with the lowest number of cells.
DOI: 10.6084/m9.figshare.14570132.v1
title: Additional file 3 of Precision medicine and the principle of equal treatment: a conjoint analysis

description: Additional file 3. The syntax used for analysing the dataset, used in the software R.
DOI: 10.6084/m9.figshare.14570135
title: Additional file 4 of Precision medicine and the principle of equal treatment: a conjoint analysis

description: Additional file 4. The data collected in the suryvey, except personal data about participants that cannot be shared. The file can be opened in R by using the syntax in Additional file 3.
DOI: 10.6084/m9.figshare.14570132
title: Additional file 3 of Precision medicine and the principle of equal treatment: a conjoint analysis

description: Additional file 3. The syntax used for analysing the dataset, used in the software R.
DOI: 10.6084/m9.figshare.14570135.v1
title: Additional file 4 of Precision medicine and the principle of equal treatment: a conjoint analysis

description: Additional file 4. The data collected in the suryvey, except personal data about participants that cannot be shared. The file can be opened in R by using the syntax in Additional file 3.
DOI: 10.17632/wmp229s3xg.1
title: Cell Reports; Nychyk et al 2021; Figure S2; Protein quality and quantity influence the effect of dietary fat on weight gain and tissue partitioning via host-microbiota changes

description: This experiment was done to analyze the impact of dietary macronutrients on plasma and tissue inflammatory response. In total we used 18 different diets and tested these on males of one mouse strain (C57BL/6). This file contains the individual data of plasma cytokines of male C57BL/6 mice exposed to one of 6 different diets. The tissue weights are from dissection at the end of the experiment. Dietary treatments consisted of three different levels of dietary fat (20, 40 and 55% by energy) combined with one level of protein (30% by energy) with either casein (CAS) or whey protein isolate (WPI). Full details of the dietary compositions can be found in the supplementary table 1. Complete meta-data are in the meta-data tab of the file. Means for each diet derived from these individual values are presented in Figure S2A-D.
DOI: 10.6084/m9.figshare.14570189
title: Additional file 11 of Identification of the conserved long non-coding RNAs in myogenesis

description: Additional file 11. The position of lncRNAs along with each histone peaks for both human and mouse genome.
DOI: 10.6084/m9.figshare.14570198
title: Additional file 14 of Identification of the conserved long non-coding RNAs in myogenesis

description: Additional file 14. Gene ontology results of the lncRNAs and associated genes based on TADs.
DOI: 10.6084/m9.figshare.14570198.v1
title: Additional file 14 of Identification of the conserved long non-coding RNAs in myogenesis

description: Additional file 14. Gene ontology results of the lncRNAs and associated genes based on TADs.
DOI: 10.6084/m9.figshare.14570201
title: Additional file 15 of Identification of the conserved long non-coding RNAs in myogenesis

description: Additional file 15. Gene enrichment analysis of associated genes involved pathways. (XLS 961 kb)
DOI: 10.6084/m9.figshare.14570189.v1
title: Additional file 11 of Identification of the conserved long non-coding RNAs in myogenesis

description: Additional file 11. The position of lncRNAs along with each histone peaks for both human and mouse genome.
DOI: 10.6084/m9.figshare.14570201.v1
title: Additional file 15 of Identification of the conserved long non-coding RNAs in myogenesis

description: Additional file 15. Gene enrichment analysis of associated genes involved pathways. (XLS 961 kb)
DOI: 10.6084/m9.figshare.14570225
title: Additional file 7 of Identification of the conserved long non-coding RNAs in myogenesis

description: Additional file 7. Complete lists of genomic position of lncRNAs with each of the regulatory elements for human and mouse datasets.
DOI: 10.6084/m9.figshare.14570225.v1
title: Additional file 7 of Identification of the conserved long non-coding RNAs in myogenesis

description: Additional file 7. Complete lists of genomic position of lncRNAs with each of the regulatory elements for human and mouse datasets.
DOI: 10.6084/m9.figshare.14570258
title: Additional file 2 of Epidemiological characteristics of the COVID-19 spring outbreak in Quebec, Canada: a population-based study

description: Additional file 2 Supplementary files (informed consent and questionnaire).
DOI: 10.6084/m9.figshare.14570258.v1
title: Additional file 2 of Epidemiological characteristics of the COVID-19 spring outbreak in Quebec, Canada: a population-based study

description: Additional file 2 Supplementary files (informed consent and questionnaire).
DOI: 10.6084/m9.figshare.14570266
title: Additional file 1 of Simultaneous learning of individual microRNA-gene interactions and regulatory comodules

description: Additional file 1. MiRNA-gene comodules.
DOI: 10.6084/m9.figshare.14570269
title: Additional file 2 of Simultaneous learning of individual microRNA-gene interactions and regulatory comodules

description: Additional file 2. Comodule analysis.
DOI: 10.6084/m9.figshare.14570266.v1
title: Additional file 1 of Simultaneous learning of individual microRNA-gene interactions and regulatory comodules

description: Additional file 1. MiRNA-gene comodules.
DOI: 10.6084/m9.figshare.14570269.v1
title: Additional file 2 of Simultaneous learning of individual microRNA-gene interactions and regulatory comodules

description: Additional file 2. Comodule analysis.
DOI: 10.6084/m9.figshare.14462694
title: Additional file 1 of Using CPAP in COVID-19 patients outside of the intensive care setting: a comparison of survival and outcomes between dialysis and non-dialysis dependent patients

description: Additional file 1.
DOI: 10.6084/m9.figshare.14462694.v1
title: Additional file 1 of Using CPAP in COVID-19 patients outside of the intensive care setting: a comparison of survival and outcomes between dialysis and non-dialysis dependent patients

description: Additional file 1.
DOI: 10.6084/m9.figshare.14570285.v1
title: Additional file 1 of Spanish-dementia knowledge assessment scale (DKAS-S): psychometric properties and validation

description: Additional file 1. Rowdata of the sample
DOI: 10.6084/m9.figshare.14570285
title: Additional file 1 of Spanish-dementia knowledge assessment scale (DKAS-S): psychometric properties and validation

description: Additional file 1. Rowdata of the sample
DOI: 10.6084/m9.figshare.14570288.v1
title: Additional file 1 of Natural attenuation along subsurface flow paths based on modeling and monitoring of a pesticide metabolite from three case studies

description: Additional file 1. Monitoring data.
DOI: 10.6084/m9.figshare.14570288
title: Additional file 1 of Natural attenuation along subsurface flow paths based on modeling and monitoring of a pesticide metabolite from three case studies

description: Additional file 1. Monitoring data.
DOI: 10.6084/m9.figshare.14570294.v1
title: Additional file 10 of Structural variations in papaya genomes

description: Additional file 10: Supplemental Table S5. PCR primers information used in this paper
DOI: 10.6084/m9.figshare.14570294
title: Additional file 10 of Structural variations in papaya genomes

description: Additional file 10: Supplemental Table S5. PCR primers information used in this paper
DOI: 10.6084/m9.figshare.14570312
title: Additional file 6 of Structural variations in papaya genomes

description: Additional file 6: Supplemental Table S1. The re-sequencing samples used in this study.
DOI: 10.6084/m9.figshare.14570312.v1
title: Additional file 6 of Structural variations in papaya genomes

description: Additional file 6: Supplemental Table S1. The re-sequencing samples used in this study.
DOI: 10.6084/m9.figshare.14570315
title: Additional file 7 of Structural variations in papaya genomes

description: Additional file 7: Supplemental Table S2. Statistics of structural variation of different chromosomes in papaya.
DOI: 10.6084/m9.figshare.14570315.v1
title: Additional file 7 of Structural variations in papaya genomes

description: Additional file 7: Supplemental Table S2. Statistics of structural variation of different chromosomes in papaya.
DOI: 10.6084/m9.figshare.14570318.v1
title: Additional file 8 of Structural variations in papaya genomes

description: Additional file 8: Supplemental Table S3. Statistics of the number of chromosome CNV-genes in different cultivated subgroups.
DOI: 10.6084/m9.figshare.14570321.v1
title: Additional file 9 of Structural variations in papaya genomes

description: Additional file 9: Supplemental Table S4. 91 CNV-genes function enrichment meaningful pathwayc
DOI: 10.6084/m9.figshare.14570321
title: Additional file 9 of Structural variations in papaya genomes

description: Additional file 9: Supplemental Table S4. 91 CNV-genes function enrichment meaningful pathwayc
DOI: 10.6084/m9.figshare.14570318
title: Additional file 8 of Structural variations in papaya genomes

description: Additional file 8: Supplemental Table S3. Statistics of the number of chromosome CNV-genes in different cultivated subgroups.
DOI: 10.6084/m9.figshare.14570347
title: Additional file 2 of Natural family-free genomic distance

description: Additional file 2. Lists of inferred gene matchings for each pairwise comparison of Drosophila genomes and homolog gene sets (gene families) for D. melanogaster, D. simulans and D. yakuba defined by FlyBase (release FB2020 04) with gene identifiers converted to NCBI identifiers.
DOI: 10.6084/m9.figshare.14570347.v1
title: Additional file 2 of Natural family-free genomic distance

description: Additional file 2. Lists of inferred gene matchings for each pairwise comparison of Drosophila genomes and homolog gene sets (gene families) for D. melanogaster, D. simulans and D. yakuba defined by FlyBase (release FB2020 04) with gene identifiers converted to NCBI identifiers.
DOI: 10.14457/cu.the.2012.197
title: สถรรถนะไอซีทีของนักเรียนมัธยมศึกษาตอนต้น : โมเดลสมการโครงสร้างพหุระดับที่มีและไม่มีการส่งผ่านที่ถูกกำกับ
DOI: 10.14457/pbru.the.2012.56
title: ตัวแบบเทคโนโลยีสารสนเทศสำหรับการบริหารลูกค้าสัมพันธ์ของรีสอร์ท
DOI: 10.14457/kmitl.res.2012.119
title: การปรับปรุงน้ำมันใช้แล้วโดยกระบวนการดูดซับและคุณภาพของน้ำมันที่ปรับปรุงเมื่อใช้ทอดและผลิตภัณฑ์จากการทอด
DOI: 10.14457/rmutp.res.2012.7
title: การปรับปรุงประสิทธิภาพการเรียนรายวิชาฟิสิกส์ 1 สำหรับวิศวกรด้วยสื่อจำลองสถานการณ์กราฟิกแอนิเมชั่นแบบเรียลไทม์
DOI: 10.14457/ku.the.2012.914
title: การประยุกต์การรับรู้ระยะไกลและระบบสารสนเทศภูมิศาสตร์ เพื่อประเมินการชะล้างพังทลายของดิน ในพื้นที่ลุ่มน้ำริด จังหวัดอุตรดิตถ์
DOI: 10.6084/m9.figshare.14570491
title: Additional file 1 of Genealogical relationship inference to identify areas of intensive poaching of the Orange-fronted Parakeet (Eupsittula canicularis)

description: Additional file 1 Haplotypes and variable sites in 931 pb of the Cytb gene from 133 samples of poached and wild E. canicularis individuals. Number of haplotypes; alignment site; frequency (n) in wild population, in poached, and total sample; locality of natural distribution; poached.
DOI: 10.6084/m9.figshare.14570491.v1
title: Additional file 1 of Genealogical relationship inference to identify areas of intensive poaching of the Orange-fronted Parakeet (Eupsittula canicularis)

description: Additional file 1 Haplotypes and variable sites in 931 pb of the Cytb gene from 133 samples of poached and wild E. canicularis individuals. Number of haplotypes; alignment site; frequency (n) in wild population, in poached, and total sample; locality of natural distribution; poached.
DOI: 10.6084/m9.figshare.14570500
title: Additional file 10 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 10: Supplementary Table 10. Dialysis vintage of all dialysis patients according to age as of the end of 2018.
DOI: 10.6084/m9.figshare.14570503
title: Additional file 11 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 11: Supplementary Table 11. Dialysis vintage of all dialysis patients according to treatment method as of the end of 2018.
DOI: 10.6084/m9.figshare.14570500.v1
title: Additional file 10 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 10: Supplementary Table 10. Dialysis vintage of all dialysis patients according to age as of the end of 2018.
DOI: 10.6084/m9.figshare.14570503.v1
title: Additional file 11 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 11: Supplementary Table 11. Dialysis vintage of all dialysis patients according to treatment method as of the end of 2018.
DOI: 10.6084/m9.figshare.14570506
title: Additional file 12 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 12: Supplementary Table 12. Prevalence of HCV-Ab positivity according to dialysis vintage as of the end of 2007.
DOI: 10.6084/m9.figshare.14570509
title: Additional file 13 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 13: Supplementary Table 13. Prevalence according to HCV-Ab and HCV-RNA statuses as of the end of 2007.
DOI: 10.6084/m9.figshare.14570509.v1
title: Additional file 13 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 13: Supplementary Table 13. Prevalence according to HCV-Ab and HCV-RNA statuses as of the end of 2007.
DOI: 10.6084/m9.figshare.14570506.v1
title: Additional file 12 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 12: Supplementary Table 12. Prevalence of HCV-Ab positivity according to dialysis vintage as of the end of 2007.
DOI: 10.6084/m9.figshare.14570512.v1
title: Additional file 1 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 1: Supplementary Table 1. Trend in the prevalence of HBs-antigen-positive patients from 1999 to 2018.
DOI: 10.6084/m9.figshare.14570515.v1
title: Additional file 2 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 2: Supplementary Table 2. Prevalence of HBs-antigen-positive patients according to dialysis vintage as of the end of 2018.
DOI: 10.6084/m9.figshare.14570512
title: Additional file 1 of 2018 annual dialysis data report of the JSDT Renal Data Registry: patients with hepatitis

description: Additional file 1: Supplementary Table 1. Trend in the prevalence of HBs-antigen-positive patients from 1999 to 2018.