cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12399257
title: Additional file 2 of Ancestry-specific predisposing germline variants in cancer

description: Additional file 2: Table S1. The demographic information of TCGA PanCanAtlas cohort with separate admixture populations. Table S2a. Ancestry-specific cancer-gene associations discovered from multivariate regression analyses. Table S2b. Ancestry-specific cancer-gene associations discovered from rare variant burden testing (Total Frequency Test- TFT). Table S3. Frequency of predisposing variants in TCGA PanCanAtlas and gnomAD-non-cancer subset across all ancestries. Table S4a. Ancestry-Specific Predisposing Variants as identified from Supp. Table.2. Table S4b. Summary of somatic second hit mutations in carriers of germline predisposing variants. Table S5a. Statistical analysis of gene expression in tumor samples of the variant carriers vs. non-carriers within each ancestry-cancer combination. Table S5b. Tumor RNAseq variant allele fractions and the somatic second hit events in germline predisposing variants with extreme expression within that cancer type. Table S6a. Post hoc power analyses to detect rare-variant associations in an aggregation test using SKAT. Table S6a. Down-sampling analysis for PCGP and SARC (cancers with at least 5 significantly associated germline genes in the European ancestry). Table S7. Prior studies that report ancestry-specific germline predisposition.
DOI: 10.6084/m9.figshare.15020624.v1
title: Additional file 1 of Identification of QTL related to anther color and hull color by RAD sequencing in a RIL population of Setaria italica

description: Additional file 1: Table S1. Anther and hull color in Yugu18, Jigu19 and RILs. Table S2. Number of SNPs, indels and effective SNPs on nine chromosomes in two parents by aligning against reference genome. Table S3. Heterozygosity of each sample in the final variations set. Table S4. Detailed bin information. Table S5. The gene list and functional annotation of QTL related to anther color and hull color in millet. Table S6. The annovar annotation result of the SNPs and indels in QTL IRA1AC of Jigu19. Table S7. The annovar annotation result of the SNPs and indels in QTL IRA1AC of Yugu18. Table S8. The annovar annotation result of the SNPs and indels in QTL IRA2HC of Jigu19. Table S9. The annovar annotation result of the SNPs and indels in QTL IRA2HC of Yugu18. Table S10. The annovar annotation result of the SNPs and indels in QTL IRA3HC of Jigu19. Table S11. the annovar annotation result of the SNPs and indels in QTL IRA3HC of Yugu18. Table S12. The SNPs and indels located in the QTL of IRA1AC in vcf format. Table S13. The SNPs and indels located in the QTL of IRA2HC in vcf format. Table S14. The SNPs and indels located in the QTL of IRA3HC in vcf format.
DOI: 10.6084/m9.figshare.15020711
title: Additional file 2 of Comparing the monetary value of a quality-adjusted life year from the payment card and the open-ended format

description: Additional file 2. Sensitive analysis of generalized linear models for WTP/QALY values. This is the result of sensitive analysis of GLMs.
DOI: 10.6084/m9.figshare.12399374.v1
title: Additional file 2 of LIG4 syndrome: clinical and molecular characterization in a Chinese cohort

description: Additional file 2: Table S2. Clinical and immunophenotype comparison between genotypes p.R814X/p.K424Rfs*20 and p.R278/p.K424Rfs*20.
DOI: 10.6084/m9.figshare.19771105
title: Data on litter decomposition experiment in six urban forests

description: Data on litter decomposition experiment in six urban forests across Europe.
DOI: 10.34740/kaggle/dsv/7655974
title: 2021 World Population (updated daily)
DOI: 10.48510/fk2/vfl4nc
title: Sequential Design of Experiments (DoE) Campaigns for High Hydrostatic Pressure (HHP) Process Optimization

description: Data are obtained within the framework of RSU grant "AI&HHP4Bi: Artificial intelligence and high hydrostatic pressure for sterile biomaterials" (6-ZD-22/8/2023). The overall goal is to evaluate technological process, method limitations of E.coli bacteria during sterilisation by high hydrostatic pressure. This dataset contains results from sequential Design of Experiments (DoE) campaigns aimed at optimizing a High Hydrostatic Pressure (HHP) process to minimize microbial colonies (colonies_ec) and total effort. The experiments were guided by Genetic Algorithms, iterating through various combinations of pressure, cycles, and time. This dataset supports research into efficient HHP process parameters for microbial reduction while considering process effort. The software used in the project: xT SAAM https://www.x-t.ai/xt-saam/
DOI: 10.6084/m9.figshare.12399368
title: Additional file 1 of LIG4 syndrome: clinical and molecular characterization in a Chinese cohort

description: Additional file 1: Table S1. Immune index of patients with LIG4 mutations.
DOI: 10.6084/m9.figshare.15020639.v1
title: Additional file 2 of Investigating causal relationships between exposome and human longevity: a Mendelian randomization analysis

description: Additional file 2: Table S13. Mendelian randomization results of all traits in primary analysis using dataset of 90th percentile longevity. Table S14. Mendelian randomization results of all traits in secondary analysis using dataset of 99th percentile longevity.
DOI: 10.6084/m9.figshare.11350940
title: Exosomes secreted from miRNA-29b-modified mesenchymal stem cells repaired spinal cord injury in rats

description: Exosomes, a kind of extracellular vesicle, are promising therapeutic agents for spinal cord injury (SCI). This article aimed to investigate effects of exosomes secreted from miRNA-29b-modified bone marrow mesenchymal stem cells (BMSCs) on SCI. Exosomes were extracted from BMSCs transfected with miRNA-29b or negative control (miR NC). SCI rats were injected intravenously with exosomes (control exosomes, miRNA-29b exosomes) and BMSCs (miR NC, miRNA-29b) through the tail vein. The expression of miRNA-29b in spinal cord tissues of SCI rats was detected by qRT-PCR. The hind limb motor function was evaluated by Basso Beattie Bresnahan (BBB) score. The histopathological damage and neuronal regeneration in spinal cord tissues was observed by HE staining and immunohistochemistry, respectively. The injection of miRNA-29b exosomes and miRNA-29b BMSCs both significantly increased the expression of miRNA-29b in spinal cord tissues of SCI rats (P&lt;0.05). Compared with SCI rats, rats in the miRNA-29b exosomes and the miRNA-29b groups exhibited improved SCI, including increased BBB score, NF200 and GAP-43 positive neurons, as well as decreased contractile nerve cell numbers and GFAP positive neurons (all P&lt;0.05). The relieving degree of SCI was significantly higher in the miRNA-29b exosomes group than in the miRNA-29b BMSCs group (P&lt;0.05). Exosomes secreted from miRNA-29b-modified BMSCs were effective in the repair of SCI in rats.
DOI: 10.6084/m9.figshare.11350940.v1
title: Exosomes secreted from miRNA-29b-modified mesenchymal stem cells repaired spinal cord injury in rats

description: Exosomes, a kind of extracellular vesicle, are promising therapeutic agents for spinal cord injury (SCI). This article aimed to investigate effects of exosomes secreted from miRNA-29b-modified bone marrow mesenchymal stem cells (BMSCs) on SCI. Exosomes were extracted from BMSCs transfected with miRNA-29b or negative control (miR NC). SCI rats were injected intravenously with exosomes (control exosomes, miRNA-29b exosomes) and BMSCs (miR NC, miRNA-29b) through the tail vein. The expression of miRNA-29b in spinal cord tissues of SCI rats was detected by qRT-PCR. The hind limb motor function was evaluated by Basso Beattie Bresnahan (BBB) score. The histopathological damage and neuronal regeneration in spinal cord tissues was observed by HE staining and immunohistochemistry, respectively. The injection of miRNA-29b exosomes and miRNA-29b BMSCs both significantly increased the expression of miRNA-29b in spinal cord tissues of SCI rats (P&lt;0.05). Compared with SCI rats, rats in the miRNA-29b exosomes and the miRNA-29b groups exhibited improved SCI, including increased BBB score, NF200 and GAP-43 positive neurons, as well as decreased contractile nerve cell numbers and GFAP positive neurons (all P&lt;0.05). The relieving degree of SCI was significantly higher in the miRNA-29b exosomes group than in the miRNA-29b BMSCs group (P&lt;0.05). Exosomes secreted from miRNA-29b-modified BMSCs were effective in the repair of SCI in rats.
DOI: 10.6084/m9.figshare.19738287
title: Additional file 6 of Integrated investigation of DNA methylation, gene expression and immune cell population revealed immune cell infiltration associated with atherosclerotic plaque formation

description: Additional file 6: Table S5. Ten_genes correlated with immune cell types.
DOI: 10.6084/m9.figshare.12399383.v1
title: Additional file 1 of Seasonal variability of stable isotopes in the Changjiang (Yangtze) river water and its implications for natural climate and anthropogenic impacts

description: Additional file 1. A summary of sample information and their δD and δ18O.
DOI: 10.6084/m9.figshare.7156547.v2
title: Latitudinal variation in reproductive performance of <i>Leymus chinensis</i>: implications for its response to future climate warming

description: <i><b>Background</b></i>: Sexual reproduction of plants is likely to be related to climate in their distribution range. Therefore, the investigation of spatial pattern of reproductive traits might provide valuable insights into the potential responses of a plant species to climate change. <i><b>Aims</b></i>: We studied the latitudinal pattern of sexual reproduction in Leymus chinensis to uncover the underlying ecological factors and their roles. <i><b>Methods</b></i>: We established a latitude transect in the Inner Mongolian steppe and investigated reproductive performance of L. chinensis, followed by modelling the relationship between traits and ecological factors. <i><b>Results</b></i>: Stalk height, spike length and spikelet number were non-linearly related to latitude. The spike-stalk ratio, seed viability and shoot density displayed significantly negative response to increasing latitude. Overall, increased latitude posed adverse impacts on sexual reproduction of L. chinensis. Annual mean temperature was positively correlated with the traits relevant to fitness, such as floret number and seed viability and annual mean precipitation to the development and growth of shoots. <i><b>Conclusions</b></i>: Under climate change scenarios, the shift of reproductive pattern in L. chinensis, i.e. likely more successful sexual reproduction, will have considerable contribution to its potential of adaptation to changing environment, and to its capacity of migration towards more suitable habitats.
DOI: 10.6084/m9.figshare.12399368.v1
title: Additional file 1 of LIG4 syndrome: clinical and molecular characterization in a Chinese cohort

description: Additional file 1: Table S1. Immune index of patients with LIG4 mutations.
DOI: 10.6084/m9.figshare.12399563.v1
title: Additional file 3 of Whole blood transcriptomic investigation identifies long non-coding RNAs as regulators in sepsis

description: Additional file 3: Survival-associated modules.
DOI: 10.6084/m9.figshare.12399560.v1
title: Additional file 2 of Whole blood transcriptomic investigation identifies long non-coding RNAs as regulators in sepsis

description: Additional file 2: Supplementary table of the curated sepsis miRNA biomarkers.
DOI: 10.6084/m9.figshare.22360925.v1
title: Impaired geriatric 8 score is associated with worse survival after radical intensity modulated radiation therapy in elderly patients with nasopharyngeal carcinoma

description: Geriatric 8 score (G8) was an independent prognostic factor for survival and toxicities in various malignancies, but it has never been tested in nasopharyngeal carcinoma (NPC). To evaluate the value of G8 in predicting survival in elderly patients with NPC. Patients with NPC aged ≥70 who received intensity-modulated radiation therapy were recruited into this study. The overall survival (OS), progression-free survival (PFS), locoregional recurrence rate (LRR), and distant metastasis rate (DMR) between the patients with G8 &gt; 14 and G8 ≤ 14 were calculated using the Kaplan-Meier method and compared with the Log-rank test. Cox proportional hazards model was applied to perform univariate and multivariate analysis. G8 ≤ 14 had significantly reduced OS (<i>p</i> = .001) and PFS (<i>p</i> = .032) than those with G8 &gt; 14 by log-rank test. G8 score remained an independent prognosticator for OS (HR = 0.490, 95% CI = 0.267–0.900, <i>p</i> = .021) and was a borderline significance towards PFS (HR = 0.639, 95% CI = 0.386–1.058, <i>p</i> = .082) in multivariate analysis. Grade 3–4 acute toxicities were significantly more common in patients with G8 ≤ 14 than in those with G8 &gt; 14. G8 is useful in predicting the OS in elderly patients with NPC. Further prospective study stratified by G8 is needed to explore the value of CT in elderly patients with NPC.
DOI: 10.6084/m9.figshare.22360925
title: Impaired geriatric 8 score is associated with worse survival after radical intensity modulated radiation therapy in elderly patients with nasopharyngeal carcinoma

description: Geriatric 8 score (G8) was an independent prognostic factor for survival and toxicities in various malignancies, but it has never been tested in nasopharyngeal carcinoma (NPC). To evaluate the value of G8 in predicting survival in elderly patients with NPC. Patients with NPC aged ≥70 who received intensity-modulated radiation therapy were recruited into this study. The overall survival (OS), progression-free survival (PFS), locoregional recurrence rate (LRR), and distant metastasis rate (DMR) between the patients with G8 &gt; 14 and G8 ≤ 14 were calculated using the Kaplan-Meier method and compared with the Log-rank test. Cox proportional hazards model was applied to perform univariate and multivariate analysis. G8 ≤ 14 had significantly reduced OS (<i>p</i> = .001) and PFS (<i>p</i> = .032) than those with G8 &gt; 14 by log-rank test. G8 score remained an independent prognosticator for OS (HR = 0.490, 95% CI = 0.267–0.900, <i>p</i> = .021) and was a borderline significance towards PFS (HR = 0.639, 95% CI = 0.386–1.058, <i>p</i> = .082) in multivariate analysis. Grade 3–4 acute toxicities were significantly more common in patients with G8 ≤ 14 than in those with G8 &gt; 14. G8 is useful in predicting the OS in elderly patients with NPC. Further prospective study stratified by G8 is needed to explore the value of CT in elderly patients with NPC.
DOI: 10.6084/m9.figshare.9778079
title: Data matrix from Reappraisal of the Silurian placoderm <i>Silurolepis</i> and insights into the dermal neck joint evolution

description: The nexus file of data matrix
DOI: 10.6084/m9.figshare.12399563
title: Additional file 3 of Whole blood transcriptomic investigation identifies long non-coding RNAs as regulators in sepsis

description: Additional file 3: Survival-associated modules.
DOI: 10.6084/m9.figshare.12399560
title: Additional file 2 of Whole blood transcriptomic investigation identifies long non-coding RNAs as regulators in sepsis

description: Additional file 2: Supplementary table of the curated sepsis miRNA biomarkers.
DOI: 10.6084/m9.figshare.9778079.v1
title: Data matrix from Reappraisal of the Silurian placoderm <i>Silurolepis</i> and insights into the dermal neck joint evolution

description: The nexus file of data matrix
DOI: 10.6084/m9.figshare.21839006
title: Ordovician to Triassic episodic growth of the Dananhu arc, Eastern Tianshan (NW China)

description: The evolution and closure timing of the Paleo-Asian Ocean are controversial in the Eastern Tianshan orogen, southern Altaids. The Dananhu arc of the Eastern Tianshan was involved in the long-lived evolution and terminal tectonic events during the formation of the Altaids, and its magmatic rocks are the faithful recorder. To constrain the subduction history of the Paleo-Asian Ocean, we review the tectonic of the Dananhu arc, by summarizing the geochemical and geochronological data of granites and volcanic rocks and mineral deposits, which will shed light on the accretionary history, closure of the Paleo-Asian Ocean, and the continental growth in Altaids. Zircon U-Pb ages of the granitic rocks across the middle of the Dannanhu arc range from 453 Ma to 227 Ma and demonstrate overall southward younging through four main areas: the Kalatage belt (ca. 453–299 Ma), the Keizer belt (ca. 401–268 Ma), the Tuwu belt (360–302 Ma), and the Kanguer subduction complex (ca. 288–227 Ma). These granitic rocks are calc-alkaline arc-related and adakitic granites that are enriched in Si and K. They increase in Th/Yb and decrease in Cr and Ce/Pb southwards over time. The consistent geochemical variations indicate progressive maturity of the arc crust. Their whole-rock ε<sub>Nd</sub><i>(t)</i> and zircon ε<sub>Hf</sub><i>(t)</i> values coordinated with the progressive change in the crustal thickness estimated by the granites indicate a multi-phase switching of subduction. The Ordovician to Permian granitic rocks in the arc have stable high whole-rock ε<sub>Nd</sub><i>(t)</i> values <i>(ca</i>. +5 – +10), and zircon ε<sub>Hf</sub><i>(t)</i> values (ca. +7-+16), which significantly shifted to +2 – +4 and +4 <i>–</i> +12 during ca. 243–227 Ma. These changing relations accompanied a sudden crustal thickening, suggesting that continental crustal material was involved in the petrogenesis of these rocks during the convergence among the Dananhu arc, the Harlik and the Yamansu-central Tianshan continental arc.
DOI: 10.6084/m9.figshare.21839006.v1
title: Ordovician to Triassic episodic growth of the Dananhu arc, Eastern Tianshan (NW China)

description: The evolution and closure timing of the Paleo-Asian Ocean are controversial in the Eastern Tianshan orogen, southern Altaids. The Dananhu arc of the Eastern Tianshan was involved in the long-lived evolution and terminal tectonic events during the formation of the Altaids, and its magmatic rocks are the faithful recorder. To constrain the subduction history of the Paleo-Asian Ocean, we review the tectonic of the Dananhu arc, by summarizing the geochemical and geochronological data of granites and volcanic rocks and mineral deposits, which will shed light on the accretionary history, closure of the Paleo-Asian Ocean, and the continental growth in Altaids. Zircon U-Pb ages of the granitic rocks across the middle of the Dannanhu arc range from 453 Ma to 227 Ma and demonstrate overall southward younging through four main areas: the Kalatage belt (ca. 453–299 Ma), the Keizer belt (ca. 401–268 Ma), the Tuwu belt (360–302 Ma), and the Kanguer subduction complex (ca. 288–227 Ma). These granitic rocks are calc-alkaline arc-related and adakitic granites that are enriched in Si and K. They increase in Th/Yb and decrease in Cr and Ce/Pb southwards over time. The consistent geochemical variations indicate progressive maturity of the arc crust. Their whole-rock ε<sub>Nd</sub><i>(t)</i> and zircon ε<sub>Hf</sub><i>(t)</i> values coordinated with the progressive change in the crustal thickness estimated by the granites indicate a multi-phase switching of subduction. The Ordovician to Permian granitic rocks in the arc have stable high whole-rock ε<sub>Nd</sub><i>(t)</i> values <i>(ca</i>. +5 – +10), and zircon ε<sub>Hf</sub><i>(t)</i> values (ca. +7-+16), which significantly shifted to +2 – +4 and +4 <i>–</i> +12 during ca. 243–227 Ma. These changing relations accompanied a sudden crustal thickening, suggesting that continental crustal material was involved in the petrogenesis of these rocks during the convergence among the Dananhu arc, the Harlik and the Yamansu-central Tianshan continental arc.
DOI: 10.6084/m9.figshare.20787031.v1
title: Additional file 2 of The role of LINC01419 in regulating the cell stemness in lung adenocarcinoma through recruiting EZH2 and regulating FBP1 expression

description: Additional file 2: Table S1. List of primers used for ChIP-PCR in this study.
DOI: 10.6084/m9.figshare.20787034
title: Additional file 3 of The role of LINC01419 in regulating the cell stemness in lung adenocarcinoma through recruiting EZH2 and regulating FBP1 expression

description: Additional file 3: Table S2. List of primers used for qRT-PCR in this study.
DOI: 10.6084/m9.figshare.8207522.v1
title: Additional file 10: of Novel secretome-to-transcriptome integrated or secreto-transcriptomic approach to reveal liquid biopsy biomarkers for predicting individualized prognosis of breast cancer patients

description: Table S2. Basal-Specific Secreted ProteinsR2. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.19738281.v1
title: Additional file 4 of Integrated investigation of DNA methylation, gene expression and immune cell population revealed immune cell infiltration associated with atherosclerotic plaque formation

description: Additional file 4: Table S3. The detial DNA methylation density of DMGs. All PBMC and plaque samples were shown for each gene.
DOI: 10.6084/m9.figshare.19738287.v1
title: Additional file 6 of Integrated investigation of DNA methylation, gene expression and immune cell population revealed immune cell infiltration associated with atherosclerotic plaque formation

description: Additional file 6: Table S5. Ten_genes correlated with immune cell types.
DOI: 10.6084/m9.figshare.8207528
title: Additional file 11: of Novel secretome-to-transcriptome integrated or secreto-transcriptomic approach to reveal liquid biopsy biomarkers for predicting individualized prognosis of breast cancer patients

description: Table S3. Luminal-Specific Secreted ProteinsR2. (XLSX 94 kb)
DOI: 10.6084/m9.figshare.8207531.v1
title: Additional file 12: of Novel secretome-to-transcriptome integrated or secreto-transcriptomic approach to reveal liquid biopsy biomarkers for predicting individualized prognosis of breast cancer patients

description: Table S4. Basal GEOâ +â TCGAR2. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.8207537
title: Additional file 13: of Novel secretome-to-transcriptome integrated or secreto-transcriptomic approach to reveal liquid biopsy biomarkers for predicting individualized prognosis of breast cancer patients

description: Table S5. Luminal GEOâ +â TCGAR2. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.8207537.v1
title: Additional file 13: of Novel secretome-to-transcriptome integrated or secreto-transcriptomic approach to reveal liquid biopsy biomarkers for predicting individualized prognosis of breast cancer patients

description: Table S5. Luminal GEOâ +â TCGAR2. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.8207549
title: Additional file 1: of High-resolution mapping of quantitative trait loci controlling main floral stalk length in Chinese cabbage (Brassica rapa L. ssp. pekinensis)

description: Table S1. Phenotypic analysis of MFSL in two parents and RIL population of Chinese cabbage. (XLSX 95 kb)
DOI: 10.6084/m9.figshare.8207549.v1
title: Additional file 1: of High-resolution mapping of quantitative trait loci controlling main floral stalk length in Chinese cabbage (Brassica rapa L. ssp. pekinensis)

description: Table S1. Phenotypic analysis of MFSL in two parents and RIL population of Chinese cabbage. (XLSX 95 kb)
DOI: 10.6084/m9.figshare.8207555.v1
title: Additional file 2: of High-resolution mapping of quantitative trait loci controlling main floral stalk length in Chinese cabbage (Brassica rapa L. ssp. pekinensis)

description: Table S2. SNP markers and mutant genes between the confidence intervals identified in Chinese cabbage. (XLSX 736 kb)