cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7386164.v1
title: Additional file 10: of Prediction of plant-derived xenomiRs from plant miRNA sequences using random forest and one-dimensional convolutional neural network models

description: Table S10. miRNA family table. (XLSX 18213 kb)
DOI: 10.6084/m9.figshare.21541897.v1
title: Additional file 16 of Exploration of the regulatory relationship between KRAB-Zfp clusters and their target transposable elements via a gene editing strategy at the cluster specific linker-associated sequences by CRISPR-Cas9

description: Additional file 16 Supplementary Table 8. Fingerprints of the 216 Human KRAB-ZFPs on chr19.
DOI: 10.6084/m9.figshare.7385987.v1
title: MOESM5 of Exploration of methylation-driven genes for monitoring and prognosis of patients with lung adenocarcinoma

description: Additional file 5. All relevant methylated sites of the five methylation-driven genes obtained from the TCGA database. (1–16) methylated sites of the gene CCDC181; (17–33) methylated sites of the gene ELF3; (34–47) methylated sites of the gene KLHDC9; (48) methylated site of the gene PLAU; (49–57) methylated sites of the gene S1PR1.
DOI: 10.6084/m9.figshare.7386257
title: Additional file 4: of Prediction of plant-derived xenomiRs from plant miRNA sequences using random forest and one-dimensional convolutional neural network models

description: Table S4. The RNA families mapped by xenomiRs. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.7386164
title: Additional file 10: of Prediction of plant-derived xenomiRs from plant miRNA sequences using random forest and one-dimensional convolutional neural network models

description: Table S10. miRNA family table. (XLSX 18213 kb)
DOI: 10.6084/m9.figshare.7386287.v1
title: Additional file 6: of Prediction of plant-derived xenomiRs from plant miRNA sequences using random forest and one-dimensional convolutional neural network models

description: Table S6. All unlabeled 3695 plant miRNAs in miRBase. (XLSX 108 kb)
DOI: 10.6084/m9.figshare.16823257.v1
title: Viromes and surveys of RNA viruses in camel-derived ticks revealing transmission patterns of novel tick-borne viral pathogens in Kenya

description: Tick-borne viruses (TBVs) capable of transmitting between ticks and hosts have been increasingly recognized as a global public health concern. In this study, <i>Hyalomma</i> ticks and serum samples from camels were collected using recorded sampling correlations in eastern Kenya. Viromes of pooled ticks were profiled by metagenomic sequencing, revealing a diverse community of viruses related to at least 11 families. Five highly abundant viruses, including three novel viruses (Iftin tick virus, Mbalambala tick virus [MATV], and Bangali torovirus [BanToV]) and new strains of previously identified viruses (Bole tick virus 4 [BLTV4] and Liman tick virus [LMTV]), were characterized in terms of genome sequences, organizations, and phylogeny, and their molecular prevalence was investigated in individual ticks. Moreover, viremia and antibody responses to these viruses have been investigated in camels. MATV, BLTV4, LMTV, and BanToV were identified as viral pathogens that can potentially cause zoonotic diseases. The transmission patterns of these viruses were summarized, suggesting three different types according to the sampling relationships between viral RNA-positive ticks and camels positive for viral RNA and/or antibodies. They also revealed the frequent transmission of BanToV and limited but effective transmission of other viruses between ticks and camels. Furthermore, follow-up surveys on TBVs from tick, animal, and human samples with definite sampling relationships are suggested. The findings revealed substantial threats from the emerging TBVs and may guide the prevention and control of TBV-related zoonotic diseases in Kenya and in other African countries.
DOI: 10.6084/m9.figshare.19969064
title: Fresh vegetable and fruit consumption and carotid atherosclerosis in high-cardiovascular-risk population: a cross-sectional study in Jiangsu, China

description: This study aimed to investigate the association of vegetable and fruit consumption with carotid plaque (CP) and carotid intima-media thickness (CIMT), two predictors of carotid atherosclerosis, within urban and rural adults at high risk of developing cardiovascular diseases (CVDs) in regional China. A total of 11,392 adults at high CVD risk were identified from general population of 71,511 in this cross-sectional study, conducted between November of 2015 and May of 2016 in the Jiangsu Province. Among these 11,392 high risk participants, CP prevalence was 36.7%. The independent variables, vegetable and fruit intake frequency, were assessed by a food frequency questionnaire. The outcome variables, CIMT and CP, were measured by ultrasound examination. The ANCOVA analysis showed no association between CIMT values and vegetable and fruit intake frequencies. Multivariate logistic regression models were introduced to examine the association between vegetable and fruit intake and CP. After adjustment for potential confounders, the odds ratios (ORs) for participants who occasionally and daily consumed vegetable to experience any CP were 0.67 (95%CI: 0.58-0.78) and 0.70 (95%CI: 0.62-0.79), respectively, compared with those rarely consumed vegetable. While the adjusted ORs were 0.77 (95%CI: 0.64-0.92) and 0.80 (95%CI: 0.68-0.94), separately, for occasional and daily vegetable consumers to develop single CP relative to their counterparts who rarely consumed any vegetables. However, no significant association between fruit consumption and CP was observed. Among the Chinese population at high CVD risk, consumption of fresh vegetables was negatively associated with the risk of developing carotid plaque.
DOI: 10.6084/m9.figshare.21541870
title: Additional file 11 of Exploration of the regulatory relationship between KRAB-Zfp clusters and their target transposable elements via a gene editing strategy at the cluster specific linker-associated sequences by CRISPR-Cas9

description: Additional file 11 Supplementary Table 3. High frequency ZnFs in clusters 3–5 (additional information for Fig. 1C).
DOI: 10.6084/m9.figshare.21541879.v1
title: Additional file 12 of Exploration of the regulatory relationship between KRAB-Zfp clusters and their target transposable elements via a gene editing strategy at the cluster specific linker-associated sequences by CRISPR-Cas9

description: Additional file 12 Supplementary Table 4. Expression profile for mouse KRAB-Zfps in various types and tissue types (information for Fig. 2).
DOI: 10.6084/m9.figshare.21541893.v1
title: Additional file 4 of CD19+CD24hiCD38hi regulatory B cells deficiency revealed severity and poor prognosis in patients with sepsis

description: Additional file 4. All original data generated or analyzed in the study.
DOI: 10.6084/m9.figshare.21541951
title: Additional file 9 of Exploration of the regulatory relationship between KRAB-Zfp clusters and their target transposable elements via a gene editing strategy at the cluster specific linker-associated sequences by CRISPR-Cas9

description: Additional file 9 Supplementary Table 1. All mouse and human KRAB-ZFP genes (information for Fig. 1 A and S1A)
DOI: 10.6084/m9.figshare.21541951.v1
title: Additional file 9 of Exploration of the regulatory relationship between KRAB-Zfp clusters and their target transposable elements via a gene editing strategy at the cluster specific linker-associated sequences by CRISPR-Cas9

description: Additional file 9 Supplementary Table 1. All mouse and human KRAB-ZFP genes (information for Fig. 1 A and S1A)
DOI: 10.6084/m9.figshare.21541872.v1
title: Additional file 4 of ERF49 mediates brassinosteroid regulation of heat stress tolerance in Arabidopsis thaliana

description: Additional file 4. Detailed information of genes upregulated after BR treatment.
DOI: 10.6084/m9.figshare.21541878.v1
title: Additional file 6 of ERF49 mediates brassinosteroid regulation of heat stress tolerance in Arabidopsis thaliana

description: Additional file 6. Combined raw data, with each figure on a spreadsheet.
DOI: 10.6084/m9.figshare.21541888.v1
title: Additional file 14 of Exploration of the regulatory relationship between KRAB-Zfp clusters and their target transposable elements via a gene editing strategy at the cluster specific linker-associated sequences by CRISPR-Cas9

description: Additional file 14 Supplementary Table 6. Target distribution analyses for sgRNAs used in Fig. 4.
DOI: 10.6084/m9.figshare.21541987.v1
title: Additional file 6 of Exogenous ABA and IAA modulate physiological and hormonal adaptation strategies in Cleistocalyx operculatus and Syzygium jambos under long-term waterlogging conditions

description: Additional file 6.
DOI: 10.6084/m9.figshare.21541875
title: Additional file 5 of ERF49 mediates brassinosteroid regulation of heat stress tolerance in Arabidopsis thaliana

description: Additional file 5. Detailed information of 30 overlap genes downregulated in ERF49 overexpression lines and upregulated after heat and BR treatment.
DOI: 10.6084/m9.figshare.21541981
title: Additional file 4 of Exogenous ABA and IAA modulate physiological and hormonal adaptation strategies in Cleistocalyx operculatus and Syzygium jambos under long-term waterlogging conditions

description: Additional file 4.
DOI: 10.6084/m9.figshare.21541981.v1
title: Additional file 4 of Exogenous ABA and IAA modulate physiological and hormonal adaptation strategies in Cleistocalyx operculatus and Syzygium jambos under long-term waterlogging conditions

description: Additional file 4.
DOI: 10.6084/m9.figshare.21541984.v1
title: Additional file 5 of Exogenous ABA and IAA modulate physiological and hormonal adaptation strategies in Cleistocalyx operculatus and Syzygium jambos under long-term waterlogging conditions

description: Additional file 5.
DOI: 10.6084/m9.figshare.21541987
title: Additional file 6 of Exogenous ABA and IAA modulate physiological and hormonal adaptation strategies in Cleistocalyx operculatus and Syzygium jambos under long-term waterlogging conditions

description: Additional file 6.
DOI: 10.6084/m9.figshare.7386287
title: Additional file 6: of Prediction of plant-derived xenomiRs from plant miRNA sequences using random forest and one-dimensional convolutional neural network models

description: Table S6. All unlabeled 3695 plant miRNAs in miRBase. (XLSX 108 kb)
DOI: 10.6084/m9.figshare.21541866
title: Additional file 2 of ERF49 mediates brassinosteroid regulation of heat stress tolerance in Arabidopsis thaliana

description: Additional file 2. Detailed information of genes downregulated in ERF49 overexpression lines after heat treatment.
DOI: 10.6084/m9.figshare.13153084
title: Additional file 5 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 5: Table S2. Descriptive statistics of KRN from the subgroups in the association panel.
DOI: 10.6084/m9.figshare.13153087
title: Additional file 6 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 6: Table S3. The significant QTNs for KRN identified by the MLM method.
DOI: 10.6084/m9.figshare.21541869.v1
title: Additional file 3 of ERF49 mediates brassinosteroid regulation of heat stress tolerance in Arabidopsis thaliana

description: Additional file 3. Detailed information of genes upregulated after heat treatment.
DOI: 10.6084/m9.figshare.21541878
title: Additional file 6 of ERF49 mediates brassinosteroid regulation of heat stress tolerance in Arabidopsis thaliana

description: Additional file 6. Combined raw data, with each figure on a spreadsheet.
DOI: 10.6084/m9.figshare.21541984
title: Additional file 5 of Exogenous ABA and IAA modulate physiological and hormonal adaptation strategies in Cleistocalyx operculatus and Syzygium jambos under long-term waterlogging conditions

description: Additional file 5.
DOI: 10.6084/m9.figshare.13153063
title: Additional file 14 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 14: Table S11. Comparison of prediction accuracy between the top tagSNPs and random tagSNPs.
DOI: 10.6084/m9.figshare.13153069
title: Additional file 16 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 16: Table S13. Comparison of our GWAS results with QTNs detected in previous studies.
DOI: 10.6084/m9.figshare.13153081
title: Additional file 4 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 4: Table S1. A list of material information in our association panel.
DOI: 10.6084/m9.figshare.13153081.v1
title: Additional file 4 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 4: Table S1. A list of material information in our association panel.
DOI: 10.6084/m9.figshare.13153054.v1
title: Additional file 11 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 11: Table S8. Genes related to spike mutation in maize.
DOI: 10.6084/m9.figshare.7386275
title: MOESM4 of Evaluation of the prognostic value of paraoxonase 1 in the recurrence and metastasis of hepatocellular carcinoma and establishment of a liver-specific predictive model of survival

description: Additional file 4. Univariate and multivariate Cox proportional-hazard regression analysis for overall survivalin TCGA dataset (HCC).
DOI: 10.6084/m9.figshare.13153060
title: Additional file 13 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 13: Table S10. KRN prediction accuracies for different training population sizes.
DOI: 10.6084/m9.figshare.13153066.v1
title: Additional file 15 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 15: Table S12. The prediction accuracies for KRN of the inbred lines obtained using the tagSNPs representing the significant QTNs identified by different methods.
DOI: 10.6084/m9.figshare.13153093
title: Additional file 8 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 8: Table S5. The common QTNs codetected by different methods.
DOI: 10.6084/m9.figshare.7386227
title: MOESM1 of Evaluation of the prognostic value of paraoxonase 1 in the recurrence and metastasis of hepatocellular carcinoma and establishment of a liver-specific predictive model of survival

description: Additional file 1. 985 differentially expressed genes in HCC.
DOI: 10.6084/m9.figshare.13153066
title: Additional file 15 of Genome-wide association studies and whole-genome prediction reveal the genetic architecture of KRN in maize

description: Additional file 15: Table S12. The prediction accuracies for KRN of the inbred lines obtained using the tagSNPs representing the significant QTNs identified by different methods.
DOI: 10.6084/m9.figshare.19969064.v1
title: Fresh vegetable and fruit consumption and carotid atherosclerosis in high-cardiovascular-risk population: a cross-sectional study in Jiangsu, China

description: This study aimed to investigate the association of vegetable and fruit consumption with carotid plaque (CP) and carotid intima-media thickness (CIMT), two predictors of carotid atherosclerosis, within urban and rural adults at high risk of developing cardiovascular diseases (CVDs) in regional China. A total of 11,392 adults at high CVD risk were identified from general population of 71,511 in this cross-sectional study, conducted between November of 2015 and May of 2016 in the Jiangsu Province. Among these 11,392 high risk participants, CP prevalence was 36.7%. The independent variables, vegetable and fruit intake frequency, were assessed by a food frequency questionnaire. The outcome variables, CIMT and CP, were measured by ultrasound examination. The ANCOVA analysis showed no association between CIMT values and vegetable and fruit intake frequencies. Multivariate logistic regression models were introduced to examine the association between vegetable and fruit intake and CP. After adjustment for potential confounders, the odds ratios (ORs) for participants who occasionally and daily consumed vegetable to experience any CP were 0.67 (95%CI: 0.58-0.78) and 0.70 (95%CI: 0.62-0.79), respectively, compared with those rarely consumed vegetable. While the adjusted ORs were 0.77 (95%CI: 0.64-0.92) and 0.80 (95%CI: 0.68-0.94), separately, for occasional and daily vegetable consumers to develop single CP relative to their counterparts who rarely consumed any vegetables. However, no significant association between fruit consumption and CP was observed. Among the Chinese population at high CVD risk, consumption of fresh vegetables was negatively associated with the risk of developing carotid plaque.
DOI: 10.6084/m9.figshare.7386377
title: Additional file 10: of Comprehensive proteome analyses of lysine acetylation in tea leaves by sensing nitrogen nutrition

description: Table S8. Enrichment analysis of lysine-acetylated proteins. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.7386311.v1
title: MOESM6 of Evaluation of the prognostic value of paraoxonase 1 in the recurrence and metastasis of hepatocellular carcinoma and establishment of a liver-specific predictive model of survival

description: Additional file 6. Gene ontology (GO) enrichment analysis.
DOI: 10.6084/m9.figshare.7386431.v1
title: Additional file 14: of Comprehensive proteome analyses of lysine acetylation in tea leaves by sensing nitrogen nutrition

description: Table S12. The detailed information of proteins involved in 3dN/0â N Interaction network. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.7386239.v1
title: MOESM2 of Evaluation of the prognostic value of paraoxonase 1 in the recurrence and metastasis of hepatocellular carcinoma and establishment of a liver-specific predictive model of survival

description: Additional file 2. Log-rank P values of genes in blue module.
DOI: 10.6084/m9.figshare.7386404
title: Additional file 12: of Comprehensive proteome analyses of lysine acetylation in tea leaves by sensing nitrogen nutrition

description: Table S10. The detailed information of photosynthesis acetylated proteins involved in 3hN/0â N Interaction network. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7386347
title: Additional file 10: of Transcriptome analysis reveals a composite molecular map linked to unique seed oil profile of Neocinnamomum caudatum (Nees) Merr

description: Identification of unigene that involved in lipid metabolisms by Local Blast. Based on the local-blast search against the database with 81 key Arabidopsis genes that are involved in FA formation and triacylglycerol synthesis, we identified 137 unigenes that have high sequence similarities (E-value &lt; 1.0E 10-5) to the Arabidopsis homologs. (XLSX 27 kb)
DOI: 10.6084/m9.figshare.7386404.v1
title: Additional file 12: of Comprehensive proteome analyses of lysine acetylation in tea leaves by sensing nitrogen nutrition

description: Table S10. The detailed information of photosynthesis acetylated proteins involved in 3hN/0â N Interaction network. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7386416
title: Additional file 1: of EBV-miR-BART8-3p induces epithelial-mesenchymal transition and promotes metastasis of nasopharyngeal carcinoma cells through activating NF-κB and Erk1/2 pathways

description: Table S1. miRNAs differentialy expressed in NPC versus control. Table S2. The top 20 most significantly up-regulated microRNAs in NPC. Table S3. Module assignment for microRNAs. Table S4. Enrichement of differentially expressed microRNAs in the coexpressed microRNA module. Table S5. Differerentially expressed genes in NPC versus control (NNPC). Table S6. Gene ontology and pathways enriched in the up- and down-regulated genes. The functional annotation gene sets were from the MSigDB database. FE, fold enrichment. Pvalue, P value was computed from Fisher’s exact test. P.adj, adjusted P value computed with Benjamini-Hochberg’s false discovery rate approach. Table S7. Enrichement of the differentially expressed gene signature in the microRNA-correlated gene signatures. (XLSX 732 kb)
DOI: 10.6084/m9.figshare.7386443
title: Additional file 15: of Comprehensive proteome analyses of lysine acetylation in tea leaves by sensing nitrogen nutrition

description: Table S13. The detailed information of photosynthesis acetylated proteins involved in 3dN/0â N Interaction network. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7386239
title: MOESM2 of Evaluation of the prognostic value of paraoxonase 1 in the recurrence and metastasis of hepatocellular carcinoma and establishment of a liver-specific predictive model of survival

description: Additional file 2. Log-rank P values of genes in blue module.
DOI: 10.6084/m9.figshare.7386416.v1
title: Additional file 1: of EBV-miR-BART8-3p induces epithelial-mesenchymal transition and promotes metastasis of nasopharyngeal carcinoma cells through activating NF-κB and Erk1/2 pathways

description: Table S1. miRNAs differentialy expressed in NPC versus control. Table S2. The top 20 most significantly up-regulated microRNAs in NPC. Table S3. Module assignment for microRNAs. Table S4. Enrichement of differentially expressed microRNAs in the coexpressed microRNA module. Table S5. Differerentially expressed genes in NPC versus control (NNPC). Table S6. Gene ontology and pathways enriched in the up- and down-regulated genes. The functional annotation gene sets were from the MSigDB database. FE, fold enrichment. Pvalue, P value was computed from Fisher’s exact test. P.adj, adjusted P value computed with Benjamini-Hochberg’s false discovery rate approach. Table S7. Enrichement of the differentially expressed gene signature in the microRNA-correlated gene signatures. (XLSX 732 kb)
DOI: 10.6084/m9.figshare.7386311
title: MOESM6 of Evaluation of the prognostic value of paraoxonase 1 in the recurrence and metastasis of hepatocellular carcinoma and establishment of a liver-specific predictive model of survival

description: Additional file 6. Gene ontology (GO) enrichment analysis.
DOI: 10.6084/m9.figshare.7386314.v1
title: Additional file 8: of Prediction of plant-derived xenomiRs from plant miRNA sequences using random forest and one-dimensional convolutional neural network models

description: Figure S1. Venn diagram showed the 241 potential xenomiRs predicted by both RF and 1D-CNN models. (XLSX 43 kb)
DOI: 10.6084/m9.figshare.21542133
title: Additional file 1 of Construction of an SNP fingerprinting database and population genetic analysis of 329 cauliflower cultivars

description: Additional file 1.