cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.15051992
title: A human cell-based SARS-CoV-2 vaccine elicits potent neutralizing antibody responses and protects mice from SARS-CoV-2 challenge

description: To curb the pandemic of coronavirus disease 2019 (COVID-19) caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), multiple platforms have been employed toward a safe and highly effective vaccine. Here, we develop a novel cell-based vaccine candidate, namely K562-S, by utilizing human cell K562 as a cellular carrier to display Spike (S) protein of SARS-CoV-2 on the membrane. Analogous to the traditional inactivated vaccine, K562-S cells can be propagated to a large scale by culturing and completely lose their viability after exposure to X-ray irradiation or formalin. We in turn demonstrated high immunogenicity of formalin-inactivated K562-S vaccine in both mouse and non-human primates and its protective efficacy in mice. In mice, immunization with inactivated K562-S vaccines can elicit potent neutralizing antibody (nAb) responses persisting longer than 5 months. We consequently showed in a hACE2 mouse model of SARS-CoV-2 infection that a two-shot vaccination with adjuvanted K562-S rendered greater than 3 log reduction in viral lung load and concomitant ameliorated lung pathology. Of importance, the administration of the same regimen in non-human primates was able to induce a neutralizing antibody titer averaging three-fold higher relative to human convalescent serum. These results together support the promise of K562-based, S-protein-expressing vaccines as a novel vaccination approach against SARS-CoV-2. Importantly, with a powerful capacity to carry external genes for cell-based vectors, this platform could rapidly generate two- and multiple-valent vaccines by incorporating SARS-CoV-2 mutants, SARS-CoV, or MERS-CoV.
DOI: 10.6084/m9.figshare.21343057
title: Additional file 5 of Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings

description: Additional file 5: Table S4. Annotation and haplotype analysis of associated genes.
DOI: 10.6084/m9.figshare.21343060.v1
title: Additional file 6 of Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings

description: Additional file 6: Table S5. Summary of RNA-seq data.
DOI: 10.6084/m9.figshare.12954858
title: Methionine represses the autophagy of gastric cancer stem cells via promoting the methylation and phosphorylation of RAB37

description: This study focused on the role of methionine (MET) in the autophagy of gastric cancer stem cells (GCSCs) and aims to elaborate its regulatory mechanism. In the present study, the GCSCs were isolated from human gastric cancer cell lines using an anti-CD44 antibody, and then cultured in MET<sup>+</sup> homocysteine (HCY)<sup>−</sup> or MET<sup>−</sup>HCY<sup>+</sup> medium. In MET<sup>+</sup>HCY<sup>–</sup>treated GCSCs, autophagy was suppressed, the methylation and phosphorylation of RAB37 were elevated, and miR-200b expression was down-regulated. Lentiviral vector (LV-) carrying methionine-γ lyase (an enzyme that could specifically lyse MET; Metase) promoted autophagy, reduced the methylation and phosphorylation of RAB37, and up-regulated miR-200b expression in MET<sup>+</sup>HCY<sup>–</sup>-treated GCSCs. Then, we found that miR-200b suppressed the expression of protein kinase C α (PKCα), a protein that could inactivate RAB37 through promoting its phosphorylation. LV-Metase down-regulated RAB37 phosphorylation via miR-200b/PKCα, thus promoting the RAB37-mediated autophagy and suppressing cell viability in MET<sup>+</sup>HCY<sup>–</sup>treated GCSCs. Finally, the <i>in vivo</i> study proved that LV-Metase treatment inhibited tumor growth through up-regulating RAB37 expression. In conclusion, MET suppressed RAB37 expression via enhancing its methylation and suppressed RAB37 activity via miR-200b/PKCα axis, thus repressing RAB37-mediated autophagy in GCSCs. The supplementation of Metase lysed MET, thus inducing the autophagy of GCSCs and inhibiting tumor growth.
DOI: 10.6084/m9.figshare.21343150.v1
title: Additional file 1 of Pan-cancer analysis of oncogenic TNFAIP2 identifying its prognostic value and immunological function in acute myeloid leukemia

description: Additional file 1: Supplementary Table S1. Statistical results of Student’s T-test for TNFAIP2 expression level among different subtypes of AML patients from TCGA cohort in the distribution of FAB classifications. The results were analyzed by UALCAN. Supplementary Table S2. Statistical results of Student’s T-test for TNFAIP2 expression level among different subtypes of AML patients in the microarray data of GSE14468 from the GEO database in the distribution of FAB classifications. Supplementary Table S3. The co-expressed genes associated with TNFAIP2 expression in AML. Supplementary Table S4. The differentially expressed genes between the TNFAIP2high and TNFAIP2low group of AML patients. Supplementary Table S5. The overlapping genes between significantly co-expressed genes and significantly differentially expressed genes of TNFAIP2 in AML.
DOI: 10.6084/m9.figshare.12430481.v1
title: Determining the steering direction in critical situations: A decision tree–based method

description: <b>Objective:</b> Factors related to the driver–vehicle–environment system have a significant influence on a driver’s decision to perform evasive maneuvers, especially the decision of steering direction (DSD) in critical situations. However, few studies have systematically investigated the relationships between these factors and DSD. The objective of this study is to analyze and model drivers’ DSD in critical situations. <b>Methods:</b> Data from the NASS-CDS from 1995 to 2015 were utilized in this study. The decision tree (DT) classifier was utilized to model a driver’s DSD for both intersection-related and non-intersection-related subsets, combined with a 10-fold cross-validation technique and grid search approach to evaluate and optimize the model. An analysis of variable importance was also conducted. <b>Results:</b> Two separate DT models of drivers’ DSD were obtained based on the optimized hyperparameters, with test accuracies of 84.6% (intersection-related) and 79.2% (non-intersection-related). The variable DIFFANGLE (angle difference between 2 vehicles) ranked as the most important factor influencing drivers’ DSD in both models. The variables, in order of importance, were SPEED (travel speed of the subject vehicle) and AGE (driver’s age) for the intersection-related model and SPEED, PREMOVE (pre-event movement), TRAFFLOW (trafficway flow), and AGE for the non-intersection-related model. Moreover, an interesting same direction pattern was observed in both DT models. <b>Conclusions:</b> This study employed NASS-CDS data and DT classifiers to analyze and model drivers’ DSD behavior. The test accuracies for both classifiers were acceptable. Potential variables influencing drivers’ DSD were explored, which improves the research on evasive behavior in lateral movement and promotes further applications for intelligent vehicles using the constructed models.
DOI: 10.6084/m9.figshare.21343066
title: Additional file 8 of Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings

description: Additional file 8: Table S7. RNA-seq data of 58 genes.
DOI: 10.6084/m9.figshare.6663323
title: MOESM4 of Similarities and differences in gut microbiome composition correlate with dietary patterns of Indian and Chinese adults

description: Additional file 5: Table S4. Alpha diversity indices.
DOI: 10.6084/m9.figshare.21343066.v1
title: Additional file 8 of Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings

description: Additional file 8: Table S7. RNA-seq data of 58 genes.
DOI: 10.6084/m9.figshare.25250752
title: 实际56节点配电网与SiouxFalls交通系统测试数据

description: 该链接包含：电机工程学报稿件中算例一节相关数据。
DOI: 10.6084/m9.figshare.25250752.v1
title: 实际56节点配电网与SiouxFalls交通系统测试数据

description: 该链接包含：电机工程学报稿件中算例一节相关数据。
DOI: 10.6084/m9.figshare.21340352
title: Additional file 3 of The effectiveness of case management for cancer patients: an umbrella review

description: Additional file 3.
DOI: 10.6084/m9.figshare.21343201
title: Additional file 5 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

description: Additional file 5: Table S4. The list of flavonoid-related genes in the phylogenetic analysis from C. sativa and other plant species.
DOI: 10.6084/m9.figshare.19246270.v1
title: Endophytic fungus <i>Bipolaris</i> sp. CSL-1 induces salt tolerance in <i>Glycine max.</i>L via modulating its endogenous hormones, antioxidative system and gene expression

description: Salinity stress is one of the most serious environmental stress that inhibits plant growth. In this study, we adopted an environment friendly technique and screened different plant growth-promoting fungi for different plant growth promoting (PGP) traits and salinity stress. Among those isolates, <i>Bipolaris</i> sp. CSL-1 was selected based on plant growth-promoting characteristics, such as producing indole-3-acetic acid (IAA), gibberellins (GAs), organic acids and resistance to sodium chloride (NaCl) stress. Here, we found that inoculating soybean with isolate CSL-1 significantly increased shoot and root length, shoot and root fresh and dry weight and chlorophyll content under NaCl stress (200 mM). Endogenous abscisic acid (ABA) levels were significantly decreased, whereas salicylic acid (SA) levels were increased in CSL-1-inoculated plants under NaCl stress. NaCl-treated noninoculated plants showed higher levels of antioxidants and oxidative stress such as peroxidase, polyphenol oxidase (PPO), malondialdehyde (MDA) and superoxide anion (SOA). Furthermore, CSL-1 inoculation improved soybean resistance to NaCl stress, and there was a significant decrease in <i>GmFDL19</i>, <i>GmNARK</i>, and <i>GmSIN1</i> expression levels. As a result, the fungal isolate CSL-1 mitigates the effect of salt stress and enhance soybean growth and might be used as a valuable ecofriendly microorganism resource in salt-affected areas.
DOI: 10.6084/m9.figshare.21343198
title: Additional file 4 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

description: Additional file 4:Table S3. Secondary structure predication of the CsFLS proteins in C. sativa.
DOI: 10.6084/m9.figshare.12954858.v1
title: Methionine represses the autophagy of gastric cancer stem cells via promoting the methylation and phosphorylation of RAB37

description: This study focused on the role of methionine (MET) in the autophagy of gastric cancer stem cells (GCSCs) and aims to elaborate its regulatory mechanism. In the present study, the GCSCs were isolated from human gastric cancer cell lines using an anti-CD44 antibody, and then cultured in MET<sup>+</sup> homocysteine (HCY)<sup>−</sup> or MET<sup>−</sup>HCY<sup>+</sup> medium. In MET<sup>+</sup>HCY<sup>–</sup>treated GCSCs, autophagy was suppressed, the methylation and phosphorylation of RAB37 were elevated, and miR-200b expression was down-regulated. Lentiviral vector (LV-) carrying methionine-γ lyase (an enzyme that could specifically lyse MET; Metase) promoted autophagy, reduced the methylation and phosphorylation of RAB37, and up-regulated miR-200b expression in MET<sup>+</sup>HCY<sup>–</sup>-treated GCSCs. Then, we found that miR-200b suppressed the expression of protein kinase C α (PKCα), a protein that could inactivate RAB37 through promoting its phosphorylation. LV-Metase down-regulated RAB37 phosphorylation via miR-200b/PKCα, thus promoting the RAB37-mediated autophagy and suppressing cell viability in MET<sup>+</sup>HCY<sup>–</sup>treated GCSCs. Finally, the <i>in vivo</i> study proved that LV-Metase treatment inhibited tumor growth through up-regulating RAB37 expression. In conclusion, MET suppressed RAB37 expression via enhancing its methylation and suppressed RAB37 activity via miR-200b/PKCα axis, thus repressing RAB37-mediated autophagy in GCSCs. The supplementation of Metase lysed MET, thus inducing the autophagy of GCSCs and inhibiting tumor growth.
DOI: 10.6084/m9.figshare.21343189
title: Additional file 1 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

description: Additional file 1: Table S1. Physical characteristics of the major enzyme-encoding genes of flavonoid metabolic pathway in C. sativa.
DOI: 10.6084/m9.figshare.21343192.v1
title: Additional file 2 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

description: Additional file 2: Table S2. Quantitative primers of the selected enzyme-encoding genes of flavonoid metabolic pathway in C. sativa.
DOI: 10.6084/m9.figshare.21343198.v1
title: Additional file 4 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

description: Additional file 4:Table S3. Secondary structure predication of the CsFLS proteins in C. sativa.
DOI: 10.6084/m9.figshare.21343210
title: Additional file 8 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

description: Additional file 8: Table S5. Cloning primers of CsFLS2 and CsFLS3 in C. sativa.
DOI: 10.6084/m9.figshare.21343201.v1
title: Additional file 5 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

description: Additional file 5: Table S4. The list of flavonoid-related genes in the phylogenetic analysis from C. sativa and other plant species.
DOI: 10.6084/m9.figshare.6663248
title: MOESM1 of Similarities and differences in gut microbiome composition correlate with dietary patterns of Indian and Chinese adults

description: Additional file 1: Table S1. Sample information on age, gender and ethnicity.
DOI: 10.6084/m9.figshare.15051992.v2
title: A human cell-based SARS-CoV-2 vaccine elicits potent neutralizing antibody responses and protects mice from SARS-CoV-2 challenge

description: To curb the pandemic of coronavirus disease 2019 (COVID-19) caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), multiple platforms have been employed toward a safe and highly effective vaccine. Here, we develop a novel cell-based vaccine candidate, namely K562-S, by utilizing human cell K562 as a cellular carrier to display Spike (S) protein of SARS-CoV-2 on the membrane. Analogous to the traditional inactivated vaccine, K562-S cells can be propagated to a large scale by culturing and completely lose their viability after exposure to X-ray irradiation or formalin. We in turn demonstrated high immunogenicity of formalin-inactivated K562-S vaccine in both mouse and non-human primates and its protective efficacy in mice. In mice, immunization with inactivated K562-S vaccines can elicit potent neutralizing antibody (nAb) responses persisting longer than 5 months. We consequently showed in a hACE2 mouse model of SARS-CoV-2 infection that a two-shot vaccination with adjuvanted K562-S rendered greater than 3 log reduction in viral lung load and concomitant ameliorated lung pathology. Of importance, the administration of the same regimen in non-human primates was able to induce a neutralizing antibody titer averaging three-fold higher relative to human convalescent serum. These results together support the promise of K562-based, S-protein-expressing vaccines as a novel vaccination approach against SARS-CoV-2. Importantly, with a powerful capacity to carry external genes for cell-based vectors, this platform could rapidly generate two- and multiple-valent vaccines by incorporating SARS-CoV-2 mutants, SARS-CoV, or MERS-CoV.
DOI: 10.57745/k5xxh2
title: ReadMe.pdf

description: General description
DOI: 10.6084/m9.figshare.6663293.v1
title: MOESM2 of Similarities and differences in gut microbiome composition correlate with dietary patterns of Indian and Chinese adults

description: Additional file 3: Table S2. The summarized information of amplicon sequencing of 16 fecal DNA samples.
DOI: 10.6084/m9.figshare.11906448
title: Additional file 1 of Identification of differentially expressed miRNAs in differentiating benign from malignant pleural effusion

description: Additional file 1. The detailed clinical characteritics of the validation group samples.
DOI: 10.6084/m9.figshare.11906448.v1
title: Additional file 1 of Identification of differentially expressed miRNAs in differentiating benign from malignant pleural effusion

description: Additional file 1. The detailed clinical characteritics of the validation group samples.
DOI: 10.6084/m9.figshare.6663308
title: MOESM3 of Similarities and differences in gut microbiome composition correlate with dietary patterns of Indian and Chinese adults

description: Additional file 4: Table S3. Metastats analysis showed gut bacterial clades with significant variation between Indian and Chinese adults.
DOI: 10.57745/nsce1f
title: Anisole.tab

description: Speed flame versus equivalence ratio for anisole
DOI: 10.25403/upresearchdata.24803427
title: Geochemistry and geochronology data for thin granitoid sheets in, and geological map of H.U. Sverdrupfjella, Western Dronning Maud Land, Antarctica

description: Data and geological map of H.U. Sverdrupfjella; including geochemistry, geochronology and sheet orientations of the granitoids studied as used in the PhD thesis of Burger (2023).<br>
The geological map is high resolution and after Elvevold and Ohta (2010). The orientation data was measured as dip and azimuth (i.e. the bearing to the downward dip) using a geological compass in the field. Geochemical data is a combination of XRF and ICP-MS, based on the best reference material results (included) or availability. XRF analysis used fused beads for major elements and pressed pellets for trace elements, ICP-MS used a 4 acid digestion method. Geochronology are U-Pb system data on separated zircon grains analysed by SHRIMP for 5 samples of granitoid. The data file includes mean ages as well as data tables for all 5 samples. Please see Burger (2023) for more detailed methodology.
<br>
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DOI: 10.6084/m9.figshare.8236451
title: aFARP-ChIP-seq, a convenient and reliable method for genome profiling in as few as 100 cells with a capability for multiplexing ChIP-seq

description: Much effort has been devoted to understand how chromatin modification regulates development and disease. Despite recent progress, however, it remains difficult to obtain high-quality epigenomic maps using chromatin-immunoprecipitation-coupled deep sequencing (ChIP-seq) in samples with low-cell numbers. Here, we present an Atlantis dsDNase-based technology, aFARP-ChIP-seq, that provides accurate profiling of genome-wide histone modifications in as few as 100 cells. By mapping histone lysine trimethylation (H3K4me3) and acetylation (H3K27Ac) in group I innate lymphoid cells (ILC1) sorted from different tissues in parallel, aFARP-ChIP-seq uncovers putative active promoter and enhancer landscapes of several tissue-specific Natural Killer cells (NK) and ILC1. aFARP-ChIP-seq is also highly effective in mapping transcription factor binding sites in small number of cells. Thus, aFARP-ChIP-seq offers multiplexing mapping of both epigenome and transcription factor binding sites using a small number of cells.
DOI: 10.25376/hra.21867867
title: Mechanisms of Sinoatrial Node Dysfunction in Heart Failure with Preserved Ejection Fraction

description: Full paper, supplementary files, spreadsheets, and videos are available.
DOI: 10.25376/hra.21867867.v1
title: Mechanisms of Sinoatrial Node Dysfunction in Heart Failure with Preserved Ejection Fraction

description: Full paper, supplementary files, spreadsheets, and videos are available.
DOI: 10.57745/ttg6vz
title: Guaiccol-JSR_FI2.tab

description: Species profiles for combustion of guaicol in perfectly strired reactor
DOI: 10.6084/m9.figshare.15052368.v1
title: Genetic characterisation for Yan’an Han population in Northern Shaanxi Province, China, via 38Y-STRs using Yfiler™ Platinum

description: Haplotype/allele frequency data of Y-chromosomal STR loci in ethnically diverse populations are essential for forensics, anthropology and genealogy. However, genetic structure and forensic characterisation of the Chinese Han population residing in Yan’an, in the Northern Shaanxi Province, remain unclear. To assess forensic efficiency for 38 Y-Chromosomal STR loci in Yan’an Han population and reveal the population genetic relationships between Yan’an Han and other populations at a nationwide and worldwide level. 719 healthy unrelated males were genotyped using the Yfiler™ Platinum system. Haplotype/allele frequencies and forensic parameters were calculated. Multi-dimensional scaling plots (MDS) and neighbor-joining (N-J) tree were used to explore the population structure based on the pairwise gene distances (Rst). A total of 707 haplotypes were identified, among which 697 unique haplotypes were observed (98.59%). The overall haplotype diversity (HD) and discrimination capacity (DC) were 0.9999 and 0.9833, respectively. Comprehensive population comparisons showed Yan’an Han is genetically closer to linguistically similar populations in China, and more related to East Asian populations around the world. The present results give a unique insight into the Yan’an Han population via the set of 38 Y-STRs, which can be used for forensic practice and human genetics research.
DOI: 10.6084/m9.figshare.11906661
title: Additional file 4 of A completeness-independent method for pre-selection of closely related genomes for species delineation in prokaryotes

description: Additional file 4. 1540 pairs with ANIs &gt; 96% but AFs &lt; ~ 25%.
DOI: 10.6084/m9.figshare.14527667
title: Additional file 5 of Comprehensive analysis of coding and non-coding RNA transcriptomes related to hypoxic adaptation in Tibetan chickens

description: Additional file 5: Table S4. The 3194 known lncRNAs, 471 known miRNAs, and 968 novel miRNAs.
DOI: 10.6084/m9.figshare.14527730
title: Additional file 2 of Comprehensive analysis of prognostic value and immune infiltration of kindlin family members in non-small cell lung cancer

description: Additional file 2. Proteomic data
DOI: 10.6084/m9.figshare.14527676
title: Additional file 8 of Comprehensive analysis of coding and non-coding RNA transcriptomes related to hypoxic adaptation in Tibetan chickens

description: Additional file 8: Table S7. GO and KEGG pathway enrichment of differentially expressed miRNA (DE miRNA) target genes.
DOI: 10.6084/m9.figshare.14527736
title: Additional file 4 of Comprehensive analysis of prognostic value and immune infiltration of kindlin family members in non-small cell lung cancer

description: Additional file 4. GO Cellular Component
DOI: 10.25582/data.2023-03.2779060/2332449
title: Data for EMSL Project 51287 from March 2023
DOI: 10.25582/data.2023-03.2778879/2332450
title: Data for EMSL Project 51287 from March 2023
DOI: 10.25582/data.2023-03.2778961/2332451
title: Data for EMSL Project 51287 from March 2023
DOI: 10.25582/data.2023-04.2779391/2332452
title: Data for EMSL Project 51287 from April 2023
DOI: 10.25582/data.2023-03.2777713/2332453
title: Data for EMSL Project 51287 from March 2023
DOI: 10.25582/data.2023-03.2778638/2332454
title: Data for EMSL Project 51287 from March 2023
DOI: 10.25582/data.2023-03.2779144/2332455
title: Data for EMSL Project 51287 from March 2023
DOI: 10.25582/data.2023-03.2778854/2332456
title: Data for EMSL Project 51287 from March 2023