cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14229010
title: Silencing of circular RNA circPDE5A suppresses neuroblastoma progression by targeting the miR-362-5p/NOL4L axis

description: Neuroblastoma (NB) is the most common extra-cranial solid tumour in early childhood. Circular RNAs (circRNAs) have been implicated in the development of NB. The purpose of the current study was to explore the molecular action of circRNA phosphodiesterase 5 A (circPDE5A) in NB malignant progression. The expression levels of circPDE5A, miR-362-5p and nucleolar protein 4 like (NOL4L) were assessed by quantitative real-time polymerase chain reaction (qRT-PCR) and western blot. Cell proliferation was detected by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyl-2<i>H</i>-tetrazolium bromide (MTS) assay. Cell migration and invasion were evaluated by transwell assay. The levels of glucose consumption and lactate production were measured using the commercial assay kits. Targeted correlations among circPDE5A, miR-362-5p and NOL4L were confirmed by dual-luciferase reporter and RNA immunoprecipitation (RIP) assays. <i>In vivo</i> assays were performed to examine the role of circPDE5A in tumour growth <i>in vivo</i>. Our results revealed that circPDE5A was up-regulated in NB tissues and cells. The silencing of circPDE5A suppressed NB cell proliferation, migration, invasion, and glycolysis <i>in vitro</i> and diminished tumour growth <i>in vivo</i>. Moreover, circPDE5A directly targeted miR-362-5p by binding to miR-362-5p. CircPDE5A silencing impeded NB malignant progression <i>in vitro</i> through up-regulating miR-362-5p. Furthermore, NOL4L was a direct target of miR-362-5p, and NOL4L mediated the regulation of miR-362-5p on NB malignant progression <i>in vitro</i>. Additionally, circPDE5A functioned as a regulator of NOL4L expression <i>via</i> targeting miR-362-5p. Our current findings identified that the knockdown of circPDE5A suppressed NB malignant progression at least in part by the regulation of the miR-362-5p/NOL4L axis, providing a novel rationale for developing circPDE5A as a potential target for NB management.
DOI: 10.6084/m9.figshare.22617403
title: Additional file 3 of Tumor microenvironment remodeling after neoadjuvant immunotherapy in non-small cell lung cancer revealed by single-cell RNA sequencing

description: Additional file 3: Table S2. Gene list of function modules.
DOI: 10.6084/m9.figshare.23666333.v1
title: Oral nifedipine may be a preferential option for treating acute severe hypertension during pregnancy: a meta-analysis

description: To compare oral nifedipine and intravenous labetalol in the treatment of acute severe hypertension in pregnancy (SHP). The primary outcomes were the required time to achieve target blood pressure (RTATBP), systolic blood pressure (SBP) and diastolic BP (DBP) after treatment, secondary outcomes were the number of doses (NoD) and adverse events (AEs). There was no difference between oral nifedipine and intravenous labetalol in SBP, DBP, and AE. However, oral nifedipine provided less RTATBP and NoD. Oral nifedipine was associated with less RTATBP and NoD and otherwise did not differ from intravenous labetalol.
DOI: 10.6084/m9.figshare.22616884
title: Additional file 4 of The plastid genome of twenty-two species from Ferula, Talassia, and Soranthus: comparative analysis, phylogenetic implications, and adaptive evolution

description: Additional file 4: Table S1. The list of gene content in the twenty-two plastomes.
DOI: 10.6084/m9.figshare.7937435.v1
title: Highly pathogenic H5N6 avian influenza virus outbreak in <i>Pavo cristatus</i> in Jiangxi Province, China

description: Highly pathogenic avian influenza (HPAI) is a persistent threat to poultry, wild birds, humans, and other mammals. The continually evolving HPAI H5N6 virus has induced great losses in breeding industries in growing regions around the world. In this study, we confirmed an outbreak of the HPAI H5N6 virus in captive <i>Pavo cristatus</i> in Jiangxi Province, China. The causative agents H5N6 viruses were isolated and designated JS01, JS02, and K10. Animal experiments showed that all three isolates exhibited high pathogenicity to chickens, but they need adaption to effectively infect mice. A phylogenetic analysis showed that all three isolates were clustered in H5 clade 2.3.4.4c. No novel genetic reassortant was found in JS01, JS02, and K10 viruses. It was estimated that JS01, JS02, and K10 H5N6 viruses were direct descendants of the H5N6 virus circulating in South of China. The estimated divergence time from tMRCAs was anywhere between May 2014 to June 2016. Although the number of outbreaks of avian influenza decreased significantly in 2018, the threat from avian influenza to public health remains serious. Enhanced active surveillance is required to monitor the transmission and evolution of H5 influenza viruses.
DOI: 10.6084/m9.figshare.13180570.v2
title: YSIRK-G/S-directed translocation is required for <i>Streptococcus suis</i> to deliver diverse cell wall anchoring effectors contributing to bacterial pathogenicity

description: The <i>Streptococcus suis</i> serotype 2 (SS2) is a significant zoonotic pathogen that is responsible for various swine diseases, even causing cytokine storms of Streptococcal toxic shock-like syndromes amongst human. Cell wall anchoring proteins with a C-terminal LPxTG are considered to play vital roles during SS2 infection; however, their exporting mechanism across cytoplasmic membranes has remained vague. This study found that YSIRK-G/S was involved in the exportation of LPxTG-anchoring virulence factors MRP and SspA in virulent SS2 strain ZY05719. The whole-genome analysis indicated that diverse LPxTG proteins fused with an N-terminal YSIRK-G/S motif are encoded in strain ZY05719. Two novel LPxTG proteins SspB and YzpA were verified to be exported via a putative transport system that was dependent on the YSIRK-G/S directed translocation, and portrayed vital functions during the infection of SS2 strain ZY05719. Instead of exhibiting an inactivation of C5a peptidase in SspB, another LPxTG protein with an N-terminal YSIRK-G/S motif from <i>Streptococcus agalactiae</i> was depicted to cleave the C5a component of the host complement. The consequent domain-architecture retrieval determined more than 10,000 SspB/YzpA like proteins that are extensively distributed in the Gram-positive bacteria, and most of them harbor diverse glycosyl hydrolase or peptidase domains within their middle regions, thus presenting their capability to interact with host cells. The said findings provide compelling evidence that LPxTG proteins with an N-terminal YSIRK-G/S motif are polymorphic effectors secreted by Gram-positive bacteria, which can be further proposed to define as cell wall anchoring effectors in a new subset.
DOI: 10.6084/m9.figshare.22616884.v1
title: Additional file 4 of The plastid genome of twenty-two species from Ferula, Talassia, and Soranthus: comparative analysis, phylogenetic implications, and adaptive evolution

description: Additional file 4: Table S1. The list of gene content in the twenty-two plastomes.
DOI: 10.6084/m9.figshare.23666333
title: Oral nifedipine may be a preferential option for treating acute severe hypertension during pregnancy: a meta-analysis

description: To compare oral nifedipine and intravenous labetalol in the treatment of acute severe hypertension in pregnancy (SHP). The primary outcomes were the required time to achieve target blood pressure (RTATBP), systolic blood pressure (SBP) and diastolic BP (DBP) after treatment, secondary outcomes were the number of doses (NoD) and adverse events (AEs). There was no difference between oral nifedipine and intravenous labetalol in SBP, DBP, and AE. However, oral nifedipine provided less RTATBP and NoD. Oral nifedipine was associated with less RTATBP and NoD and otherwise did not differ from intravenous labetalol.
DOI: 10.6084/m9.figshare.14228285
title: Additional file 2 of Associations between habitual diet, metabolic disease, and the gut microbiota using latent Dirichlet allocation

description: Additional file 1.
DOI: 10.6084/m9.figshare.14228285.v1
title: Additional file 2 of Associations between habitual diet, metabolic disease, and the gut microbiota using latent Dirichlet allocation

description: Additional file 1.
DOI: 10.6084/m9.figshare.22616890
title: Additional file 6 of The plastid genome of twenty-two species from Ferula, Talassia, and Soranthus: comparative analysis, phylogenetic implications, and adaptive evolution

description: Additional file 6: Table S3. The distribution of repeat sequences in the 22 plastomes.
DOI: 10.6084/m9.figshare.14229010.v1
title: Silencing of circular RNA circPDE5A suppresses neuroblastoma progression by targeting the miR-362-5p/NOL4L axis

description: Neuroblastoma (NB) is the most common extra-cranial solid tumour in early childhood. Circular RNAs (circRNAs) have been implicated in the development of NB. The purpose of the current study was to explore the molecular action of circRNA phosphodiesterase 5 A (circPDE5A) in NB malignant progression. The expression levels of circPDE5A, miR-362-5p and nucleolar protein 4 like (NOL4L) were assessed by quantitative real-time polymerase chain reaction (qRT-PCR) and western blot. Cell proliferation was detected by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyl-2<i>H</i>-tetrazolium bromide (MTS) assay. Cell migration and invasion were evaluated by transwell assay. The levels of glucose consumption and lactate production were measured using the commercial assay kits. Targeted correlations among circPDE5A, miR-362-5p and NOL4L were confirmed by dual-luciferase reporter and RNA immunoprecipitation (RIP) assays. <i>In vivo</i> assays were performed to examine the role of circPDE5A in tumour growth <i>in vivo</i>. Our results revealed that circPDE5A was up-regulated in NB tissues and cells. The silencing of circPDE5A suppressed NB cell proliferation, migration, invasion, and glycolysis <i>in vitro</i> and diminished tumour growth <i>in vivo</i>. Moreover, circPDE5A directly targeted miR-362-5p by binding to miR-362-5p. CircPDE5A silencing impeded NB malignant progression <i>in vitro</i> through up-regulating miR-362-5p. Furthermore, NOL4L was a direct target of miR-362-5p, and NOL4L mediated the regulation of miR-362-5p on NB malignant progression <i>in vitro</i>. Additionally, circPDE5A functioned as a regulator of NOL4L expression <i>via</i> targeting miR-362-5p. Our current findings identified that the knockdown of circPDE5A suppressed NB malignant progression at least in part by the regulation of the miR-362-5p/NOL4L axis, providing a novel rationale for developing circPDE5A as a potential target for NB management.
DOI: 10.6084/m9.figshare.22616896.v1
title: Additional file 8 of The plastid genome of twenty-two species from Ferula, Talassia, and Soranthus: comparative analysis, phylogenetic implications, and adaptive evolution

description: Additional file 8: Table S5. The nrITS Genbank accession numbers of all species used in phylogenetic analysis.
DOI: 10.6084/m9.figshare.14228294.v1
title: Additional file 5 of Associations between habitual diet, metabolic disease, and the gut microbiota using latent Dirichlet allocation

description: Additional file 4.
DOI: 10.6084/m9.figshare.22616905
title: Additional file 11 of The plastid genome of twenty-two species from Ferula, Talassia, and Soranthus: comparative analysis, phylogenetic implications, and adaptive evolution

description: Additional file 11: Table S8. Information for sample collections and specimen vouchers of the 22 species.
DOI: 10.6084/m9.figshare.7414364
title: MOESM1 of Expression of an endoglucanaseâ cellobiohydrolase fusion protein in Saccharomyces cerevisiae, Yarrowia lipolytica, and Lipomyces starkeyi

description: Additional file 1.Â  Primers used in this study.
DOI: 10.6084/m9.figshare.7414364.v1
title: MOESM1 of Expression of an endoglucanaseâ cellobiohydrolase fusion protein in Saccharomyces cerevisiae, Yarrowia lipolytica, and Lipomyces starkeyi

description: Additional file 1.Â  Primers used in this study.
DOI: 10.6084/m9.figshare.7414406
title: Additional file 3: of Genome-wide differences in DNA methylation changes in caprine ovaries between oestrous and dioestrous phases

description: Table S3. Three types (CpG, CHG and CHH) of methylation characterisation of differentially methylated regions. The fold change of the average methylation level &gt; 2 and Pearson’s chi-square test (χ2) value P ≤ 0.05. H = A/T/C. (XLSX 4649 kb)
DOI: 10.6084/m9.figshare.24191667
title: Small extracellular vesicles from irradiated lung epithelial cells promote the activation of fibroblasts in pulmonary fibrosis

description: Alveolar epithelial injury and dysfunction are the risk factors for radiation-induced pulmonary fibrosis (RIPF). However, it is not clear about the relationship between RIPF and the small extracellular vesicles (sEV) secreted by irradiated alveolar epithelial cells. Based on the activation of fibroblasts, this study explored the role of sEV derived from alveolar epithelial cells in RIPF and the potential mechanisms. Transmission electron microscopy (TEM), nanoparticle tracking analysis (NTA), and western blotting were used to characterize sEV. Western blotting was used to detect fibrosis-associated proteins. Cell counts and transwell assays were used to evaluate the proliferation and migration ability of fibroblasts. RT-PCR was used to observe the extracellular matrix (ECM) synthesized by fibroblasts, miRNA changes in the sEV were determined by second-generation sequencing. TEM, NTA, and western blotting showed the extracellular vesicles with a double-layer membrane structure of approximately 100 nm in diameter. The sEV derived from irradiated A549, HBEC3-KT, and MLE12 cells upregulated FN1 and alpha-SMA proteins expression in fibroblasts and drove the fibroblast to myofibroblast transition, and the sEV from irradiated mouse bronchoalveolar lavage fluid (BALF) affirmed the same results. In addition, the sEV derived from irradiated alveolar epithelial cells significantly increased the migration ability of fibroblasts and the expression of extracellular matrix proteins such as FN1. The results of miRNA sequencing of sEV in BALF of rats with RIPF showed that the metabolic pathway may be important for miRNA to regulate the activation of fibroblasts. The sEV derived from radiated pulmonary epithelial cells promote the activation, migration and extracellular matrix proteins expression of lung fibroblasts; miRNA in sEV may be an important molecular that affects the activation of lung fibroblasts.
DOI: 10.6084/m9.figshare.24191667.v2
title: Small extracellular vesicles from irradiated lung epithelial cells promote the activation of fibroblasts in pulmonary fibrosis

description: Alveolar epithelial injury and dysfunction are the risk factors for radiation-induced pulmonary fibrosis (RIPF). However, it is not clear about the relationship between RIPF and the small extracellular vesicles (sEV) secreted by irradiated alveolar epithelial cells. Based on the activation of fibroblasts, this study explored the role of sEV derived from alveolar epithelial cells in RIPF and the potential mechanisms. Transmission electron microscopy (TEM), nanoparticle tracking analysis (NTA), and western blotting were used to characterize sEV. Western blotting was used to detect fibrosis-associated proteins. Cell counts and transwell assays were used to evaluate the proliferation and migration ability of fibroblasts. RT-PCR was used to observe the extracellular matrix (ECM) synthesized by fibroblasts, miRNA changes in the sEV were determined by second-generation sequencing. TEM, NTA, and western blotting showed the extracellular vesicles with a double-layer membrane structure of approximately 100 nm in diameter. The sEV derived from irradiated A549, HBEC3-KT, and MLE12 cells upregulated FN1 and alpha-SMA proteins expression in fibroblasts and drove the fibroblast to myofibroblast transition, and the sEV from irradiated mouse bronchoalveolar lavage fluid (BALF) affirmed the same results. In addition, the sEV derived from irradiated alveolar epithelial cells significantly increased the migration ability of fibroblasts and the expression of extracellular matrix proteins such as FN1. The results of miRNA sequencing of sEV in BALF of rats with RIPF showed that the metabolic pathway may be important for miRNA to regulate the activation of fibroblasts. The sEV derived from radiated pulmonary epithelial cells promote the activation, migration and extracellular matrix proteins expression of lung fibroblasts; miRNA in sEV may be an important molecular that affects the activation of lung fibroblasts.
DOI: 10.34740/kaggle/ds/4415861
title: ❄️ 2024 Winter Jackets on AliExpress
DOI: 10.6084/m9.figshare.23667405
title: Fatal landslide database

description: Landslide dataset for the article "Spatial and temporal analysis of a fatal landslide inventory in China from 1950 to 2016".
DOI: 10.6084/m9.figshare.22617623.v1
title: Additional file 4 of Seven bacterial response-related genes are biomarkers for colon cancer

description: Additional file 4: Table S3. Differentially expressed lncRNAs of TCGA CC samples.
DOI: 10.6084/m9.figshare.22617635.v1
title: Additional file 7 of Seven bacterial response-related genes are biomarkers for colon cancer

description: Additional file 7. Data or codes for figure 4–7.
DOI: 10.6084/m9.figshare.22617620
title: Additional file 3 of Seven bacterial response-related genes are biomarkers for colon cancer

description: Additional file 3: Table S2. Differentially expressed genes in the low and high risk score groups.
DOI: 10.6084/m9.figshare.16851696
title: Table S4 from A global assessment of the impact of school closure in reducing COVID-19 spread

description: Table S4
DOI: 10.6084/m9.figshare.7414520.v1
title: Additional file 1: of Abiraterone acetate for chemotherapy-naive metastatic castration-resistant prostate cancer: a single-centre prospective study of efficacy, safety, and prognostic factors

description: The raw data of mCRPC patients in this study. (XLSX 27 kb)
DOI: 10.6084/m9.figshare.22617650
title: Additional file 1 of Metabolomic analysis of aqueous humor reveals potential metabolite biomarkers for differential detection of macular edema

description: Additional file 1. Differentially expressed metabolites in the macular edema (ME) compared with the control group. Table S1–S4. Differentially expressed metabolites in the DME, BRVO-ME, AMD-ME and ME groups compared with the CON group. AMD-ME, macular edema of age-related macular degeneration; BRVO-ME, macular edema of branch retinal vein occlusion; CON, control; DME, diabetic macular edema.
DOI: 10.6084/m9.figshare.22617653
title: Additional file 2 of Metabolomic analysis of aqueous humor reveals potential metabolite biomarkers for differential detection of macular edema

description: Additional file 2. Differentially expressed pathways in the macular edema (ME) compared with the control group. Tables S5–S8. Differentially expressed pathways in the DME, BRVO-ME, AMD-ME and ME groups compared with the CON group. AMD-ME, macular edema of age-related macular degeneration; BRVO-ME, macular edema of branch retinal vein occlusion; CON, control; DME, diabetic macular edema.
DOI: 10.6084/m9.figshare.22617659
title: Additional file 4 of Metabolomic analysis of aqueous humor reveals potential metabolite biomarkers for differential detection of macular edema

description: Additional file 4. Differentially expressed pathways between macular edema (ME) groups. Tables S12–S14. Differentially expressed pathways in BRVO-ME compared with AMD-ME, DME compared with AMD-ME and BRVO-ME compared with DME. AMD-ME, macular edema of age-related macular degeneration; BRVO-ME, macular edema of branch retinal vein occlusion; DME, diabetic macular edema.
DOI: 10.6084/m9.figshare.22617653.v1
title: Additional file 2 of Metabolomic analysis of aqueous humor reveals potential metabolite biomarkers for differential detection of macular edema

description: Additional file 2. Differentially expressed pathways in the macular edema (ME) compared with the control group. Tables S5–S8. Differentially expressed pathways in the DME, BRVO-ME, AMD-ME and ME groups compared with the CON group. AMD-ME, macular edema of age-related macular degeneration; BRVO-ME, macular edema of branch retinal vein occlusion; CON, control; DME, diabetic macular edema.
DOI: 10.6084/m9.figshare.22617656.v1
title: Additional file 3 of Metabolomic analysis of aqueous humor reveals potential metabolite biomarkers for differential detection of macular edema

description: Additional file 3. Differentially expressed metabolites between macular edema (ME) groups. Tables S9–S11. Differentially expressed metabolites in BRVO-ME compared with AMD-ME, DME compared with AMD-ME and BRVO-ME compared with DME. AMD-ME, macular edema of age-related macular degeneration; BRVO-ME, macular edema of branch retinal vein occlusion; DME, diabetic macular edema.
DOI: 10.5281/zenodo.10633535
title: Supplementary Table 1
DOI: 10.5281/zenodo.10633536
title: Supplementary Table 1
DOI: 10.6084/m9.figshare.22617617
title: Additional file 2 of Seven bacterial response-related genes are biomarkers for colon cancer

description: Additional file 2: Table S1. 276 differentially expressed genes between normal and colon cancer samples in TCGA.
DOI: 10.6084/m9.figshare.22617620.v1
title: Additional file 3 of Seven bacterial response-related genes are biomarkers for colon cancer

description: Additional file 3: Table S2. Differentially expressed genes in the low and high risk score groups.
DOI: 10.6084/m9.figshare.22617623
title: Additional file 4 of Seven bacterial response-related genes are biomarkers for colon cancer

description: Additional file 4: Table S3. Differentially expressed lncRNAs of TCGA CC samples.
DOI: 10.6084/m9.figshare.22617626
title: Additional file 5 of Seven bacterial response-related genes are biomarkers for colon cancer

description: Additional file 5: Table S4. Total 611 bacterial response-related genes from 3 GSEA gene sets.
DOI: 10.6084/m9.figshare.22617673.v1
title: Additional file 3 of HES1-mediated down-regulation of miR-138 sustains NOTCH1 activation and promotes proliferation and invasion in renal cell carcinoma

description: Additional file 3.
DOI: 10.6084/m9.figshare.22617656
title: Additional file 3 of Metabolomic analysis of aqueous humor reveals potential metabolite biomarkers for differential detection of macular edema

description: Additional file 3. Differentially expressed metabolites between macular edema (ME) groups. Tables S9–S11. Differentially expressed metabolites in BRVO-ME compared with AMD-ME, DME compared with AMD-ME and BRVO-ME compared with DME. AMD-ME, macular edema of age-related macular degeneration; BRVO-ME, macular edema of branch retinal vein occlusion; DME, diabetic macular edema.
DOI: 10.6084/m9.figshare.22617673
title: Additional file 3 of HES1-mediated down-regulation of miR-138 sustains NOTCH1 activation and promotes proliferation and invasion in renal cell carcinoma

description: Additional file 3.