cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6938168
title: Expression of circular RNAs during C2C12 myoblast differentiation and prediction of coding potential based on the number of open reading frames and N6-methyladenosine motifs

description: The importance of circular RNAs (circRNAs) as regulators of muscle development and muscle-associated disorders is becoming increasingly apparent. To explore potential regulators of muscle differentiation, we determined the expression profiles of circRNAs of skeletal muscle C2C12 myoblasts and myotubes using microarray analysis. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were performed to explore circRNA functions. We also established competing endogenous RNA (ceRNA) networks using bioinformatics methods and predicted the coding potential of differentially expressed circRNAs. We found that 581 circRNAs were differentially regulated between C2C12 myoblasts and myotubes. Bioinformatics analysis suggested that the primary functions of the linear transcripts of the circRNAs were linked with organization of the cytoskeleton, calcium signaling, cell cycle, and metabolic pathways. ceRNA networks showed that the myogenic-specific genes myogenin, myocyte enhancer factor 2a, myosin heavy chain (Myh)-1, Myh7, and Myh7b could combine with 91 miRNAs and the top 30 upregulated circRNAs, forming 239 edges. According to the number of open reading frames and <i>N</i><sup>6</sup>-methyladenosine motifs, we identified 224 circRNAs with coding potential, and performed GO and KEGG analyses based on the linear counterparts of 75 circRNAs. We determined that the 75 circRNAs were related to regulation of the actin cytoskeleton and metabolic pathways. We established expression profiles of circRNAs during C2C12 myoblast differentiation and predicted the function of differentially expressed circRNAs, which might be involved in skeletal muscle development. Our study offers new insight into the functions of circRNAs in skeletal muscle growth and development.
DOI: 10.6084/m9.figshare.6938168.v1
title: Expression of circular RNAs during C2C12 myoblast differentiation and prediction of coding potential based on the number of open reading frames and N6-methyladenosine motifs

description: The importance of circular RNAs (circRNAs) as regulators of muscle development and muscle-associated disorders is becoming increasingly apparent. To explore potential regulators of muscle differentiation, we determined the expression profiles of circRNAs of skeletal muscle C2C12 myoblasts and myotubes using microarray analysis. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were performed to explore circRNA functions. We also established competing endogenous RNA (ceRNA) networks using bioinformatics methods and predicted the coding potential of differentially expressed circRNAs. We found that 581 circRNAs were differentially regulated between C2C12 myoblasts and myotubes. Bioinformatics analysis suggested that the primary functions of the linear transcripts of the circRNAs were linked with organization of the cytoskeleton, calcium signaling, cell cycle, and metabolic pathways. ceRNA networks showed that the myogenic-specific genes myogenin, myocyte enhancer factor 2a, myosin heavy chain (Myh)-1, Myh7, and Myh7b could combine with 91 miRNAs and the top 30 upregulated circRNAs, forming 239 edges. According to the number of open reading frames and <i>N</i><sup>6</sup>-methyladenosine motifs, we identified 224 circRNAs with coding potential, and performed GO and KEGG analyses based on the linear counterparts of 75 circRNAs. We determined that the 75 circRNAs were related to regulation of the actin cytoskeleton and metabolic pathways. We established expression profiles of circRNAs during C2C12 myoblast differentiation and predicted the function of differentially expressed circRNAs, which might be involved in skeletal muscle development. Our study offers new insight into the functions of circRNAs in skeletal muscle growth and development.
DOI: 10.6084/m9.figshare.14277949
title: Therapeutic Effects of Triple Antiplatelet Therapy in Elderly Female Patients with Diabetes and Acute Myocardial Infarction

description: Abstract Background Dual antiplatelet therapy (DAPT) is the cornerstone treatment of acute myocardial infarction (AMI). Objective The present study aimed to investigate the efficacy and safety of triple antiplatelet therapy (TAPT) in elderly female patients with diabetes and ST segment elevation myocardial infarction (STEMI), who had undergone percutaneous coronary intervention (PCI). Methods We designed a randomized, single-blind study. Control group A (97 elderly male patients with diabetes and STEMI, whose CRUSADE scores were &lt; 30) received aspirin, ticagrelor, and tirofiban. A total of 162 elderly female patients with diabetes and STEMI were randomly divided into two groups according to CRUSADE score. Group B (69 patients with CRUSADE score &gt; 31) received aspirin and ticagrelor. Group C (93 patients with CRUSADE score &lt; 30) received aspirin, ticagrelor and tirofiban. P values &lt; 0.05 were considered statistically significant. Results Compared to the findings in group A, post-PCI Thrombolysis in Myocardial Infarction (TIMI) grade 3 blood flow and TIMI myocardial perfusion grade 3 were significantly less prevalent in group B (p &lt; 0.05). When compared to groups A and C, the incidence of major adverse complications was significantly higher in group B (p &lt; 0.05). Conclusion TAPT could effectively reduce the incidence of major complications in elderly female patients with diabetes and STEMI. However, close attention should be paid to hemorrhage in patients receiving TAPT. (Arq Bras Cardiol. 2020; [online].ahead print, PP.0-0)
DOI: 10.6084/m9.figshare.7986593
title: MOESM2 of Trends in insecticide resistance in Culex pipiens pallens over 20Â years in Shandong, China

description: Additional file 2: Table S2. WHO standard insecticide resistance larvae bioassay from five Culex pipiens pallens populations in Shandong Province.
DOI: 10.25549/usctheses-c89-216210
title: 7-cpa-recommendations-for-practice
DOI: 10.6084/m9.figshare.21087273.v1
title: Additional file 5 of Overexpression of cotton GhNAC072 gene enhances drought and salt stress tolerance in transgenic Arabidopsis

description: Additional file 5: Supplementary Table S1. Number of NAC genes and their assembly in G. hirsutum, G. arboreum, and G. raimondii.
DOI: 10.6084/m9.figshare.6938426.v1
title: Equation of state of solid Ne inter-calibrated with the MgO, Au, Pt, NaCl-B2, and ruby pressure scales up to 130 GPa

description: We measured the unit-cell volume of thermally annealed solid Ne at 30–130 GPa, which is loaded together with MgO and Pt or Au in diamond-anvil cells. Laser annealing significantly reduced the deviatoric stress and the data scatter. We fit our data to the 3rd-order Birch–Murnaghan and Vinet equations of state (EOS) with the MgO pressure scale from [Ye Y, Prakapenka V, Meng Y, Shim SH. J Geophys Res. 2017;122:3450] (hereafter MgO-Y17 scale). In order to make consistent comparison, we converted the pressures of the reported datasets for isothermal compression on Ne, so that they are consistent with the MgO-Y17 scale. The discrepancy among different datasets reduces significantly after pressure conversion. We also identified the internally consistent EOSs of Ne, MgO, Pt, Au and NaCl-B2, together with the ruby scale. Our findings contribute to internally consistent comparison of different experimental datasets on the pressure-dependent behaviors of materials.
DOI: 10.6084/m9.figshare.6938957
title: Additional file 2: of Homoeolog expression bias and expression level dominance in resynthesized allopolyploid Brassica napus

description: GO enrichment analysis of ELD genes in the resynthesized B. napus. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.16899998.v1
title: Generalized factor model for ultra-high dimensional correlated variables with mixed types

description: As high-dimensional data measured with mixed-type variables gradually become prevalent, it is particularly appealing to represent those mixed-type high-dimensional data using a much smaller set of so-called factors. Due to the limitation of the existing methods for factor analysis that deal with only continuous variables, in this paper, we develop a generalized factor model, a corresponding algorithm and theory for ultra-high dimensional mixed types of variables where both the sample size <i>n</i> and variable dimension <i>p</i> could diverge to infinity. Specifically, to solve the computational problem arising from the non-linearity and mixed types, we develop a two-step algorithm so that each update can be carried out in parallel across variables and samples by using an existing package. Theoretically, we establish the rate of convergence for the estimators of factors and loadings in the presence of nonlinear structure accompanied with mixed-type variables when both <i>n</i> and <i>p</i> diverge to infinity. Moreover, since the correct specification of the number of factors is crucial to both the theoretical and the empirical validity of factor models, we also develop a criterion based on a penalized loss to consistently estimate the number of factors under the framework of a generalized factor model. To demonstrate the advantages of the proposed method over the existing ones, we conducted extensive simulation studies and also applied it to the analysis of the NFBC1966 dataset and a cardiac arrhythmia dataset, resulting in more predictive and interpretable estimators for loadings and factors than the existing factor model.
DOI: 10.6084/m9.figshare.6938426
title: Equation of state of solid Ne inter-calibrated with the MgO, Au, Pt, NaCl-B2, and ruby pressure scales up to 130 GPa

description: We measured the unit-cell volume of thermally annealed solid Ne at 30–130 GPa, which is loaded together with MgO and Pt or Au in diamond-anvil cells. Laser annealing significantly reduced the deviatoric stress and the data scatter. We fit our data to the 3rd-order Birch–Murnaghan and Vinet equations of state (EOS) with the MgO pressure scale from [Ye Y, Prakapenka V, Meng Y, Shim SH. J Geophys Res. 2017;122:3450] (hereafter MgO-Y17 scale). In order to make consistent comparison, we converted the pressures of the reported datasets for isothermal compression on Ne, so that they are consistent with the MgO-Y17 scale. The discrepancy among different datasets reduces significantly after pressure conversion. We also identified the internally consistent EOSs of Ne, MgO, Pt, Au and NaCl-B2, together with the ruby scale. Our findings contribute to internally consistent comparison of different experimental datasets on the pressure-dependent behaviors of materials.
DOI: 10.6084/m9.figshare.6938849
title: Additional file 1: of Breast cancer in postmenopausal women is associated with an altered gut metagenome

description: Table S1. Generated data of the four groups. Table S2. Distribution of the samples of the four groups in the two enterotypes. Table S3. Relative abundance of the different species between premenopausal breast cancer patients and premenopausal healthy controls. Table S4. Relative abundance of the different species between postmenopausal breast cancer patients and postmenopausal healthy controls. Table S5. PERMANOVA analysis was performed to assess effects of different phenotypes on gene profile. Table S6. The optimal species markers in the classification of postmenopausal breast cancer patients and postmenopausal healthy controls. Table S7. The abundance of Pathogen-Host Interactions (PHI) gene coding for diseases in postmenopausal breast cancer patients and postmenopausal healthy controls. Table S8. The virulence factor in samples of postmenopausal breast cancer patients and postmenopausal healthy controls. Table S9. Relative abundance of the different KEGG modules between premenopausal breast cancer patients and premenopausal healthy controls. Table S10. Relative abundance of the different KEGG modules between postmenopausal breast cancer patients and postmenopausal healthy controls. Table S11. Differentially enriched genes which annotated to butanoate metabolism pathways between postmenopausal breast cancer patients and postmenopausal healthy controls. Table S12. Relative abundance of the species of all the samples. Table S13. The species counts of all the samples. (XLS 2530 kb)
DOI: 10.6084/m9.figshare.7986335
title: Additional file 1: of Genome-wide identification and expression profiling of trihelix gene family under abiotic stresses in wheat

description: Table S1. Characteristic features of trihelix genes in wheat and its relatives. Table S2. Coding sequences of trihelix genes in wheat and its relatives. Table S3. Amino acid sequences of trihelix proteins in wheat and its relatives. Table S4. Syntenic relationships of trihelix genes between wheat and its relatives. Table S5. Expression data of wheat trihelix genes for tissue-specific expression profile analyses. Table S6. Differential expression of wheat trihelix genes under cold and drought stresses. Table S7. Primers for qRT-PCR.
DOI: 10.6084/m9.figshare.7986344
title: Additional file 2: of Genome-wide identification and expression profiling of trihelix gene family under abiotic stresses in wheat

description: Figure S1. Locations and duplication events of trihelix genes on T. urartu chromosomes. Red boxes indicate tandem duplications. Figure S2. Locations and duplication events of trihelix genes on Ae. tauschii chromosomes. Red boxes indicate tandem duplications, and red lines indicate segmental duplications. Figure S3. Locations and duplication events of trihelix genes on B. distachyon chromosomes. Red lines indicate segmental duplications. Figure S4. Syntenic analysis of trihelix genes between wheat and rice. Red, blue, and green bands represent subgenomes A, B, and D, respectively. Yellow bands indicate the rice genome. Figure S5. Syntenic analysis of trihelix genes between wheat and B. distachyon. Red, blue, and green bands represent subgenomes A, B, and D, respectively. Yellow bands indicate the rice genome. Figure S6. Conserved motifs of trihelix proteins. The logos of the motifs were predicted using MEME. Figure S7. MA plots of the differential expression of wheat trihelix genes under cold stress. Figure S8. MA plots of the differential expression of wheat trihelix genes under drought stress for 1â h. Figure S9. MA plots of the differential expression of wheat trihelix genes under drought stress for 6â h.
DOI: 10.6084/m9.figshare.7986344.v1
title: Additional file 2: of Genome-wide identification and expression profiling of trihelix gene family under abiotic stresses in wheat

description: Figure S1. Locations and duplication events of trihelix genes on T. urartu chromosomes. Red boxes indicate tandem duplications. Figure S2. Locations and duplication events of trihelix genes on Ae. tauschii chromosomes. Red boxes indicate tandem duplications, and red lines indicate segmental duplications. Figure S3. Locations and duplication events of trihelix genes on B. distachyon chromosomes. Red lines indicate segmental duplications. Figure S4. Syntenic analysis of trihelix genes between wheat and rice. Red, blue, and green bands represent subgenomes A, B, and D, respectively. Yellow bands indicate the rice genome. Figure S5. Syntenic analysis of trihelix genes between wheat and B. distachyon. Red, blue, and green bands represent subgenomes A, B, and D, respectively. Yellow bands indicate the rice genome. Figure S6. Conserved motifs of trihelix proteins. The logos of the motifs were predicted using MEME. Figure S7. MA plots of the differential expression of wheat trihelix genes under cold stress. Figure S8. MA plots of the differential expression of wheat trihelix genes under drought stress for 1â h. Figure S9. MA plots of the differential expression of wheat trihelix genes under drought stress for 6â h.
DOI: 10.6084/m9.figshare.7986500.v1
title: Additional file 2: of DNA methylome profiling of granulosa cells reveals altered methylation in genes regulating vital ovarian functions in polycystic ovary syndrome

description: Hypermethylated sites were linked to a total of 1777 genes (XLSX 354 kb)
DOI: 10.6084/m9.figshare.14277949.v1
title: Therapeutic Effects of Triple Antiplatelet Therapy in Elderly Female Patients with Diabetes and Acute Myocardial Infarction

description: Abstract Background Dual antiplatelet therapy (DAPT) is the cornerstone treatment of acute myocardial infarction (AMI). Objective The present study aimed to investigate the efficacy and safety of triple antiplatelet therapy (TAPT) in elderly female patients with diabetes and ST segment elevation myocardial infarction (STEMI), who had undergone percutaneous coronary intervention (PCI). Methods We designed a randomized, single-blind study. Control group A (97 elderly male patients with diabetes and STEMI, whose CRUSADE scores were &lt; 30) received aspirin, ticagrelor, and tirofiban. A total of 162 elderly female patients with diabetes and STEMI were randomly divided into two groups according to CRUSADE score. Group B (69 patients with CRUSADE score &gt; 31) received aspirin and ticagrelor. Group C (93 patients with CRUSADE score &lt; 30) received aspirin, ticagrelor and tirofiban. P values &lt; 0.05 were considered statistically significant. Results Compared to the findings in group A, post-PCI Thrombolysis in Myocardial Infarction (TIMI) grade 3 blood flow and TIMI myocardial perfusion grade 3 were significantly less prevalent in group B (p &lt; 0.05). When compared to groups A and C, the incidence of major adverse complications was significantly higher in group B (p &lt; 0.05). Conclusion TAPT could effectively reduce the incidence of major complications in elderly female patients with diabetes and STEMI. However, close attention should be paid to hemorrhage in patients receiving TAPT. (Arq Bras Cardiol. 2020; [online].ahead print, PP.0-0)
DOI: 10.6084/m9.figshare.14277966.v1
title: Value of left atrial diameter with CHA2DS2-VASc score in predicting left atrial/left atrial appendage thrombosis in non-valvular atrial fibrillation

description: Abstract Background Atrial fibrillation is the most common persistent arrhythmia, and is the main factor that leads to thromboembolism. Objective To investigate the value of left atrial diameter combined with CHA2DS2-VASc score in predicting left atrial/left atrial appendage thrombosis in non-valvular atrial fibrillation. Methods This is a retrospective study. 238 patients with non-valvular atrial fibrillation were selected and divided into two groups: thrombosis and non-thrombosis. CHA2DS2-VASc score was determined. P&lt;0.05 was considered statistically significant. Results Multivariate logistic regression analysis revealed that the history of stroke/transient ischemic attack, vascular disease, CHA2DS2-VASc score, left atrial diameter (LAD), left ventricular end-diastolic dimension (LVEDD) and left ventricular ejection fraction (LVEF) were independent risk factors for left atrial/left atrial appendage thrombosis (p&lt;0.05). Receiver operating characteristic curve analysis revealed that the area under the curve for the CHA2DS2-VASc score in predicting left atrial/left atrial appendage thrombosis was 0.593 when the CHA2DS2-VASc score was ≥3 points, and sensitivity and specificity were 86.5% and 32.6%, respectively, while the area under the curve for LAD in predicting left atrial/left atrial appendage thrombosis was 0.786 when LAD was ≥44.17 mm, and sensitivity and specificity were 89.6% and 60.9%, respectively. Among the different CHA2DS2-VASc groups, the incidence rate of left atrial/left atrial appendage thrombosis in patients with LAD ≥44.17 mm was higher than patients with LAD &lt;44.17 mm (p&lt;0.05). Conclusion CHA2DS2-VASc score and LAD are correlated with left atrial/left atrial appendage thrombosis in non-valvular atrial fibrillation. For patients with a CHA2DS2-VASc score of 0 or 1, when LAD is ≥44.17 mm, the risk for left atrial/left atrial appendage thrombosis remained high. (Arq Bras Cardiol. 2020; [online].ahead print, PP.0-0)
DOI: 10.6084/m9.figshare.6938942.v1
title: Additional file 1: of Homoeolog expression bias and expression level dominance in resynthesized allopolyploid Brassica napus

description: GO enrichment analysis of DEGs between resynthesized B. napus and its diploid parents. Three major functional categories were grouped: biological process (P), cellular component (C) and molecular function (F). (XLSX 10 kb)
DOI: 10.6084/m9.figshare.7986593.v1
title: MOESM2 of Trends in insecticide resistance in Culex pipiens pallens over 20Â years in Shandong, China

description: Additional file 2: Table S2. WHO standard insecticide resistance larvae bioassay from five Culex pipiens pallens populations in Shandong Province.
DOI: 10.6084/m9.figshare.14278286
title: Winter cover crops effects on soil microbial characteristics in sandy areas of Northern Shaanxi, China

description: ABSTRACT In sandy areas of Northern Shaanxi, after potato harvest, there are large areas of soil exposed to wind erosion from winter to spring, leading to degradation of soil quality. Planting cover crops in fallow fields is considered effective to improve soil biological properties; however, there is scarce study on the effect of winter cover crops on fallow soils in this region. In the study lasting from 2017 to 2019, four winter cover crops, i.e., alfalfa (AC), sweetclover (SC), winter wheat (WC), and ryegrass (RC), as well as bare land (CK), were used to study the effect of winter cover crops on soil microbial characteristics. The experiment showed that the soils in AC treatment had the highest values of microbial biomass N (MBN) content, dehydrogenase and urease activities, bacteria colonies, and Shannon and Richness indices. The soils in SC treatment had the maximum values of microbial biomass C (MBC) content, protease activity, fungi colonies, and Simpson index. Under AC and SC treatments, microbial communities in soil showed the highest percentage of carbon source utilization for amino acids, carbohydrates, and amines. Alfalfa and sweetclover as cover crops were helpful to improve the activity and diversity of soil microorganisms, exerting a positive effect on soil quality. This finding is of great significance for improving the methods of mitigating soil degradation in winter fallow fields of Northern Shaanxi, China.
DOI: 10.6084/m9.figshare.6938975.v1
title: Additional file 3: of Homoeolog expression bias and expression level dominance in resynthesized allopolyploid Brassica napus

description: Primer sequences used for qRT-PCR analyses. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.21087258
title: Additional file 10 of Overexpression of cotton GhNAC072 gene enhances drought and salt stress tolerance in transgenic Arabidopsis

description: Additional file 10: Supplementary Table S6. Data for relative expression of transgenic and wildtype during drought and salt stress treatment.
DOI: 10.25582/data.2023-07.2848394/2435764
title: Data for EMSL Project 60675 from July 2023
DOI: 10.6084/m9.figshare.24025494
title: Seismic models for Emeishan large igneous province

description: The Rayleigh waves dispersion curves, shear wave velocities and receiver functions for 424 seismic stations around the Emeishan large igneous province. 350 campaign stations are deployed by the ChinArray project, 74 permanent stations are operated by the China Earthquake Administration. The lateral resolution of these models is ~30 km, which is theoretically estimated by the dense station’s interval.<br><br>Citation：<br><b>Sixue Wang</b> et al (2024). Translithospheric magma plumbing system fossilized in the Emeishan large igneous province. Communications Earth & Environment. https://doi.org/10.1038/s43247-024-01631-0<br><br>