cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11352038.v1
title: Supplementary Genotyping Data of Ningxia Hui from Genetic affinity between Ningxia Hui and eastern Asian populations revealed by a set of InDel Loci

description: Genotyping Data of Ningxia Hui
DOI: 10.6084/m9.figshare.11352641.v1
title: MOESM9 of Cytological and transcriptome analyses reveal OsPUB73 defect affects the gene expression associated with tapetum or pollen exine abnormality in rice

description: Additional file 9: Table S4. Gene ontology (GO) enrichment analysis for differently expressed genes between WT and mutant plant.
DOI: 10.6084/m9.figshare.15022020.v1
title: A hypoxia related long non-coding RNA signature could accurately predict survival outcomes in patients with bladder cancer

description: Hypoxia plays a significant role in tumor progression. This study aimed to develop a hypoxia-related long noncoding RNA (lncRNA) signature for predicting survival outcomes of patients with bladder cancer (BC). The transcriptome and clinicopathologic data were downloaded from The Cancer Genome Atlas (TCGA) database. Univariate Cox regression analysis and Lasso regression analysis were used to screened lncRNAs. Ten lncRNAs were screened out and included into the hypoxia lncRNA signature. The risk score based on hypoxia lncRNA signature could accurately predict the survival outcomes of BC patients. Immune infiltration analysis showed that six types of immune cells had significant different infiltration. Tumor mutation burden (TMB) analysis showed that the risk scores between the wild types and the mutation types of TP53, FGFR3, and RB1 were significantly different. Gene Set Enrichment Analysis (GSEA) showed that cancer-associated pathways belonged to the high risk groups and immune-related signal pathways were enriched into the low risk group. Then, we constructed a predictive model with the risk score, age, and clinical stage, which showed a robust prognostic performance. An lncRNA-mRNA coexpression network was constructed, which contained 62 lncRNA-mRNA links among 10 lncRNAs and 40 related mRNAs. In summary, the hypoxia lncRNA signature could accurately predict prognosis, chemotherapy and immunotherapy response in patients with BC and was relevant to clinicopathologic parameters and immune cell infiltration.
DOI: 10.6084/m9.figshare.19738552.v1
title: Additional file 1 of Association of the tissue infiltrated and peripheral blood immune cell subsets with response to radiotherapy for rectal cancer

description: Additional file 1. Statistically significant cell types from cell type deconvolution based on GSE3493.
DOI: 10.6084/m9.figshare.8207714
title: Additional file 2: of miR156f integrates panicle architecture through genetic modulation of branch number and pedicel length pathways

description: Primer sequences used in this study. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.11351981
title: Identification and functional characterization of the <i>Aux/IAA</i> gene <i>VcIAA27</i> in blueberry

description: <i>Aux/IAA</i> genes are an important class of players in diverse developmental processes in plants, which generally exert their functions through the auxin signaling pathway. Blueberry is an economically and nutritionally important berry-bearing crop. However, <i>Aux/IAA</i> genes remain unknown in blueberry. In the present study, an <i>Aux/IAA</i> gene (<i>VcIAA27</i>) was identified and characterized in blueberry, and it is most closely related to IAA27 in other plant species. Expression analysis indicated that <i>VcIAA27</i> transcripts accumulate highly in shoot, flower and fruit. Interestingly, <i>VcIAA27</i> was highly expressed at early fruit developmental stages, and dramatically decreased from the onset of fruit ripening, implying that <i>VcIAA27</i> possibly plays important roles during fruit enlargement. Meanwhile, the analysis of promoter activity in Arabidopsis showed that strong GUS signal was detected in the trichome and hydathodes of leaves, receptacle of silique, and lateral roots of seedling. Overexpression of <i>VcIAA27</i> in Arabidopsis leads to auxin-related defects such as downward-curled leaves, short or sterile siliques, shorter stature, and more shoot branches. Moreover, qPCR analysis indicated that <i>VcIAA27</i> is able to alter the expression patterns of the auxin-related genes <i>BRU6, SAG13, SAUR26</i> in Arabidopsis, suggesting that <i>VcIAA27</i> might be negatively involved in the auxin signaling pathway. The findings will greatly contribute to future investigation of <i>Aux/IAA</i>-mediated mechanisms that control blueberry development, especially fruit development and ripening.
DOI: 10.6084/m9.figshare.12925089
title: Portable smartphone-based device for on-site detection of Hg<sup>2+</sup> in water samples

description: In this paper, a smartphone-based portable device was designed for on-site and real-time detection of Hg<sup>2+</sup> concentration levels in water samples. A rhodaminespirolactam-based derivative3ʹ,6ʹ-bis(diethylamino)-2-((3,4,5-trimethoxybenzylidene)amino)spiro[isoindoline-1,9ʹ-xanthen]-3-one, which had selective response to Hg<sup>2+</sup>,was used as Off-On fluorescent probe. The enhanced emission was observed by a high-pixel camera integrated on the smartphone. The grey value was analysed by an android/apple application ‘Detection’, and showed good linearly with Hg<sup>2+</sup> concentration ranged from 0.01 to 0.1 μg/ml. The limit of detection (LODs) was found at 0.9 μg/l, which was sensitive enough to detect Hg<sup>2+</sup> in industrial wastewater and drinking water. The accuracy of the proposed method was validated by reference Hg<sup>2+</sup> solution, and the result was in good agreement with the certified value. Compared with cold vapour atomic fluorescence spectrophotometry, atomic absorption spectrophotometry methods and fluorescence method, etc., the developed platform is simpler, cost-less and portable for on-site and real-time application, and can be used for sharing of in-field sensing data from any remote location to the central water quality monitoring station.
DOI: 10.6084/m9.figshare.16594958.v1
title: Circ-UQCRC2 aggravates lipopolysaccharide-induced injury in human bronchial epithelioid cells via targeting miR-495-3p/MYD88-mediated inflammatory response and oxidative stress

description: Infantile pneumonia is a common inflammatory disease with the infections of various pathogens in lower respiratory tracts. Here, the role and working mechanism of circular RNA (circRNA) ubiquinol-cytochrome c reductase core protein 2 (circ-UQCRC2; hsa_circ_0038467) in infantile pneumonia were investigated. Cell viability, apoptosis, and inflammatory response were assessed by 3-(4,5-dimethyl-thiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay, flow cytometry, and enzyme-linked immunosorbent assay (ELISA). Cell oxidative stress was analyzed by measuring the production of malondialdehyde (MDA) and superoxide dismutase (SOD). Reverse transcription-quantitative polymerase chain reaction (RT-qPCR) and Western blot assay were performed to determine the expression of RNAs and proteins. Dual-luciferase reporter assay and RNA immunoprecipitation (RIP) assay were performed to confirm the interaction between microRNA-495-3p (miR-495-3p) and circ-UQCRC2 or myeloid differentiation primary response protein 88 (MYD88). Lipopolysaccharide (LPS) treatment suppressed the viability while induced the apoptosis, inflammation, and oxidative stress of 16HBE cells in a dose-dependent manner. LPS exposure dose-dependently up-regulated the expression of circ-UQCRC2 in 16HBE cells. Circ-UQCRC2 absence attenuated LPS-induced injury in 16HBE cells. miR-495-3p was a target of circ-UQCRC2, and circ-UQCRC2 silencing-mediated protective effects in LPS-induced 16HBE cells were partly reversed by anti-miR-495-3p. MYD88 was a target of miR-495-3p, and MYD88 overexpression partly counteracted miR-495-3p accumulation-mediated influences in 16HBE cells upon LPS exposure. Circ-UQCRC2 interference decreased the protein expression of MYD88 partly by up-regulating miR-495-3p in LPS-induced 16HBE cells. In conclusion, circ-UQCRC2 contributed to LPS-induced injury of 16HBE cells by targeting miR-495-3p/MYD88 signalling-mediated inflammatory response and oxidative stress.
DOI: 10.34740/kaggle/dsv/7656000
title: YouTube Trending Video Dataset (updated daily)
DOI: 10.6084/m9.figshare.20787139
title: Additional file 10 of Antioxidant activation, cell wall reinforcement, and reactive oxygen species regulation promote resistance to waterlogging stress in hot pepper (Capsicum annuum L.)

description: Additional file 10: Table S7. The KEGG enrichment of 1,989 specific DEGs compared the control and treatment samples taken at the same time point.
DOI: 10.6084/m9.figshare.12925089.v1
title: Portable smartphone-based device for on-site detection of Hg<sup>2+</sup> in water samples

description: In this paper, a smartphone-based portable device was designed for on-site and real-time detection of Hg<sup>2+</sup> concentration levels in water samples. A rhodaminespirolactam-based derivative3ʹ,6ʹ-bis(diethylamino)-2-((3,4,5-trimethoxybenzylidene)amino)spiro[isoindoline-1,9ʹ-xanthen]-3-one, which had selective response to Hg<sup>2+</sup>,was used as Off-On fluorescent probe. The enhanced emission was observed by a high-pixel camera integrated on the smartphone. The grey value was analysed by an android/apple application ‘Detection’, and showed good linearly with Hg<sup>2+</sup> concentration ranged from 0.01 to 0.1 μg/ml. The limit of detection (LODs) was found at 0.9 μg/l, which was sensitive enough to detect Hg<sup>2+</sup> in industrial wastewater and drinking water. The accuracy of the proposed method was validated by reference Hg<sup>2+</sup> solution, and the result was in good agreement with the certified value. Compared with cold vapour atomic fluorescence spectrophotometry, atomic absorption spectrophotometry methods and fluorescence method, etc., the developed platform is simpler, cost-less and portable for on-site and real-time application, and can be used for sharing of in-field sensing data from any remote location to the central water quality monitoring station.
DOI: 10.6084/m9.figshare.20787142.v1
title: Additional file 11 of Antioxidant activation, cell wall reinforcement, and reactive oxygen species regulation promote resistance to waterlogging stress in hot pepper (Capsicum annuum L.)

description: Additional file 11: Table S8. The KEGG enrichment of the intersection genes in the trend of S and T gene expression analysis.
DOI: 10.6084/m9.figshare.11352455
title: MOESM5 of miR-762 activation confers acquired resistance to gefitinib in non-small cell lung cancer

description: Additional file 5: Table S2. 42 candidate genes of miR-762 predicted by Target scan and miRDB programs in the current study.
DOI: 10.6084/m9.figshare.11876583
title: Co(II) and Cu(II) coordination polymers: crystal structures and treatment effect on acute lung injury by inhibiting inflammatory response

description: By using a bifunctional organic ligand 4,4′-(1 H-1,2,4-triazol-1-yl)methylene-bis(benzonic acid) (H<sub>2</sub>tmb) which features both triazol and carboxylate groups, two new coordination polymers (CPs) {[Co(tmb)](H<sub>2</sub>tmb]·(C<sub>2</sub>H<sub>5</sub>OH)<sub>0.5</sub>(H<sub>2</sub>O)<sub>2.5</sub>}<sub>n</sub> (<b>1</b>) and [Cu(tmb)]<sub>n</sub> (<b>2</b>) have been successfully prepared using a solvothermal method by reaction of metal salts with the H<sub>2</sub>tmb in different solvent systems. The two complexes have been characterized by single-crystal X-ray diffraction analysis, elemental analysis (EA), IR spectrum analysis (IR), powder X-ray diffraction (PXRD), and thermogravimetric (TG) analysis. In addition, the protective effect of complexes <b>1</b> and <b>2</b> on the acute lung injury was evaluated and the specific mechanism was explored. Firstly, the release level of the inflammatory cytokines was measured with enzyme-linked immunosorbent assay (ELISA) detection kit. Next, the blood gas analysis was conducted to detect the PaO<sub>2</sub> and the PaCO<sub>2</sub> on acute lung injury model.
DOI: 10.6084/m9.figshare.11876583.v1
title: Co(II) and Cu(II) coordination polymers: crystal structures and treatment effect on acute lung injury by inhibiting inflammatory response

description: By using a bifunctional organic ligand 4,4′-(1 H-1,2,4-triazol-1-yl)methylene-bis(benzonic acid) (H<sub>2</sub>tmb) which features both triazol and carboxylate groups, two new coordination polymers (CPs) {[Co(tmb)](H<sub>2</sub>tmb]·(C<sub>2</sub>H<sub>5</sub>OH)<sub>0.5</sub>(H<sub>2</sub>O)<sub>2.5</sub>}<sub>n</sub> (<b>1</b>) and [Cu(tmb)]<sub>n</sub> (<b>2</b>) have been successfully prepared using a solvothermal method by reaction of metal salts with the H<sub>2</sub>tmb in different solvent systems. The two complexes have been characterized by single-crystal X-ray diffraction analysis, elemental analysis (EA), IR spectrum analysis (IR), powder X-ray diffraction (PXRD), and thermogravimetric (TG) analysis. In addition, the protective effect of complexes <b>1</b> and <b>2</b> on the acute lung injury was evaluated and the specific mechanism was explored. Firstly, the release level of the inflammatory cytokines was measured with enzyme-linked immunosorbent assay (ELISA) detection kit. Next, the blood gas analysis was conducted to detect the PaO<sub>2</sub> and the PaCO<sub>2</sub> on acute lung injury model.
DOI: 10.6084/m9.figshare.12923040
title: Additional file 4 of Exploring the protective effect of Modified Xiaochaihu Decoction against hepatic steatosis and inflammation by network pharmacology and validation in ageing rats

description: Additional file 4: Table S4. Results of Gene ontology (GO) functional enrichment analyses divided into three sections: Biological Process, Cellular Component, and Molecular Function.
DOI: 10.6084/m9.figshare.11352566.v1
title: MOESM10 of Cytological and transcriptome analyses reveal OsPUB73 defect affects the gene expression associated with tapetum or pollen exine abnormality in rice

description: Additional file 10: Table S5. Changed expression of genes in ospub73, ptc1, tdr, gamyb-2 and udt1.
DOI: 10.6084/m9.figshare.12923037
title: Additional file 3 of Exploring the protective effect of Modified Xiaochaihu Decoction against hepatic steatosis and inflammation by network pharmacology and validation in ageing rats

description: Additional file 3: Table S3. List of NAFLD‐related targets
DOI: 10.6084/m9.figshare.11352578.v1
title: MOESM12 of Cytological and transcriptome analyses reveal OsPUB73 defect affects the gene expression associated with tapetum or pollen exine abnormality in rice

description: Additional file 12: Table S6. The primers were used in this study.
DOI: 10.6084/m9.figshare.15020408.v1
title: Additional file 7 of Single-nucleus transcriptome analysis of human brain immune response in patients with severe COVID-19

description: Additional file 7: Table S6. Genes clustered by pseudo time analysis.
DOI: 10.6084/m9.figshare.11352464.v1
title: MOESM2 of Clinical evidence-guided network pharmacology analysis reveals a critical contribution of β1-adrenoreceptor upregulation to bradycardia alleviation by Shenxian-Shengmai

description: Additional file 2: Table S2. Characteristics of meta-analysis studies, including patient groups; diagnosis criteria of bradycardia; mode of administration and course of treatment; selection of drugs in the control group; evaluation indicators and adverse effects.
DOI: 10.6084/m9.figshare.11352578
title: MOESM12 of Cytological and transcriptome analyses reveal OsPUB73 defect affects the gene expression associated with tapetum or pollen exine abnormality in rice

description: Additional file 12: Table S6. The primers were used in this study.
DOI: 10.6084/m9.figshare.19216817.v1
title: A systematic review of suicidal ideation and behaviors among adults with spinal cord injury

description: Suicide is a public health crisis within the United States. Individuals with spinal cord injury (SCI) are vulnerable to negative outcomes such as suicide. This systematic review describes frequency of suicidal ideation (SI) and behaviors (suicide attempt [SA] and deaths) among samples of adults living with SCI. Associated risk and protective factors of SI and suicidal behaviors were also explored. On July 7, 2021, OVID Medline, EMBASE, OVID PsycINFO, Web of Science Core Collection, CINAHL, Cochrane Library, and Google Scholar databases were searched for SI, SA, and deaths by suicide among adults with a history of SCI. Risk of bias (RoB) was assessed using the Effective Public Health Practice Project (EPHPP) quality assessment tool. Results were synthesized descriptively considering the likely impact of RoB. The updated Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) 2020 reporting method was used. Sixty-nine articles were included. Frequency of SI and SAs within study samples ranged from 4% to 67%, and 0% to approximately 66%, respectively. While assessment methods for SI and SA widely varied, suicide deaths data sources were more consistent. Studies assessing SI and SA generally had high RoB and the overall strength of evidence was low. Stronger observational study designs assessing death by suicide had low RoB and the overall strength of evidence was high. Very few studies examined protective factors. Findings support previous work. Quality of evidence, and therefore confidence in the frequency of these outcomes, was impacted by the use of assessment measures without sufficient psychometric properties. The field will benefit from use of psychometrically sound measures to assess for SI, SA and suicide deaths. Furthermore, additional work is needed to elucidate risk and protective factors and to clearly characterize samples to increase generalizability of findings to the larger SCI community, including standardized reporting of SCI characteristics (e.g. use of American Spinal Injury Association classification system). Ultimately, improved suicide assessment and risk management is expected to prevent suicide among those living with SCI. CRD42020164686
DOI: 10.6084/m9.figshare.11352638
title: MOESM2 of Investigating RNA expression profiles altered by nicotinamide mononucleotide therapy in a chronic model of alcoholic liver disease

description: Additional file 2: Table S1: Metabolomics.
DOI: 10.6084/m9.figshare.15020411.v1
title: Additional file 8 of Single-nucleus transcriptome analysis of human brain immune response in patients with severe COVID-19

description: Additional file 8: Table S7. Transcription regulatory modules estimated by SCENIC.
DOI: 10.6084/m9.figshare.20787148.v1
title: Additional file 13 of Antioxidant activation, cell wall reinforcement, and reactive oxygen species regulation promote resistance to waterlogging stress in hot pepper (Capsicum annuum L.)

description: Additional file 13: Table S10. The DEG transcription factor list.
DOI: 10.6084/m9.figshare.11352614.v1
title: MOESM4 of Cytological and transcriptome analyses reveal OsPUB73 defect affects the gene expression associated with tapetum or pollen exine abnormality in rice

description: Additional file 4: Table S1. List of the T0 result of knockout OsPUB73 by CRISPR/Cas9.
DOI: 10.6084/m9.figshare.19738541
title: Additional file 6 of Comparative transcriptome analysis of resistant and susceptible wheat in response to Rhizoctonia cerealis

description: Additional file 6: Table S6.
DOI: 10.6084/m9.figshare.11352638.v1
title: MOESM2 of Investigating RNA expression profiles altered by nicotinamide mononucleotide therapy in a chronic model of alcoholic liver disease

description: Additional file 2: Table S1: Metabolomics.
DOI: 10.6084/m9.figshare.11352641
title: MOESM9 of Cytological and transcriptome analyses reveal OsPUB73 defect affects the gene expression associated with tapetum or pollen exine abnormality in rice

description: Additional file 9: Table S4. Gene ontology (GO) enrichment analysis for differently expressed genes between WT and mutant plant.
DOI: 10.6084/m9.figshare.11352458.v1
title: MOESM1 of Clinical evidence-guided network pharmacology analysis reveals a critical contribution of β1-adrenoreceptor upregulation to bradycardia alleviation by Shenxian-Shengmai

description: Additional file 1: Table S1. Quality assessment of the included randomized controlled trials on the seven assessment aspects of the Cochrane Collaboration Handbook standards.
DOI: 10.6084/m9.figshare.16595223.v1
title: An extended spatiotemporal exposure index for urban racial segregation

description: The Segregation Index quantifies the degree of segregation of social groups or classes. Because of the increasing use of fine-grained spatiotemporal activity and flow data, the conventional segregation measurements’ inclusiveness is challenged. We add population flow to the conventional place-based spatial exposure index to identify spatiotemporal segregation changes. Specifically, we considered the population-flow network, hierarchical structure, and time. In Chicago’s demonstration case study, we first used the time-dependent Twitter Origin-Destination flow matrices and their hierarchical structure information to estimate interactions between areal units at the neighborhood level. Then we computed the new population composition of units based on their interactions with other units and estimated the proposed spatiotemporal exposure index for different times. Finally, we systematically compared their differences with the conventional indices at global and local scales to see how population-flow patterns affect the exposure index. The results show that the population-flow patterns reflect valuable information in neighborhood interactions in temporal and spatial dimensions, but it is missing information in the conventional segregation computations. Furthermore, we emphasize that the hierarchical structures of flow patterns and the choice of appropriate parameters are also important factors for a rational segregation evaluation.
DOI: 10.6084/m9.figshare.11352482
title: MOESM4 of Clinical evidence-guided network pharmacology analysis reveals a critical contribution of β1-adrenoreceptor upregulation to bradycardia alleviation by Shenxian-Shengmai

description: Additional file 4: Table S4. Common targets for disease and drug components.
DOI: 10.6084/m9.figshare.11353511
title: Paternal Y chromosomal genotyping reveals multiple large-scale admixtures in the formation of Lolo-Burmese–speaking populations in southwest China

description: <b>Background:</b> Bai and Yi people are two Tibeto-Burman speaking ethnic groups in Yunnan, southwest China. The genetic structure and history of these two groups are largely unknown due to a lack of available genetic data. <b>Aim:</b> To investigate the paternal genetic structure and population relationship of the Yi and Bai people. <b>Subjects and methods:</b> We collected samples from 278 Bai individuals and 283 Yi individuals from Yunnan and subsequently genotyped 43 phylogenetically relevant Y-SNPs in those samples. We estimated haplogroup frequencies and merged our data with a reference database including 46 representative worldwide populations to infer genetic relationships. <b>Results:</b> Y chromosomal haplogroup O-M175 is the dominant lineage in both Bai and Yi people. The Bai and Yi show a close genetic relationship with other Tibeto-Burman<b>–</b>speaking populations with high frequencies of haplogroup O2a2b1a1-Page23, which is also confirmed by PCA. The frequencies of the Tai-Kadai specific lineage O1a-M119, the southern China widespread lineage O1b-P31 and the eastern China enriched lineage O2a1b-002611, are also relatively high in our studied populations. <b>Conclusions:</b> The paternal Y chromosomal affinity of the Bai and Yi with Tibeto-Burman groups is consistent with the language classification. During the formation of the Bai and Yi populations, there were multiple large-scale admixtures, including the expansion of Neolithic farming populations from northern China, the assimilation of Tai-Kadai–speaking populations in southwest China, the demographic expansion driven by Neolithic agricultural revolution from southern China, and the admixture with populations of military immigration from northern and eastern China.