cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14718503
title: Partially Observed Dynamic Tensor Response Regression

description: In modern data science, dynamic tensor data prevail in numerous applications. An important task is to characterize the relationship between dynamic tensor datasets and external covariates. However, the tensor data are often only partially observed, rendering many existing methods inapplicable. In this article, we develop a regression model with a partially observed dynamic tensor as the response and external covariates as the predictor. We introduce the low-rankness, sparsity, and fusion structures on the regression coefficient tensor, and consider a loss function projected over the observed entries. We develop an efficient nonconvex alternating updating algorithm, and derive the finite-sample error bound of the actual estimator from each step of our optimization algorithm. Unobserved entries in the tensor response have imposed serious challenges. As a result, our proposal differs considerably in terms of estimation algorithm, regularity conditions, as well as theoretical properties, compared to the existing tensor completion or tensor response regression solutions. We illustrate the efficacy of our proposed method using simulations and two real applications, including a neuroimaging dementia study and a digital advertising study.
DOI: 10.6084/m9.figshare.25152053
title: Microplastics synergistically induce immunodeficiency in honey bees and turn contaminated foragers into inadvertent pollutant carriers

description: Datasets supporting the manuscript titled "Microplastics synergistically induce immunodeficiency in honey bees and turn contaminated foragers into inadvertent pollutant carriers".
DOI: 10.6084/m9.figshare.25152053.v1
title: Microplastics synergistically induce immunodeficiency in honey bees and turn contaminated foragers into inadvertent pollutant carriers

description: Datasets supporting the manuscript titled "Microplastics synergistically induce immunodeficiency in honey bees and turn contaminated foragers into inadvertent pollutant carriers".
DOI: 10.6084/m9.figshare.23631510
title: Manganese facilitated cGAS-STING-IFNI pathway activation induced by ionizing radiation in glioma cells

description: After irradiation, double-stranded DNA leaked into the cytoplasm activates the cyclic GMP-AMP synthase (cGAS)-stimulator of interferon genes (STING) pathway, leading to the production of type I interferon (IFNI). In this study, we sought to probe the effect of ionizing radiation on activity of cGAS-STING-IFNI pathway in normoxic or hypoxic glioma cells and explore a more effective method to activate the signaling pathway, thereby activating the anti-tumor immune response and improving the therapeutic effect of radiotherapy for glioma. Human glioma cells U251 and T98G cultured in normoxia or hypoxia (1% O<sub>2</sub>) were irradiated with different doses of X-ray. The relative expressions of cGAS, IFN-I stimulated genes (ISGs), and three-prime repair exonuclease 1 (TREX1) were detected by qPCR. The expression levels of interferon regulatory factor 3 (IRF3) and p-IRF3 proteins were detected by Western blot. The production of cGAMP and IFN-β in the supernatant was detected by ELISA assay. U251 and T98G cell lines with stable knockdown of TREX1 were established after transfection with lentivirus vectors. EdU cell proliferation assay was used to screen suitable metal ions concentrations. The phagocytosis of DCs was observed by immunofluorescence microscope. The phenotype of DCs was detected by flow cytometry. The migration ability of DCs was detected by a transwell experiment. We found that cytosolic dsDNA, 2′3′-cGAMP, cGAS and ISGs expression, and IFN-β in cell supernatant were all increased with the doses of X-ray in the range of 0–16 Gy in normoxic glioma cells. Nevertheless, hypoxia significantly inhibited the radiation-induced dose-dependent activation of cGAS-STING-IFNI pathway. Furthermore, manganese (II) ion (Mn<sup>2+</sup>) significantly improved cGAS-STING-IFNI pathway activation induced by X-ray in both normoxic and hypoxic glioma cells, thereby promoting the maturation and migration of DCs. The responses of cGAS-STING-IFNI pathway to ionizing radiation were mainly investigated under normoxic condition, but the experiments described here indicated that hypoxia could hinder the pathway activation. However, Mn<sup>2+</sup> showed radiosensitizing effects on the pathway under either normoxic or hypoxic conditions demonstrating its potential as a radiosensitizer for glioma through activating an anti-tumor immune response.
DOI: 10.5067/viirs/vj202mod.002
title: VIIRS/JPSS2 Moderate Resolution Bands L1B 6-Min Swath 750 m
DOI: 10.6084/m9.figshare.23631510.v2
title: Manganese facilitated cGAS-STING-IFNI pathway activation induced by ionizing radiation in glioma cells

description: After irradiation, double-stranded DNA leaked into the cytoplasm activates the cyclic GMP-AMP synthase (cGAS)-stimulator of interferon genes (STING) pathway, leading to the production of type I interferon (IFNI). In this study, we sought to probe the effect of ionizing radiation on activity of cGAS-STING-IFNI pathway in normoxic or hypoxic glioma cells and explore a more effective method to activate the signaling pathway, thereby activating the anti-tumor immune response and improving the therapeutic effect of radiotherapy for glioma. Human glioma cells U251 and T98G cultured in normoxia or hypoxia (1% O<sub>2</sub>) were irradiated with different doses of X-ray. The relative expressions of cGAS, IFN-I stimulated genes (ISGs), and three-prime repair exonuclease 1 (TREX1) were detected by qPCR. The expression levels of interferon regulatory factor 3 (IRF3) and p-IRF3 proteins were detected by Western blot. The production of cGAMP and IFN-β in the supernatant was detected by ELISA assay. U251 and T98G cell lines with stable knockdown of TREX1 were established after transfection with lentivirus vectors. EdU cell proliferation assay was used to screen suitable metal ions concentrations. The phagocytosis of DCs was observed by immunofluorescence microscope. The phenotype of DCs was detected by flow cytometry. The migration ability of DCs was detected by a transwell experiment. We found that cytosolic dsDNA, 2′3′-cGAMP, cGAS and ISGs expression, and IFN-β in cell supernatant were all increased with the doses of X-ray in the range of 0–16 Gy in normoxic glioma cells. Nevertheless, hypoxia significantly inhibited the radiation-induced dose-dependent activation of cGAS-STING-IFNI pathway. Furthermore, manganese (II) ion (Mn<sup>2+</sup>) significantly improved cGAS-STING-IFNI pathway activation induced by X-ray in both normoxic and hypoxic glioma cells, thereby promoting the maturation and migration of DCs. The responses of cGAS-STING-IFNI pathway to ionizing radiation were mainly investigated under normoxic condition, but the experiments described here indicated that hypoxia could hinder the pathway activation. However, Mn<sup>2+</sup> showed radiosensitizing effects on the pathway under either normoxic or hypoxic conditions demonstrating its potential as a radiosensitizer for glioma through activating an anti-tumor immune response.
DOI: 10.5067/viirs/vj202img.002
title: VIIRS/JPSS2 Imagery Resolution Bands 6-Min L1B 6-Min Swath 375 m
DOI: 10.5067/viirs/vj202dnb.002
title: VIIRS/JPSS2 Day/Night Band 6-Min L1B Swath 750 m
DOI: 10.6084/m9.figshare.19960038.v1
title: Additional file 1 of Adiposity and grip strength: a Mendelian randomisation study in UK Biobank

description: Additional file 1: Tables S1-S8. Table S1. R-squared and F-statistic of adiposity genetic instruments. Table S2. Summary statistics describing SNP associations with (i) adiposity exposures (BMI, BF%, WC and WHR) and (ii) grip strength. Table S3. Correlation coefficients between adiposity measures for males and females: (a) phenotypic correlations, (b) genetic correlations. Table S4. Mean difference (95% CI) in grip strength (kg) by markers of total and central adiposity. Table S5. Mean difference (95% CI) in grip strength (kg) by markers of total and central adiposity, stratified by age. Table S6. Mean difference (95% CI) in grip strength (kg) by markers of total and central adiposity: exploring pleiotropy. Table S7. Estimation of bias due to sample overlap. Table S8. MR PRESSO Outlier correction.
DOI: 10.5067/viirs/vj203mod.002
title: VIIRS/JPSS2 Moderate Resolution Terrain-Corrected Geolocation L1 6-Min Swath 750 m
DOI: 10.5067/viirs/vj203img.002
title: VIIRS/JPSS2 Imagery Resolution Terrain-Corrected Geolocation L1 6-Min Swath 375 m
DOI: 10.5067/viirs/vj203dnb.002
title: VIIRS/JPSS2 Day/Night Band Terrain Corrected Geolocation L1 6-Min Swath 750 m
DOI: 10.60813/9uscrp8q
title: Testing DOI
DOI: 10.6084/m9.figshare.12096129
title: Additional file 2 of A LASSO-derived risk model for long-term mortality in Chinese patients with acute coronary syndrome

description: Additional file 2: The risk formula of our model and the demo of use it.
DOI: 10.6084/m9.figshare.20484717
title: Additional file 1 of Machine learning for the micropeptide encoded by LINC02381 regulates ferroptosis through the glucose transporter SLC2A10 in glioblastoma

description: Additional file 1: Table S1. The list of pan-cancer in this study.
DOI: 10.6084/m9.figshare.20484717.v1
title: Additional file 1 of Machine learning for the micropeptide encoded by LINC02381 regulates ferroptosis through the glucose transporter SLC2A10 in glioblastoma

description: Additional file 1: Table S1. The list of pan-cancer in this study.
DOI: 10.6084/m9.figshare.20484663
title: Additional file 7 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 7: Table S7. GO terms enriched in overlapped upregulated genes and GO terms enriched in overlapped downregulated genes of epalrestat treated samples and siAKR1B1 treated samples.
DOI: 10.6084/m9.figshare.20484663.v1
title: Additional file 7 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 7: Table S7. GO terms enriched in overlapped upregulated genes and GO terms enriched in overlapped downregulated genes of epalrestat treated samples and siAKR1B1 treated samples.
DOI: 10.6084/m9.figshare.20484651
title: Additional file 2 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 2: Table S1. Cell lineage markers identified for ADC, SCC and NET cancer subtypes. Table S2. Differentially expressed genes during tumorigenesis. Table S3. Differentially expressed genes among normal epithelial cells, ADC-based single-lineage tumor cells and combined mixed-lineage tumor cells.
DOI: 10.6084/m9.figshare.20484651.v1
title: Additional file 2 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 2: Table S1. Cell lineage markers identified for ADC, SCC and NET cancer subtypes. Table S2. Differentially expressed genes during tumorigenesis. Table S3. Differentially expressed genes among normal epithelial cells, ADC-based single-lineage tumor cells and combined mixed-lineage tumor cells.
DOI: 10.6084/m9.figshare.20484660
title: Additional file 6 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 6: Table S6. Overlapped differentially expressed genes between epalrestat treated samples and siAKR1B1 treated samples.
DOI: 10.6084/m9.figshare.20484654
title: Additional file 4 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 4: Table S4. Differentially expressed genes between epalrestat treated samples and DMSO treated samples.
DOI: 10.6084/m9.figshare.20484660.v1
title: Additional file 6 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 6: Table S6. Overlapped differentially expressed genes between epalrestat treated samples and siAKR1B1 treated samples.
DOI: 10.6084/m9.figshare.20484718
title: Additional file 14 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 14: Table S8. SNV landscape of all ctDNA samples.
DOI: 10.6084/m9.figshare.20484657.v1
title: Additional file 5 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 5: Table S5. Differentially expressed genes between siAKR1B1 and NC samples.
DOI: 10.6084/m9.figshare.20484706
title: Additional file 10 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 10: Table S4. CNV values of all samples.
DOI: 10.6084/m9.figshare.20484657
title: Additional file 5 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 5: Table S5. Differentially expressed genes between siAKR1B1 and NC samples.
DOI: 10.6084/m9.figshare.20484712.v1
title: Additional file 12 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 12: Table S6. Gene list of NGS panel.
DOI: 10.6084/m9.figshare.20484715
title: Additional file 13 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 13: Table S7. Quality control.
DOI: 10.6084/m9.figshare.20484721
title: Additional file 15 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 15: Table S9. CNV landscape of all ctDNA samples.
DOI: 10.6084/m9.figshare.20484709.v1
title: Additional file 11 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 11: Table S5. Information of sampling timepoints and treatment response.
DOI: 10.6084/m9.figshare.20484712
title: Additional file 12 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 12: Table S6. Gene list of NGS panel.
DOI: 10.6084/m9.figshare.20484718.v1
title: Additional file 14 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 14: Table S8. SNV landscape of all ctDNA samples.
DOI: 10.6084/m9.figshare.8426129.v1
title: Additional file 7: of MicroRNA-374a, -4680, and -133b suppress cell proliferation through the regulation of genes associated with human cleft palate in cultured human palate cells

description: Table S7. MicroRNA enrichment analysis of human cleft palate genes. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.20484706.v1
title: Additional file 10 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 10: Table S4. CNV values of all samples.
DOI: 10.6084/m9.figshare.20484751
title: Additional file 9 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 9: Table S3. SNV information.
DOI: 10.6084/m9.figshare.7377554.v1
title: Additional file 1: of knnAUC: an open-source R package for detecting nonlinear dependence between one continuous variable and one binary variable

description: The power comparison of simulation study across different variance levels. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.20484709
title: Additional file 11 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 11: Table S5. Information of sampling timepoints and treatment response.
DOI: 10.6084/m9.figshare.7377590
title: Additional file 3: of knnAUC: an open-source R package for detecting nonlinear dependence between one continuous variable and one binary variable

description: The significant (associated with kidney cancer) genes only detected by other methods. (XLSX 106 kb)
DOI: 10.6084/m9.figshare.20484654.v1
title: Additional file 4 of Molecular profiling of human non-small cell lung cancer by single-cell RNA-seq

description: Additional file 4: Table S4. Differentially expressed genes between epalrestat treated samples and DMSO treated samples.
DOI: 10.6084/m9.figshare.12096129.v1
title: Additional file 2 of A LASSO-derived risk model for long-term mortality in Chinese patients with acute coronary syndrome

description: Additional file 2: The risk formula of our model and the demo of use it.
DOI: 10.6084/m9.figshare.20484721.v1
title: Additional file 15 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 15: Table S9. CNV landscape of all ctDNA samples.
DOI: 10.6084/m9.figshare.7377590.v1
title: Additional file 3: of knnAUC: an open-source R package for detecting nonlinear dependence between one continuous variable and one binary variable

description: The significant (associated with kidney cancer) genes only detected by other methods. (XLSX 106 kb)
DOI: 10.6084/m9.figshare.7377575
title: Additional file 2: of knnAUC: an open-source R package for detecting nonlinear dependence between one continuous variable and one binary variable

description: The significant (associated with kidney cancer) genes only detected by knnAUC. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.7377599
title: Additional file 4: of knnAUC: an open-source R package for detecting nonlinear dependence between one continuous variable and one binary variable

description: The recalculated (100 times) simulation power of knnAUC with default parameters in nine simple functions. (XLSX 37 kb)
DOI: 10.6084/m9.figshare.7377599.v1
title: Additional file 4: of knnAUC: an open-source R package for detecting nonlinear dependence between one continuous variable and one binary variable

description: The recalculated (100 times) simulation power of knnAUC with default parameters in nine simple functions. (XLSX 37 kb)
DOI: 10.6084/m9.figshare.20484715.v1
title: Additional file 13 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 13: Table S7. Quality control.
DOI: 10.6084/m9.figshare.7377617.v1
title: Additional file 5: of knnAUC: an open-source R package for detecting nonlinear dependence between one continuous variable and one binary variable

description: The simulation power of knnAUC with different ratios in nine simple functions. (XLSX 22 kb)
DOI: 10.6084/m9.figshare.8426258
title: Additional file 2: of Early-life determinants of hypoxia-inducible factor 3A geneÂ (HIF3A) methylation: a birth cohort study

description: Tables of the pairwise associations between the HIF3A.1 and HIF3A.2 CpG units measured in this study. The first spreadsheet in the file gives the r values, the second spreadsheet gives the p values. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.22581979
title: Robust Low-Rank Tensor Decomposition with the L<sub>2</sub> Criterion

description: The growing prevalence of tensor data, or multiway arrays, in science and engineering applications motivates the need for tensor decompositions that are robust against outliers. In this article, we present a robust Tucker decomposition estimator based on the L<sub>2</sub> criterion, called the Tucker-L2E. Our numerical experiments demonstrate that Tucker-L2E has empirically stronger recovery performance in more challenging high-rank scenarios compared with existing alternatives. The appropriate Tucker-rank can be selected in a data-driven manner with cross-validation or hold-out validation. The practical effectiveness of Tucker-L2E is validated on real data applications in fMRI tensor denoising, PARAFAC analysis of fluorescence data, and feature extraction for classification of corrupted images.
DOI: 10.6084/m9.figshare.8426129
title: Additional file 7: of MicroRNA-374a, -4680, and -133b suppress cell proliferation through the regulation of genes associated with human cleft palate in cultured human palate cells

description: Table S7. MicroRNA enrichment analysis of human cleft palate genes. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.20484751.v1
title: Additional file 9 of Molecular evolutionary process of advanced gastric cancer during sequential chemotherapy detected by circulating tumor DNA

description: Additional file 9: Table S3. SNV information.
DOI: 10.6084/m9.figshare.12096276
title: Additional file 4 of A qualitative transcriptional signature to reclassify histological grade of ER-positive breast cancer patients

description: Additional file 4: Table S2–4 Differential expressed gene identified in TCGA dataset. Table S2. Differential expressed gene identified in pHG1 and pHG3 samples. Table S3. Differential expressed gene identified in HG1 and HG3 samples reclassified from pHG1 and pHG3 samples. Table S4. Differential expressed gene identified in HG1 and HG3 samples reclassified from all samples.
DOI: 10.5281/zenodo.10623525
title: CMAQ_dataset_2018_Dec
DOI: 10.6084/m9.figshare.25152155
title: Supplementary Material for: Survival of a Rhino-Orbital-Cerebral Mucormycosis Patient after Localized Combination Liposomal Amphotericin B Medications: A Case Report

description: <b><i>Introduction:</i></b> The aim of this study was to report a case of ROCM related to nasogastric intubation who was survived by liposomal amphotericin B (LAmB) combination therapy in situ without orbital exenteration. <b><i>Case Presentation:</i></b> A 44-year-old woman presented with a 1-week history of rapidly enlarging swelling on the right nose, cheek, and lower eyelid after underwent gastrointestinal decompression. The lesions were derived from the nasal area where the nasogastric tube had been placed. Based on the biopsy results and clinical manifestations, ROCM was diagnosed. Immediate combination therapy with intravenous LAmB and micafungin and multisection debridement of the right facial region were applied. Postoperative treatment included cleaning, irrigating, and local dressing of the wound area using LAmB. LAmB was also used daily as binocular eye drops against deep infection on the eyeballs. The patient recovered well 4 months later and remained free of disease after 40 months of follow-up. <b><i>Conclusion:</i></b> This case adds to our knowledge on the potential risk of nasogastric intubation for mucormycosis infection. Nasogastric tube may be the source of infection associated with ROCM. This report evaluates the beneficial effect of LAmB combination therapy in situ for cleaning, irrigating, local wound dressing, and eye drops on lesion areas. The combination of LAmB as cleaning, irrigating, local dressing solution, and eye drops to control intraocular and intraorbital ROCM infection has not been previously reported to our knowledge. These methods provide multiple choices to substitute for orbital exenteration on the survival of ROCM patients.