cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19221097
title: Additional file 1 of Comparative transcriptome analysis identifies crucial candidate genes and pathways in the hypothalamic-pituitary-gonadal axis during external genitalia development of male geese

description: Additional file 1: Table S1. The reads account and mapping rate of samples.
DOI: 10.6084/m9.figshare.19221103
title: Additional file 3 of Comparative transcriptome analysis identifies crucial candidate genes and pathways in the hypothalamic-pituitary-gonadal axis during external genitalia development of male geese

description: Additional file 3: Table S2. The differentially expressed genes in pituitary glandbetween NEGG and AEGG.
DOI: 10.6084/m9.figshare.19221106
title: Additional file 4 of Comparative transcriptome analysis identifies crucial candidate genes and pathways in the hypothalamic-pituitary-gonadal axis during external genitalia development of male geese

description: Additional file 4: Table S3. Top 30 GO terms enriched by the DEGs in different tissues and related information.
DOI: 10.6084/m9.figshare.19221106.v1
title: Additional file 4 of Comparative transcriptome analysis identifies crucial candidate genes and pathways in the hypothalamic-pituitary-gonadal axis during external genitalia development of male geese

description: Additional file 4: Table S3. Top 30 GO terms enriched by the DEGs in different tissues and related information.
DOI: 10.6084/m9.figshare.7686770
title: Additional file 3: of Genome-wide analysis of the NAC transcription factor family in Tartary buckwheat (Fagopyrum tataricum)

description: Table S3. One-to-one orthologous relationships between Tartary buckwheat and other plants. (XLS 88 kb)
DOI: 10.6084/m9.figshare.19221109.v1
title: Additional file 5 of Comparative transcriptome analysis identifies crucial candidate genes and pathways in the hypothalamic-pituitary-gonadal axis during external genitalia development of male geese

description: Additional file 5: Table S4. Top 30 KEGG pathways enriched by the DEGs in different tissues and related information.
DOI: 10.6084/m9.figshare.19221112
title: Additional file 6 of Comparative transcriptome analysis identifies crucial candidate genes and pathways in the hypothalamic-pituitary-gonadal axis during external genitalia development of male geese

description: Additional file 6: Table S5. The DEGs expression module analysis.
DOI: 10.6084/m9.figshare.21842550.v1
title: Efficient Approximation of Gromov-Wasserstein Distance Using Importance Sparsification

description: As a valid metric of metric-measure spaces, Gromov-Wasserstein (GW) distance has shown the potential for matching problems of structured data like point clouds and graphs. However, its application in practice is limited due to the high computational complexity. To overcome this challenge, we propose a novel importance sparsification method, called Spar-GW, to approximate GW distance efficiently. In particular, instead of considering a dense coupling matrix, our method leverages a simple but effective sampling strategy to construct a sparse coupling matrix and update it with few computations. The proposed Spar-GW method is applicable to the GW distance with arbitrary ground cost, and it reduces the complexity from O(n4) to O(n2+δ) for an arbitrary small δ&gt;0. Theoretically, the convergence and consistency of the proposed estimation for GW distance are established under mild regularity conditions. In addition, this method can be extended to approximate the variants of GW distance, including the entropic GW distance, the fused GW distance, and the unbalanced GW distance. Experiments show the superiority of our Spar-GW to state-of-the-art methods in both synthetic and real-world tasks. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.19745861
title: UXT attenuates the CGAS-STING1 signaling by targeting STING1 for autophagic degradation

description: STING1 (stimulator of interferon response cGAMP interactor 1), the pivotal adaptor protein of CGAS (cyclic GMP-AMP synthase)-STING1 signaling, is critical for type I IFN production of innate immunity. However, excessive or prolonged activation of STING1 is associated with autoinflammatory and autoimmune diseases. Thus, preventing STING1 from over-activation is important to maintain immune homeostasis. Here, we reported that UXT (ubiquitously expressed prefoldin like chaperone), a small chaperone-like protein, was essential to prevent the excessive activation of STING1-mediated type I IFN signaling through autophagic degradation of STING1 via SQSTM1 (sequestosome 1). Upon DNA mimics or cyclic GMP-AMP (cGAMP) stimulation, UXT specifically interacted with STING1 and promoted STING1 degradation through selective macroautophagy/autophagy. Moreover, UXT was required for more efficient autophagic degradation of STING1 by facilitating the interaction of SQSTM1 and STING1. The <i>in vivo</i> role of UXT in attenuating the CGAS-STING1 signaling was further confirmed in the mouse model of DNA-virus infection and the TMPD (2,6,10,14-tetramethylpentadecane)-induced murine lupus model. Intriguingly, the expression of UXT was consistently impaired and exhibited a remarkable inverse correlation with type I IFN signature in the leukocytes and PBMCs (peripheral blood mononuclear cells) of several large SLE (systemic lupus erythematosus) cohorts. Importantly, the replenishment of UXT effectively suppressed the production of IFNs and ISGs in the PBMCs of SLE patients. Taken together, our study reveals a novel regulatory role of UXT in autophagic degradation of STING1 to maintain immune homeostasis. UXT might be a potential therapeutic target for alleviating aberrant type I IFNs in autoimmune diseases<b>Abbreviations</b>: 3-MA: 3-methyladenine; BMDMs: bone marrow-derived macrophages; cGAMP: cyclic GMP-AMP; CGAS: cyclic gmp-amp synthase; cKO: conditional knockout; CXCL10: C-X-C motif chemokine ligand 10; GAPDH: glyceraldehyde-3-phosphate dehydrogenase; HSV-1: herpes simplex virus type 1; HTDNA: herring testes DNA; IFIT1: interferon induced protein with tetratricopeptide repeats 1; IFNA4: interferon alpha 4; IFNB: interferon beta; IRF3: interferon regulatory factor 3; ISD: interferon stimulatory DNA; ISGs: IFN-stimulated genes; MAP1LC3B/LC3B: microtubule associated protein 1 light chain 3 beta; MEFs: mouse embryonic fibroblasts; RNA-seq: RNA sequencing; PBMCs: peripheral blood mononuclear cells; RSAD2: radical S-adenosyl methionine domain containing 2; SLE: systemic lupus erythematosus; SQSTM1: sequestosome 1; STING1: stimulator of interferon response cGAMP interactor 1; TBK1: TANK binding kinase 1; TMPD: 2,6,10,14-tetramethylpentadecane; UXT: ubiquitously expressed prefoldin like chaperone.
DOI: 10.6084/m9.figshare.15026749
title: Additional file 2 of Genome-wide association screening and verification of potential genes associated with root architectural traits in maize (Zea mays L.) at multiple seedling stages

description: Additional file 2: Table S2. Phenotypic data of the seven root-related traits from the GWAS panel at V1, V2 and V3 stages.
DOI: 10.6084/m9.figshare.16600217
title: LncRNA MALAT1-deficiency restrains lipopolysaccharide (LPS)-induced pyroptotic cell death and inflammation in HK-2 cells by releasing microRNA-135b-5p

description: Long non-coding RNAs (LncRNAs) participate in the regulation of chronic kidney disease (CKD), and acute kidney injury (AKI) is identified as an important risk factor for CKD. This study investigated the involvement of a novel LncRNA MALAT1 in regulating lipopolysaccharide (LPS)-induced cell pyroptosis and inflammation in the human renal tubular epithelial HK-2 cells. Here, the HK-2 cells were subjected to LPS (2 μg/mL) treatment to establish cellular AKI models <i>in vitro</i>, and we validated that LPS triggered NLRP3-mediated pyroptotic cell death, promoted cell apoptosis and inflammation-associated cytokines secretion to induce HK-2 cell injury. Then, a novel LncRNA MALAT1/miRNA (miRNA)-135b-5p axis was verified to rescue cell viability in LPS treated HK-2 cells by targeting NLRP3. Mechanistically, miRNA-135b-5p bound to LncRNA MALAT1, and LncRNA MALAT1 positively regulated NLRP3 through acting as RNA sponger for miRNA-135b-5p. Further gain- and loss-of-function experiments evidenced that both LncRNA MALAT1 ablation and miRNA-135b-5p overexpression reversed LPS-induced cell pyroptosis, apoptosis, and inflammation in the HK-2 cells, and the protective effects of LncRNA MALAT1 knock-down on LPS-treated HK-2 cells were abrogated by silencing miRNA-135b-5p. In general, our study firstly investigated the role of the LncRNA MALAT1/ miRNA-135b-5p/NLRP3 signaling cascade in regulating LPS-induced inflammatory death in HK-2 cells.
DOI: 10.5281/zenodo.10577061
title: QUI TACET CONSENTIRE VIDETUR SI LOQUI DEBUISSET AC POTUISSET V. QUO TACET NEQUE NEGAT NEQUE UTIQUE FATETUR (HE WHO REMAINS SILENT IS CONSIDERED TO CONSENT, IF HE MUST AND CAN SPEAK V. HE WHO REMAINS SILENT NEITHER REJECTS NOR ACCEPTS-AFFIRMS)

description: The present work aims to analyze silence/acquiescence as a legal fact that constitutes a passive conduct and produces legal effects. The paper is divided into three parts. The first analyzes silence as a legal act in international law, translates the phenomenon of acquiescence and elaborates the relative doctrine and jurisprudence as well as the limits that this term presents. We continue with the acquisitive prescription and the silence in the formation of the treaties. It compares acquiescence in dispute resolution as well as the establishment of jurisdiction of international courts and tribunals. The waiver applies to the area of international responsibility of a State and the decision-making mechanisms within the opting-out procedure. Silence as a legal fact in stricto sensu integrates a qualified conduct to which the production of legal effects compose an institution of international law. The production of their legal effects contemplate the existence of an involuntary silence such as l'estoppel by silence and the extinguishing prescription. The jurisprudence from the ICJ and from arbitral awards is extensive and helps to better know and understand the institution of acquiescence and the importance that the silence of States has in contemporary international law.
DOI: 10.5281/zenodo.10577062
title: QUI TACET CONSENTIRE VIDETUR SI LOQUI DEBUISSET AC POTUISSET V. QUO TACET NEQUE NEGAT NEQUE UTIQUE FATETUR (HE WHO REMAINS SILENT IS CONSIDERED TO CONSENT, IF HE MUST AND CAN SPEAK V. HE WHO REMAINS SILENT NEITHER REJECTS NOR ACCEPTS-AFFIRMS)

description: The present work aims to analyze silence/acquiescence as a legal fact that constitutes a passive conduct and produces legal effects. The paper is divided into three parts. The first analyzes silence as a legal act in international law, translates the phenomenon of acquiescence and elaborates the relative doctrine and jurisprudence as well as the limits that this term presents. We continue with the acquisitive prescription and the silence in the formation of the treaties. It compares acquiescence in dispute resolution as well as the establishment of jurisdiction of international courts and tribunals. The waiver applies to the area of international responsibility of a State and the decision-making mechanisms within the opting-out procedure. Silence as a legal fact in stricto sensu integrates a qualified conduct to which the production of legal effects compose an institution of international law. The production of their legal effects contemplate the existence of an involuntary silence such as l'estoppel by silence and the extinguishing prescription. The jurisprudence from the ICJ and from arbitral awards is extensive and helps to better know and understand the institution of acquiescence and the importance that the silence of States has in contemporary international law.
DOI: 10.6084/m9.figshare.17124641
title: Additional file 1 of Identification of genes related to tipburn resistance in Chinese cabbage and preliminary exploration of its molecular mechanism

description: Additional file 1: Table S1. The data statistics of transcriptome sequencing. Table S2. Sequence alignment results between sample sequencing data and selected reference genome. Table S3. FPKM values and functional annotations of 23 genes involved in hypersensitive response, cell wall reinforcment and stomatal closure. Table S4. List of primer sequences used for qRT-PCR analysis of the tipburn related genes. Table S5. Transcriptional profile data of 7 ECA genes and 4 CAS genes in Chinese Cabbage.
DOI: 10.6084/m9.figshare.20267354
title: Additional file 3 of PtoNF-YC9-SRMT-PtoRD26 module regulates the high saline tolerance of a triploid poplar

description: Additional file 3. Table S2. The differential expression genes with NaCl treatment compared to control.
DOI: 10.5281/zenodo.10577311
title: THE INDIRECT CRITERIA FOR THE RECOGNITION AND ENFORCEMENT OF FOREIGN JUDGMENTS

description: The twenty-second diplomatic session of the Hague Conference on Private International Law closed on 2 July 2019 with the adoption of the Convention on the Recognition and Enforcement of Foreign Decisions in Civil and Commercial Matters, also known as the Judgments Convention. The present work focused on analyzing the indirect criteria that are provided for in art. 5 of the Conference of the Hague for the recognition and enforcement of judgments. This is an ambitious project that will give rise to a global enforcement regime on the circulation of judgments. The shortcomings are still many as well as the debate between civil and common law, but the time is ripe for a concrete project of broader inspiration, more political and less juridical. The method used in our work is based on comparative doctrine and jurisprudence on a global level.
DOI: 10.5281/zenodo.10577312
title: THE INDIRECT CRITERIA FOR THE RECOGNITION AND ENFORCEMENT OF FOREIGN JUDGMENTS

description: The twenty-second diplomatic session of the Hague Conference on Private International Law closed on 2 July 2019 with the adoption of the Convention on the Recognition and Enforcement of Foreign Decisions in Civil and Commercial Matters, also known as the Judgments Convention. The present work focused on analyzing the indirect criteria that are provided for in art. 5 of the Conference of the Hague for the recognition and enforcement of judgments. This is an ambitious project that will give rise to a global enforcement regime on the circulation of judgments. The shortcomings are still many as well as the debate between civil and common law, but the time is ripe for a concrete project of broader inspiration, more political and less juridical. The method used in our work is based on comparative doctrine and jurisprudence on a global level.
DOI: 10.6084/m9.figshare.16599887.v1
title: Additional file 9 of Comprehensive transcriptome and methylome analysis delineates the biological basis of hair follicle development and wool-related traits in Merino sheep

description: Additional file 9: Table S5. Motif enrichment analysis for promoters of upregulated and downregulated stage-specific genes.
DOI: 10.6084/m9.figshare.16599686
title: Additional file 4 of Genome-wide identification and characterization of bZIP transcription factors and their expression profile under abiotic stresses in Chinese pear (Pyrus bretschneideri)

description: Additional file 4: Table S4. Motif sequence in bZIP genes.
DOI: 10.6084/m9.figshare.19745483.v1
title: Additional file 1 of Identification of ISG15 and ZFP36 as novel hypoxia- and immune-related gene signatures contributing to a new perspective for the treatment of prostate cancer by bioinformatics and experimental verification

description: Additional file 1: Table S1.  High- and low-hypoxia score groups with PCa.
DOI: 10.6084/m9.figshare.19745486.v1
title: Additional file 2 of Identification of ISG15 and ZFP36 as novel hypoxia- and immune-related gene signatures contributing to a new perspective for the treatment of prostate cancer by bioinformatics and experimental verification

description: Additional file 2: Table S2. The DEGs between high- and low-hypoxia score groups.
DOI: 10.6084/m9.figshare.20267366.v1
title: Additional file 7 of PtoNF-YC9-SRMT-PtoRD26 module regulates the high saline tolerance of a triploid poplar

description: Additional file 7. Table S6. The genes used for co-expression network construct.
DOI: 10.6084/m9.figshare.16599692.v1
title: Additional file 6 of Genome-wide identification and characterization of bZIP transcription factors and their expression profile under abiotic stresses in Chinese pear (Pyrus bretschneideri)

description: Additional file 6: Table S6. List of bZIP orthologous gene pairs identified in Fragaria vesca Prunus mume and Prunus persica.
DOI: 10.6084/m9.figshare.16599695
title: Additional file 7 of Genome-wide identification and characterization of bZIP transcription factors and their expression profile under abiotic stresses in Chinese pear (Pyrus bretschneideri)

description: Additional file 7: Table S7. investigation of cis-acting elements in PbbZIP’s gene.
DOI: 10.6084/m9.figshare.17124647.v1
title: Additional file 3 of Identification of genes related to tipburn resistance in Chinese cabbage and preliminary exploration of its molecular mechanism

description: Additional file 3.
DOI: 10.6084/m9.figshare.19745498.v1
title: Additional file 6 of Identification of ISG15 and ZFP36 as novel hypoxia- and immune-related gene signatures contributing to a new perspective for the treatment of prostate cancer by bioinformatics and experimental verification

description: Additional file 6: Table S6. Two genes, ISG15 and ZFP36, selected by stepwise multivariate regression analysis.
DOI: 10.6084/m9.figshare.19745501
title: Additional file 7 of Identification of ISG15 and ZFP36 as novel hypoxia- and immune-related gene signatures contributing to a new perspective for the treatment of prostate cancer by bioinformatics and experimental verification

description: Additional file 7: Table S7.72 enriched KEGG pathways correlated with ISG15.
DOI: 10.6084/m9.figshare.19745861.v1
title: UXT attenuates the CGAS-STING1 signaling by targeting STING1 for autophagic degradation

description: STING1 (stimulator of interferon response cGAMP interactor 1), the pivotal adaptor protein of CGAS (cyclic GMP-AMP synthase)-STING1 signaling, is critical for type I IFN production of innate immunity. However, excessive or prolonged activation of STING1 is associated with autoinflammatory and autoimmune diseases. Thus, preventing STING1 from over-activation is important to maintain immune homeostasis. Here, we reported that UXT (ubiquitously expressed prefoldin like chaperone), a small chaperone-like protein, was essential to prevent the excessive activation of STING1-mediated type I IFN signaling through autophagic degradation of STING1 via SQSTM1 (sequestosome 1). Upon DNA mimics or cyclic GMP-AMP (cGAMP) stimulation, UXT specifically interacted with STING1 and promoted STING1 degradation through selective macroautophagy/autophagy. Moreover, UXT was required for more efficient autophagic degradation of STING1 by facilitating the interaction of SQSTM1 and STING1. The <i>in vivo</i> role of UXT in attenuating the CGAS-STING1 signaling was further confirmed in the mouse model of DNA-virus infection and the TMPD (2,6,10,14-tetramethylpentadecane)-induced murine lupus model. Intriguingly, the expression of UXT was consistently impaired and exhibited a remarkable inverse correlation with type I IFN signature in the leukocytes and PBMCs (peripheral blood mononuclear cells) of several large SLE (systemic lupus erythematosus) cohorts. Importantly, the replenishment of UXT effectively suppressed the production of IFNs and ISGs in the PBMCs of SLE patients. Taken together, our study reveals a novel regulatory role of UXT in autophagic degradation of STING1 to maintain immune homeostasis. UXT might be a potential therapeutic target for alleviating aberrant type I IFNs in autoimmune diseases<b>Abbreviations</b>: 3-MA: 3-methyladenine; BMDMs: bone marrow-derived macrophages; cGAMP: cyclic GMP-AMP; CGAS: cyclic gmp-amp synthase; cKO: conditional knockout; CXCL10: C-X-C motif chemokine ligand 10; GAPDH: glyceraldehyde-3-phosphate dehydrogenase; HSV-1: herpes simplex virus type 1; HTDNA: herring testes DNA; IFIT1: interferon induced protein with tetratricopeptide repeats 1; IFNA4: interferon alpha 4; IFNB: interferon beta; IRF3: interferon regulatory factor 3; ISD: interferon stimulatory DNA; ISGs: IFN-stimulated genes; MAP1LC3B/LC3B: microtubule associated protein 1 light chain 3 beta; MEFs: mouse embryonic fibroblasts; RNA-seq: RNA sequencing; PBMCs: peripheral blood mononuclear cells; RSAD2: radical S-adenosyl methionine domain containing 2; SLE: systemic lupus erythematosus; SQSTM1: sequestosome 1; STING1: stimulator of interferon response cGAMP interactor 1; TBK1: TANK binding kinase 1; TMPD: 2,6,10,14-tetramethylpentadecane; UXT: ubiquitously expressed prefoldin like chaperone.
DOI: 10.25549/usctheses-ouc113997na1
title: The role of KMT2C(MLL3) in precursor biology during early tumor development in HNSCC
DOI: 10.25549/usctheses-ouc113997l71
title: Development of higher education student affairs staff to assist U.S. military veteran college students
DOI: 10.25549/usctheses-ouc113997etv
title: Investigating the debris motion during extreme coastal events: experimental and numerical study
DOI: 10.26030/1vjp-h438
title: First transcriptome profiling of D. melanogaster after development in a deep underground low radiation background laboratory

description: Natural background radiation is a permanent multicomponent factor. It has an influence on biological organisms, but effects of its deprivation still remain unclear. The aim of our work was to study for the first time responses of D. melanogaster to conditions of the Deep Underground Low-Background Laboratory DULB-4900 (BNO, INR, RAS, Russia) at the transcriptome level by RNA-seq profiling. Overall 77 transcripts demonstrated differential abundance between flies exposed to low and natural background radiation. Enriched biological process functional categories were established for all genes with differential expression. The results showed down-regulation of primary metabolic processes and up-regulation of both the immune system process and the response to stimuli. The comparative analysis of our data and publicly available transcriptome data on D. melanogaster exposed to low and high doses of ionizing radiation did not reveal common DEGs in them. We hypothesize that the observed changes in gene expression can be explained by the influence of the underground conditions in DULB-4900, in particular, by the lack of stimuli. Thus, our study challenges the validity of the LNT model for the region of background radiation doses below a certain level (~16.4 nGy h-1) and the presence of a dose threshold for D. melanogaster.
DOI: 10.25549/usctheses-ouc113998fyn
title: Identifying neural markers of centralized pain
DOI: 10.25549/usctheses-ouc113997x8t
title: Going offshore: studies of the maritime zone in East Asia from the eleventh to the fifteenth centuries
DOI: 10.25549/usctheses-ouc113997x8m
title: Epigenetic dysregulation in acute myeloid leukemia (AML) with MLL1 aberrations
DOI: 10.15468/dl.h53798
title: Occurrence Download

description: A dataset containing 1130 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Coffea canephora Pierre ex A.Froehner)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1130 records from 97 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0108188-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/usctheses-ouc113997x5z
title: Narrativizing vegetal life: South Korea’s ecofeminist approach to community building with plants
DOI: 10.25549/usctheses-ouc113997x5x
title: Striking the balance: optimizing privacy, utility, and complexity in private machine learning