cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25195910
title: PRISMA-P checklist for dentin bone graft for socket preservation : systematic review

description: Socket preservation is a surgical procedure aimed at preserving the dimensions of the alveolar bone following tooth extraction. It is performed by filling the extraction socket with bone graft material either with or without a barrier membrane. Recently, dentine obtained from extracted teeth has been tried as an autograft for socket preservation. Studies have compared the use of dentin to other bone grafts, however, systematic reviews evaluating the efficacy of dentin for socket preservation are limited. Hence, this systematic review protocol is proposed to generate evidence on the efficacy of dentin as a viable alternative to other bone graft materials for socket preservation.
DOI: 10.25402/fsg.14798460.v1
title: Supplementary Table 4. Computational drug repositioning for ischemic stroke: Neuroprotective drug discovery

description: Supplementary Table 4
DOI: 10.6084/m9.figshare.7466291
title: Additional file 5: of The temporal expression patterns of brain transcriptome during chicken development and ageing

description: Functional categories of co-expressed genes in the top 2 modules. (XLSX 41 kb)
DOI: 10.6084/m9.figshare.24243511
title: Data for manuscript entitled "Photonic chip-based low noise microwave oscillator"

description: Data for the figures in the manuscript entitled "Photonic chip-based low noise microwave oscillator".<br>William Groman , Qing-Xin Ji , Joel Guo , Megan Kelleher , Dahyeon Lee , Takuma Nakamura , Charles McLemore , Pedram Shirmohammadi , Samin Hanifi , Haotian Cheng , Naijun Jin , LUE WU , Samuel Halladay , Yizhi Luo , Zhaowei Dai , Warren Jin , Junwu Bai , Yifan Liu , Wei Zhang , Chao Xiang , Vladimir Iltchenko , Owen Miller , Andrey Matsko , Steven Bowers , Peter Rakich , Joe C. Campbell , John Bowers , Kerry Vahala , Franklyn Quinlan , Scott Diddams
DOI: 10.6084/m9.figshare.6933935
title: Additional file 14: of Insights into the cotton anther development through association analysis of transcriptomic and small RNA sequencing

description: Table S8. Primers list in real-time qRT-PCR. (XLSX 11 kb)
DOI: 10.5517/ccdc.csd.cc2hfqwk
title: CCDC 2307109: Experimental Crystal Structure Determination

description: Related Article: Elisa Rotondo, Maxime Aragon-Alberti, Jérôme Rouquette, Jérôme Long|2024|Cryst.Growth Des.|24|1458|doi:10.1021/acs.cgd.3c01401
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.13225708
title: Additional file 1 of High prevalence of Babesia microti in small mammals in Beijing

description: Additional file 1: Sequences used in the manuscript. Table S1. Primers used in this study to amplify and to sequence the 18S rRNA gene sequences of Babesia microti. Table S2. All sequences used for phylogenetic analysis in this study.
DOI: 10.6084/m9.figshare.21325756
title: Types of occupational relatedness and branching processes across Brazilian regions

description: This article draws on a large occupational database of 2514 occupations required for 581 industries in 558 microregions and five macroregions in Brazil and shows that occupational relatedness is associated with regional occupational branching (entry of related and exit of unrelated occupations) in a developing country marked by enormous regional disparities. Three types of occupational relatedness were examined: local synergy-, complementarity- and similarity-relatedness densities. Local synergy- and complementarity-relatedness densities were most closely associated with regional branching, and were more relevant to preventing the decline of specializations than promoting the emergence of new ones. All types of relatedness were more closely associated with preventing the disappearance of occupations from the most backward regions.
DOI: 10.6084/m9.figshare.19516856
title: c-Met specific CAR-T cells as a targeted therapy for non-small cell lung cancer cell A549

description: Non-small cell lung cancer (NSCLC) is considered to be one of the most prevalent and fatal malignancies, with a poor survival rate. Chimeric antigen receptor T cell (CAR-T) cell therapy is one of the most exciting directions in the field of Cellular immunotherapy. Therefore, CAR-T cells that target c-Met have been developed for use in NSCLC therapy and might be a potential therapeutic strategy. The anti c-Met ScFv structure was fused with the transmembrane and intracellular domains. Using a lentiviral vector to load the c-Met CAR gene, then transfected the c-Met CAR lentiviral into human T cells to obtain the second generation c-Met CAR-T expressing CARs stably. In vitro co-culture, experiments revealed that CAR-T cells have high proliferative activity and the potential to secrete cytokines (IL-2, TNF-α, and IFN-γ). c-Met CAR-T cells showed special cellular cytotoxicity in LDH release assay. A subcutaneous tumor model in nude mice was used to test the anticancer effectiveness of c-Met CAR-T cells in vivo. For c-Met positive NSCLC tissue, according to tumor volume, weight, fluorescence intensity, and immunohistochemical detection, c-Met CAR-T cells had stronger tumor growth suppression compared to untransduced T cells. HE staining revealed that c-Met CAR-T cells did not produced side effects in nude mice. Taken together, we provided useful method to generate c-Met CAR- T cells, which exhibit enhanced cytotoxicity against NSCLC cells in vitro and in vivo. Thus, providing a new therapeutic avenue for treating NSCLC clinically. <b>Highlights</b>(1) c-Met CAR-T capable of stably expressing c-Met CARs were constructed.(2) c-Met CAR-T have strong anti-tumor ability and proliferation ability in vitro.(3) c-Met CAR-T can effectively inhibit the growth of A549 cells subcutaneous xenografts. (1) c-Met CAR-T capable of stably expressing c-Met CARs were constructed. (2) c-Met CAR-T have strong anti-tumor ability and proliferation ability in vitro. (3) c-Met CAR-T can effectively inhibit the growth of A549 cells subcutaneous xenografts.
DOI: 10.6084/m9.figshare.19516856.v1
title: c-Met specific CAR-T cells as a targeted therapy for non-small cell lung cancer cell A549

description: Non-small cell lung cancer (NSCLC) is considered to be one of the most prevalent and fatal malignancies, with a poor survival rate. Chimeric antigen receptor T cell (CAR-T) cell therapy is one of the most exciting directions in the field of Cellular immunotherapy. Therefore, CAR-T cells that target c-Met have been developed for use in NSCLC therapy and might be a potential therapeutic strategy. The anti c-Met ScFv structure was fused with the transmembrane and intracellular domains. Using a lentiviral vector to load the c-Met CAR gene, then transfected the c-Met CAR lentiviral into human T cells to obtain the second generation c-Met CAR-T expressing CARs stably. In vitro co-culture, experiments revealed that CAR-T cells have high proliferative activity and the potential to secrete cytokines (IL-2, TNF-α, and IFN-γ). c-Met CAR-T cells showed special cellular cytotoxicity in LDH release assay. A subcutaneous tumor model in nude mice was used to test the anticancer effectiveness of c-Met CAR-T cells in vivo. For c-Met positive NSCLC tissue, according to tumor volume, weight, fluorescence intensity, and immunohistochemical detection, c-Met CAR-T cells had stronger tumor growth suppression compared to untransduced T cells. HE staining revealed that c-Met CAR-T cells did not produced side effects in nude mice. Taken together, we provided useful method to generate c-Met CAR- T cells, which exhibit enhanced cytotoxicity against NSCLC cells in vitro and in vivo. Thus, providing a new therapeutic avenue for treating NSCLC clinically. <b>Highlights</b>(1) c-Met CAR-T capable of stably expressing c-Met CARs were constructed.(2) c-Met CAR-T have strong anti-tumor ability and proliferation ability in vitro.(3) c-Met CAR-T can effectively inhibit the growth of A549 cells subcutaneous xenografts. (1) c-Met CAR-T capable of stably expressing c-Met CARs were constructed. (2) c-Met CAR-T have strong anti-tumor ability and proliferation ability in vitro. (3) c-Met CAR-T can effectively inhibit the growth of A549 cells subcutaneous xenografts.
DOI: 10.6084/m9.figshare.6933944
title: Additional file 3: of Insights into the cotton anther development through association analysis of transcriptomic and small RNA sequencing

description: Table S2. Differentially expressed genes KEGG enriched TOP10. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.22670980
title: Tradeoffs in non-native plant herbivore defenses enhance performance

description:  To compare herbivore pressure on a wide range of non-native and native species under natural conditions, we conducted a field survey in abandoned agricultural fields at 28 sites in northern China.  We conducted a common garden experiment at Henan University, Kaifeng, China. We selected the 12 most common non-native herbaceous species in the field survey and compared herbivory on these species and 12 co-planted native congeners.  We used the same species as in the common garden to assess constitutive and induced defenses.  To quantify constitutive defenses, which can inhibit insect growth, we measured larval weight gain when fed on undamaged leaves harvested from undamaged plants.  To quantify induced defenses, we measured larval weight gain on undamaged leaves that were harvested from plants possessing other leaves previously damaged by herbivores.  We measured total phenolics and total triterpenoids in leaves harvested from undamaged and herbivore-damaged plants for same species as described above in the common garden.  To evaluate the relationship between the strength of induced defenses and plant growth, we measured the absolute growth rate for the species in the common garden.
DOI: 10.6084/m9.figshare.14798334.v1
title: Early Paleozoic tectono–magmatic evolution in the South Altun orogenic belt, northwest China: Insights from zircon U–Pb geochronology, Hf isotope and geochemistry of the granitoids

description: Precise timing of granitoids and constraints of their magma sources are critical to understanding the subduction–collision tectonic evolution of the Altun orogenic belt (AOB), a vital part of the Qinghai-Tibet plateau in northwestern China. We provide in-situ zircon U–Pb age, Hf isotopic composition and whole-rock geochemistry of the Yusupualeke granitic pluton in the South Altun orogenic belt (SAOB), an integral unit of the AOB, to determine the tectono-magmatic evolution of the SAOB at early Palaeozoic. The Yusupualeke granitic pluton comprises the medium-coarse grained porphyritic monzogranite and medium-fine grained granodiorite. The monzogranite sample yielded a weighted mean <sup>206</sup>Pb/<sup>238</sup>U age of 476.8 ± 3.6 Ma (MSWD = 0.59), while the granodiorite yielded a weighted mean <sup>206</sup>Pb/<sup>238</sup>U age of 453.2 ± 4.7 Ma (MSWD = 0.013). Zircon U–Pb ages suggest that the subduction–collision process of the SAOB remained from the middle stage of the early Palaeozoic to the end. Both of the studied granitoids belong to metaluminous to weakly peraluminous series and show typical I-type granite characteristics with depletions in Ba, Nb, Sr, P, and Ti, and enrichments in light rare earth elements (LREEs), Rb, Th, K, and slightly negative Eu anomalies. Based on the geochronological data and regional geological background, we believe that the porphyritic monzogranites were formed during the northward subduction process of the South Altun ocean (SAO), while the granodiorites were formed during the tectonic regime transition stage. Besides, combing the previous research achievements with our newly obtained data, we put forward a new division and geodynamic model of the early Palaeozoic tectono-magmatic evolution for the South Altun orogenic belt.
DOI: 10.25402/fsg.14798448.v1
title: Supplementary Table 1. Computational drug repositioning for ischemic stroke: Neuroprotective drug discovery

description: Supplementary Table 1
DOI: 10.6084/m9.figshare.21090088.v2
title: Dynamics of viral shedding during ancestral or Omicron BA.1 SARS-CoV-2 infection and enhancement of pre-existing immunity during breakthrough infections

description: Omicron variant is circulating in the presence of a globally acquired immunity unlike the ancestral SARS-CoV-2 isolate. Herein, we investigated the normalized viral load dynamics and viral culture status in 44 fully vaccinated healthcare workers (HCWs) infected with the Omicron BA.1 variant. Viral load dynamics of 38 unvaccinated HCWs infected with the 20A variant during the first pandemic wave was also studied. We then explored the impact of Omicron infection on pre-existing immunity assessing anti-RBD IgG levels, neutralizing antibody titres against 19A, Delta and Omicron isolates, as well as IFN-γ release following cell stimulation with SARS-CoV-2 peptides. We reported that two weeks after diagnosis a greater proportion of HCWs infected with 20A (78.9%, 15/19) than with Omicron BA.1 (44.7%, 17/38; p = 0.02) were still positive by RT-qPCR. We found that Omicron breakthrough infections led to an overall enhancement of vaccine-induced humoral and cellular immunity as soon as a median [interquartile range] of 8 [7–9] days post symptom onset. Among samples with similar high viral loads, non-culturable samples exhibited higher neutralizing antibody titres and anti-RBD IgG levels than culturable samples. Additionally, Omicron infection led to an enhancement of antibodies neutralization capacity against other SARS-CoV-2 isolates. Taken together, the results suggest that Omicron BA.1 vaccine breakthrough infection is associated with a faster viral clearance than that of the ancestral SARS-CoV-2, in addition this new variant leads to a rapid enhancement of the humoral response against multiple SARS-CoV-2 variants, and of the cellular response.
DOI: 10.6084/m9.figshare.13225781.v1
title: Additional file 4 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 4 : Table S4. Segmental duplication of CsWRKY among C. sativa chromosomes.
DOI: 10.6084/m9.figshare.13225775
title: Additional file 2 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 2 : Table S2. Detailed information of all identified Camelina sativa WRKY proteins.
DOI: 10.6084/m9.figshare.13225775.v1
title: Additional file 2 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 2 : Table S2. Detailed information of all identified Camelina sativa WRKY proteins.
DOI: 10.6084/m9.figshare.13225793.v1
title: Additional file 7 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 7 : Table S7. Primer pairs used for qRT-PCR analysis on the target sequences in C. sativa.
DOI: 10.6084/m9.figshare.6934379.v1
title: Additional file 1: of A metagenomic study of the gut microbiome in Behcetâ s disease

description: Supplementary Tables. (XLSX 279Â kb)
DOI: 10.6084/m9.figshare.13225712.v1
title: Additional file 1 of Performance of copy number variants detection based on whole-genome sequencing by DNBSEQ platforms

description: Additional file 1. Table S1: Whole-genome sequencing data of NA12878 based on four sequencing platforms. Table S2: Number and length statistics of all 50 CNV sets. Table S3: Regional distribution of all 50 CNV sets across the genome. Table S4: List of the complete CNV benchmark of NA12878. Table S5: CNV detection tools using whole-genome sequencing data.
DOI: 10.6084/m9.figshare.13225769.v1
title: Additional file 11 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 11 : Table S8. All accession numbers of sequences used in article.
DOI: 10.6084/m9.figshare.13225708.v1
title: Additional file 1 of High prevalence of Babesia microti in small mammals in Beijing

description: Additional file 1: Sequences used in the manuscript. Table S1. Primers used in this study to amplify and to sequence the 18S rRNA gene sequences of Babesia microti. Table S2. All sequences used for phylogenetic analysis in this study.
DOI: 10.6084/m9.figshare.13225787
title: Additional file 6 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 6 : Table S6. All gene pairs of two different genomes (C. sativa and A. thaliana, C. sativa and B. rapa).
DOI: 10.6084/m9.figshare.13225769
title: Additional file 11 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 11 : Table S8. All accession numbers of sequences used in article.
DOI: 10.6084/m9.figshare.13225781
title: Additional file 4 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 4 : Table S4. Segmental duplication of CsWRKY among C. sativa chromosomes.
DOI: 10.6084/m9.figshare.13225784.v1
title: Additional file 5 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 5 : Table S5. Tandem duplication and segmental duplication of some species.
DOI: 10.6084/m9.figshare.19517305
title: Data files.zip

description: This zip folder consists the dataset used for generating figures for our manuscript - "Sub-MHz spectral dip in a resonator-free gain medium", accepted for publication n Nature Photonics
DOI: 10.6084/m9.figshare.7458806.v1
title: Adaptive Huber Regression

description: <b>Big data can easily be contaminated by outliers or contain variables with heavy-tailed distributions, which makes many conventional methods inadequate. To address this challenge, we propose the adaptive Huber regression for robust estimation and inference. The key observation is that the robustification parameter should adapt to the sample size, dimension and moments for optimal tradeoff between bias and robustness. Our theoretical framework deals with heavy-tailed distributions with bounded</b>(1+δ)<b>th moment for any</b>δ&gt;0<b>. We establish a sharp phase transition for robust estimation of regression parameters in both low and high dimensions: when</b>δ≥1<b>, the estimator admits a sub-Gaussian-type deviation bound without sub-Gaussian assumptions on the data, while only a slower rate is available in the regime</b>0&lt;δ&lt;1<b>and the transition is smooth and optimal. In addition, we extend the methodology to allow both heavy-tailed predictors and observation noise. Simulation studies lend further support to the theory. In a genetic study of cancer cell lines that exhibit heavy-tailedness, the proposed methods are shown to be more robust and predictive. Supplementary materials for this article are available online.</b>
DOI: 10.6084/m9.figshare.13225696
title: Additional file 6 of Complete genome analysis of a virulent Vibrio scophthalmi strain VSc190401 isolated from diseased marine fish half-smooth tongue sole, Cynoglossus semilaevis

description: Additional file 6: Table S4. The gene information of genomic islands on chromosome I.
DOI: 10.6084/m9.figshare.21090088
title: Dynamics of viral shedding during ancestral or Omicron BA.1 SARS-CoV-2 infection and enhancement of pre-existing immunity during breakthrough infections

description: Omicron variant is circulating in the presence of a globally acquired immunity unlike the ancestral SARS-CoV-2 isolate. Herein, we investigated the normalized viral load dynamics and viral culture status in 44 fully vaccinated healthcare workers (HCWs) infected with the Omicron BA.1 variant. Viral load dynamics of 38 unvaccinated HCWs infected with the 20A variant during the first pandemic wave was also studied. We then explored the impact of Omicron infection on pre-existing immunity assessing anti-RBD IgG levels, neutralizing antibody titres against 19A, Delta and Omicron isolates, as well as IFN-γ release following cell stimulation with SARS-CoV-2 peptides. We reported that two weeks after diagnosis a greater proportion of HCWs infected with 20A (78.9%, 15/19) than with Omicron BA.1 (44.7%, 17/38; p = 0.02) were still positive by RT-qPCR. We found that Omicron breakthrough infections led to an overall enhancement of vaccine-induced humoral and cellular immunity as soon as a median [interquartile range] of 8 [7–9] days post symptom onset. Among samples with similar high viral loads, non-culturable samples exhibited higher neutralizing antibody titres and anti-RBD IgG levels than culturable samples. Additionally, Omicron infection led to an enhancement of antibodies neutralization capacity against other SARS-CoV-2 isolates. Taken together, the results suggest that Omicron BA.1 vaccine breakthrough infection is associated with a faster viral clearance than that of the ancestral SARS-CoV-2, in addition this new variant leads to a rapid enhancement of the humoral response against multiple SARS-CoV-2 variants, and of the cellular response.
DOI: 10.6084/m9.figshare.13225705
title: Additional file 9 of Complete genome analysis of a virulent Vibrio scophthalmi strain VSc190401 isolated from diseased marine fish half-smooth tongue sole, Cynoglossus semilaevis

description: Additional file 9: Table S7. The PHI genes annotation information.
DOI: 10.6084/m9.figshare.13225772.v1
title: Additional file 1 of Genome-wide identification and functional characterization of the Camelina sativa WRKY gene family in response to abiotic stress

description: Additional file 1 : Table S1. The number of WRKY genes in the reported species.
DOI: 10.6084/m9.figshare.22146840
title: Anastrozole-mediated modulation of mitochondrial activity by inhibition of mitochondrial permeability transition pore opening: an initial perspective

description: The mitochondrial permeability transition pore (mtPTP) plays a vital role in altering the structure and function of mitochondria. Cyclophilin D (CypD) is a mitochondrial protein that regulates mtPTP function and a known drug target for therapeutic studies involving mitochondria. While the effect of aromatase inhibition on the mtPTP has been studied previously, the effect of anastrozole on the mtPTP has not been completely elucidated. The role of anastrozole in modulating the mtPTP was evaluated by docking, molecular dynamics and network-guided studies using human CypD data. The peripheral blood mononuclear cells (PBMCs) of patients with mitochondrial disorders and healthy controls were treated with anastrozole and evaluated for mitochondrial permeability transition pore (mtPTP) function and apoptosis using a flow cytometer. Spectrophotometry was employed for estimating total ATP levels. The anastrozole–CypD complex is more stable than cyclosporin A (CsA)–CypD. Anastrozole performed better than cyclosporine in inhibiting mtPTP. Additional effects included inducing mitochondrial membrane depolarization and a reduction in mitochondrial swelling and superoxide generation, intrinsic caspase-3 activity and cellular apoptosis, along with an increase in ATP levels. Anastrozole may serve as a potential therapeutic agent for mitochondrial disorders and ameliorate the clinical phenotype by regulating the activity of mtPTP. However, further studies are required to substantiate our preliminary findings. Communicated by Ramaswamy H. Sarma