cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14213309
title: Chinese tree shrew: a permissive model for in vitro and in vivo replication of human adenovirus species B

description: Human adenovirus (HAdV) species B can cause severe acute respiratory diseases. However, the researches to combat this infection have been hampered by the lack of an animal model permissive to the virus. Here, we report <i>in vitro</i> and <i>in vivo</i> HAdV species B infections of tree shrews, the closest relative of primates. HAdV-3, -7, -14, and -55 efficiently replicated in primary cell cultures. After intranasal inoculation of tree shrews with HAdV-55, the viral replication in the oropharyngeal region remained high until day 5 post-infection and was still detected until day 12. HAdV-55 in the lung or turbinate bone tissues reached the highest levels between days 3 and 5 post-infection, which indicated viral replication in the upper and lower respiratory tracts. HAdV-55 infection caused severe interstitial pneumonia in the animal. IL-8, IL-10, IL-17A, and IFN-γ expression in the peripheral blood mononuclear cells from infected animals was up-regulated. The pre-vaccination with HAdV-55 cleared the virus faster in the respiratory tract, mitigated lung pathological changes. Finally, HAdV-55 infection was propagated among tree shrews. Our study demonstrated that the tree shrew is a permissive animal model for HAdV species B infection and may serve as a valuable platform for testing multiple anti-viral treatments.
DOI: 10.6084/m9.figshare.14213306.v1
title: An IncP-2 plasmid sublineage associated with dissemination of <i>bla</i><sub>IMP-45</sub> among carbapenem-resistant <i>Pseudomonas aeruginosa</i>

description: IMP-45, a variant of IMP-9, is one of the dominant metallo-β-lactamases (MBLs) in clinical carbapenem-resistant <i>Pseudomonas aeruginosa</i> (CRPA) isolates in China. The aim of this study was to investigate the distribution and mechanism of dissemination of <i>bla</i><sub>IMP-45</sub>. MBL genes were detected by PCR in 173 non-duplicate CRPA isolates collected from Hospital HS in Shanghai and 605 <i>P. aeruginosa</i> isolates from a multicenter surveillance of <i>bla</i><sub>IMP-45</sub> in China. In total, 17 IMP-45-producers (14 from Hospital HS and 3 from other hospitals) were identified. Molecular typing identified an outbreak of 11 IMP-45-producing ST508 CRPA in the ICU of Hospital HS. Conjugation assays and whole genome sequencing were conducted among IMP-45-producers. Genomic comparison revealed that 16 <i>bla</i><sub>IMP-45</sub>-carrying plasmids (9 from this study and 7 from GenBank) shared a similar backbone with IncP-2 <i>bla</i><sub>IMP-9</sub>-carrying plasmid pOZ176 but lacked <i>repA</i>-<i>oriV</i>-<i>parAB</i> region. <i>repA2</i> gene was presented in pOZ176, <i>bla</i><sub>IMP-45</sub>-carrying plasmids (17 from this study and 7 from GenBank) and 15 megaplasmids from GenBank. Phylogenetic analysis of <i>repA2</i> showed that most <i>bla</i><sub>IMP-45</sub>-carrying plasmids were clustered into a sublineage separate from the one containing pOZ176. This IncP-2 plasmid sublineage contributed to the dissemination of <i>bla</i><sub>IMP-45</sub> among genetically diverse <i>P. aeruginosa</i> and recruited multiple resistance genes during its evolution.
DOI: 10.6084/m9.figshare.14211323.v1
title: Additional file 4 of Transcriptomes analysis reveals novel insight into the molecular mechanisms of somatic embryogenesis in Hevea brasiliensis

description: Additional file 4: Table S1. FPKM and annotation of hormonal signal transduction related genes.
DOI: 10.6084/m9.figshare.14213304.v1
title: Trends of pulmonary fungal infections from 2013 to 2019: an AI-based real-world observational study in Guangzhou, China

description: Recently, the prevalence trend of pulmonary fungal infection (PFI) has rapidly increased. Changes in the risk factors for, distributions of underlying diseases associated with and clinical characteristics of some individual PFIs have been reported in the past decade. However, data regarding PFIs remain uncertain. This study reports the epidemiological characteristics and trends of PFIs over time in recent years. We applied an automated natural language processing (NLP) system to extract clinically relevant information from the electronic health records (EHRs) of PFI patients at the First Affiliated Hospital of Guangzhou Medical University. Then, a trend analysis was performed. From January 1, 2013, to December 31, 2019, 40,504 inpatients and 219,414 outpatients with respiratory diseases were screened, in which 1368 inpatients and 1313 outpatients with PFI were identified. These patients were from throughout the country, but most patients were from southern China. Upward trends in PFIs were observed in both hospitalized patients and outpatients (<i>P</i>&lt;0.05). The stratification by age showed that the incidence of hospitalized patients aged 14–30 years exhibited the most obvious upward trend, increasing from 9.5 per 1000 patients in 2013 to 88.3 per 1000 patients in 2019. Aspergillosis (56.69%) was the most common PFI, but notably, the incidence rates of <i>Talaromyces marneffei</i>, which used to be considered uncommon, exhibited the most rapid increases. In younger PFI patients, the incidence and trend of PFIs have increased. Infection by previously uncommon pathogens has also gradually increased. Increased attention should be paid to young PFI patients and uncommon PFI pathogen infections.
DOI: 10.6084/m9.figshare.16834724.v2
title: Cytochrome P450 2J2 inhibits the proliferation and angiogenesis of retinal vascular endothelial cells by regulating the Notch signaling pathway in a hypoxia-induced retinopathy model

description: Retinopathy of Prematurity (ROP), a type of retinal neovascularization in premature infants, has become a serious problem that drastically affects the quality of life of premature infants. ROP is associated with angiogenesis and neovascularization. Here, we aimed to explain the function and latent roles of Cytochrome P450 2J2 (CYP2J2) in hypoxia-induced retinopathy in retinal vascular endothelial cells (HRVECs). HRVECs were stimulated with hypoxia for 24 h to establish an <i>in vitro</i> retinopathy model. Cell viability and migration were evaluated using 3-(4,5-dimethyl-2-thiazolyl)-2,5-diphenyl-2-H-tetrazolium bromide (MTT) and Transwell assays, respectively. Protein and gene expression was determined by reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) and Western blot analysis. We observed that pcDNA3.1(+)-CYP2J2 promoted CYP2J2 and Jagged1 expression, while Dll4 was down-regulated in hypoxia-stimulated HRVECs. Additionally, pcDNA3.1(+)-CYP2J2 inhibited HRVEC viability, reduced PCNA expression, and inhibited the migration of HRVECs. Further, the Notch pathway was inhibited in the Hypoxia+pcDNA3.1(+)-CYP2J2 group. Opposite results were observed upon Terfenadone treatment in hypoxia induced HRVECs. Finally, our findings further verified that DAPT promotes the effects of CYP2J2 on cell viability, migration, and Notch signaling in hypoxia-induced HRVECs, while EDTA reversed the inhibitory effects of CYP2J2 on hypoxia-induced HRVECs. In conclusions, CYP2J2 was found to inhibit the viability and angiogenesis of HRVECs by inhibiting Notch signaling in a hypoxia-induced retinopathy model.
DOI: 10.6084/m9.figshare.14213306
title: An IncP-2 plasmid sublineage associated with dissemination of <i>bla</i><sub>IMP-45</sub> among carbapenem-resistant <i>Pseudomonas aeruginosa</i>

description: IMP-45, a variant of IMP-9, is one of the dominant metallo-β-lactamases (MBLs) in clinical carbapenem-resistant <i>Pseudomonas aeruginosa</i> (CRPA) isolates in China. The aim of this study was to investigate the distribution and mechanism of dissemination of <i>bla</i><sub>IMP-45</sub>. MBL genes were detected by PCR in 173 non-duplicate CRPA isolates collected from Hospital HS in Shanghai and 605 <i>P. aeruginosa</i> isolates from a multicenter surveillance of <i>bla</i><sub>IMP-45</sub> in China. In total, 17 IMP-45-producers (14 from Hospital HS and 3 from other hospitals) were identified. Molecular typing identified an outbreak of 11 IMP-45-producing ST508 CRPA in the ICU of Hospital HS. Conjugation assays and whole genome sequencing were conducted among IMP-45-producers. Genomic comparison revealed that 16 <i>bla</i><sub>IMP-45</sub>-carrying plasmids (9 from this study and 7 from GenBank) shared a similar backbone with IncP-2 <i>bla</i><sub>IMP-9</sub>-carrying plasmid pOZ176 but lacked <i>repA</i>-<i>oriV</i>-<i>parAB</i> region. <i>repA2</i> gene was presented in pOZ176, <i>bla</i><sub>IMP-45</sub>-carrying plasmids (17 from this study and 7 from GenBank) and 15 megaplasmids from GenBank. Phylogenetic analysis of <i>repA2</i> showed that most <i>bla</i><sub>IMP-45</sub>-carrying plasmids were clustered into a sublineage separate from the one containing pOZ176. This IncP-2 plasmid sublineage contributed to the dissemination of <i>bla</i><sub>IMP-45</sub> among genetically diverse <i>P. aeruginosa</i> and recruited multiple resistance genes during its evolution.
DOI: 10.6084/m9.figshare.16834751
title: Intraoperative localization of gastrointestinal tumors by magnetic tracer technique during laparoscopic‐assisted surgery (with video)

description: Laparoscopic localization of gastrointestinal tumors has long been an important objective. This study aimed to evaluate the clinical application of a magnetic tracer technique during laparoscopic-assisted surgery. Fifty-seven patients with gastrointestinal tumors, who voluntarily underwent endoscopic marking between May 2019 and May 2020, were enrolled. A magnetic ring was clamped onto tissues adjacent to the lesion and released during preoperative endoscopy. Then, another magnet ring or laparoscopic instrument was delivered to the wall of the digestive tract contralateral to the lesion and attracted, thus achieving accurate intraoperative localization. Observational evaluation included data regarding preoperative marking, intraoperative localization, operation, and safety. Fifty-six of the 57 (98.2%) patients with gastric tumors (<i>n</i> = 35), duodenal tumors (<i>n</i> = 1), and colorectal tumors (<i>n</i> = 20), successfully underwent marking, localization, and resection. The mean margins of proximal and distal resection of colorectal tumors were 106 and 78 mm, respectively. The mean (± SD) duration of endoscopic marking and laparoscopic localization for gastric/duodenal and colorectal tumors were 5.3 ± 0.3, 1.0 ± 0.1, 5.5 ± 0.4, and 1.0 ± 0.1 min, respectively. No complications occurred in 56 of the 57 patients. The magnetic tracer technique demonstrated promising potential as a localization method for gastrointestinal tumors, with superior safety, effectiveness, rapidity, and convenience.
DOI: 10.6084/m9.figshare.16834751.v1
title: Intraoperative localization of gastrointestinal tumors by magnetic tracer technique during laparoscopic‐assisted surgery (with video)

description: Laparoscopic localization of gastrointestinal tumors has long been an important objective. This study aimed to evaluate the clinical application of a magnetic tracer technique during laparoscopic-assisted surgery. Fifty-seven patients with gastrointestinal tumors, who voluntarily underwent endoscopic marking between May 2019 and May 2020, were enrolled. A magnetic ring was clamped onto tissues adjacent to the lesion and released during preoperative endoscopy. Then, another magnet ring or laparoscopic instrument was delivered to the wall of the digestive tract contralateral to the lesion and attracted, thus achieving accurate intraoperative localization. Observational evaluation included data regarding preoperative marking, intraoperative localization, operation, and safety. Fifty-six of the 57 (98.2%) patients with gastric tumors (<i>n</i> = 35), duodenal tumors (<i>n</i> = 1), and colorectal tumors (<i>n</i> = 20), successfully underwent marking, localization, and resection. The mean margins of proximal and distal resection of colorectal tumors were 106 and 78 mm, respectively. The mean (± SD) duration of endoscopic marking and laparoscopic localization for gastric/duodenal and colorectal tumors were 5.3 ± 0.3, 1.0 ± 0.1, 5.5 ± 0.4, and 1.0 ± 0.1 min, respectively. No complications occurred in 56 of the 57 patients. The magnetic tracer technique demonstrated promising potential as a localization method for gastrointestinal tumors, with superior safety, effectiveness, rapidity, and convenience.
DOI: 10.6084/m9.figshare.7397651
title: Additional file 1: of Dynamic transcriptomes of resistant and susceptible peach lines after infestation by green peach aphids (Myzus persicae SĂźlzer) reveal defence responses controlled by the Rm3 locus

description: Number of reads sequenced and mapped in each sample. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.14213304
title: Trends of pulmonary fungal infections from 2013 to 2019: an AI-based real-world observational study in Guangzhou, China

description: Recently, the prevalence trend of pulmonary fungal infection (PFI) has rapidly increased. Changes in the risk factors for, distributions of underlying diseases associated with and clinical characteristics of some individual PFIs have been reported in the past decade. However, data regarding PFIs remain uncertain. This study reports the epidemiological characteristics and trends of PFIs over time in recent years. We applied an automated natural language processing (NLP) system to extract clinically relevant information from the electronic health records (EHRs) of PFI patients at the First Affiliated Hospital of Guangzhou Medical University. Then, a trend analysis was performed. From January 1, 2013, to December 31, 2019, 40,504 inpatients and 219,414 outpatients with respiratory diseases were screened, in which 1368 inpatients and 1313 outpatients with PFI were identified. These patients were from throughout the country, but most patients were from southern China. Upward trends in PFIs were observed in both hospitalized patients and outpatients (<i>P</i>&lt;0.05). The stratification by age showed that the incidence of hospitalized patients aged 14–30 years exhibited the most obvious upward trend, increasing from 9.5 per 1000 patients in 2013 to 88.3 per 1000 patients in 2019. Aspergillosis (56.69%) was the most common PFI, but notably, the incidence rates of <i>Talaromyces marneffei</i>, which used to be considered uncommon, exhibited the most rapid increases. In younger PFI patients, the incidence and trend of PFIs have increased. Infection by previously uncommon pathogens has also gradually increased. Increased attention should be paid to young PFI patients and uncommon PFI pathogen infections.
DOI: 10.6084/m9.figshare.16834724.v1
title: Cytochrome P450 2J2 inhibits the proliferation and angiogenesis of retinal vascular endothelial cells by regulating the Notch signaling pathway in a hypoxia-induced retinopathy model

description: Retinopathy of Prematurity (ROP), a type of retinal neovascularization in premature infants, has become a serious problem that drastically affects the quality of life of premature infants. ROP is associated with angiogenesis and neovascularization. Here, we aimed to explain the function and latent roles of Cytochrome P450 2J2 (CYP2J2) in hypoxia-induced retinopathy in retinal vascular endothelial cells (HRVECs). HRVECs were stimulated with hypoxia for 24 h to establish an <i>in vitro</i> retinopathy model. Cell viability and migration were evaluated using 3-(4,5-dimethyl-2-thiazolyl)-2,5-diphenyl-2-H-tetrazolium bromide (MTT) and Transwell assays, respectively. Protein and gene expression was determined by reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) and Western blot analysis. We observed that pcDNA3.1(+)-CYP2J2 promoted CYP2J2 and Jagged1 expression, while Dll4 was down-regulated in hypoxia-stimulated HRVECs. Additionally, pcDNA3.1(+)-CYP2J2 inhibited HRVEC viability, reduced PCNA expression, and inhibited the migration of HRVECs. Further, the Notch pathway was inhibited in the Hypoxia+pcDNA3.1(+)-CYP2J2 group. Opposite results were observed upon Terfenadone treatment in hypoxia induced HRVECs. Finally, our findings further verified that DAPT promotes the effects of CYP2J2 on cell viability, migration, and Notch signaling in hypoxia-induced HRVECs, while EDTA reversed the inhibitory effects of CYP2J2 on hypoxia-induced HRVECs. In conclusions, CYP2J2 was found to inhibit the viability and angiogenesis of HRVECs by inhibiting Notch signaling in a hypoxia-induced retinopathy model.
DOI: 10.6084/m9.figshare.19980412.v1
title: Additional file 8 of Systematic analysis and expression profiles of TCP gene family in Tartary buckwheat (Fagopyrum tataricum (L.) Gaertn.) revealed the potential function of FtTCP15 and FtTCP18 in response to abiotic stress

description: Additional file 8: Supplementaryfile 8: Table S7. The primers used forqRT-PCR of FtTCPs in this study.
DOI: 10.6084/m9.figshare.14211326.v1
title: Additional file 5 of Transcriptomes analysis reveals novel insight into the molecular mechanisms of somatic embryogenesis in Hevea brasiliensis

description: Additional file 5: Table S2. FPKM and annotation of TFs and SE-related genes.
DOI: 10.6084/m9.figshare.7397603
title: Additional file 1: of miR-663a inhibits tumor growth and invasion by regulating TGF-β1 in hepatocellular carcinoma

description: The putative miR-663a binding sites. The 841 putative miRNA sites that were predicted to binding miR-663a by miRWalk, TargetScan, PITA, DIANAmT, and miRanda programs. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.7397603.v1
title: Additional file 1: of miR-663a inhibits tumor growth and invasion by regulating TGF-β1 in hepatocellular carcinoma

description: The putative miR-663a binding sites. The 841 putative miRNA sites that were predicted to binding miR-663a by miRWalk, TargetScan, PITA, DIANAmT, and miRanda programs. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.19980541.v1
title: Additional file 2 of Tolerating bad health research: the continuing scandal

description: Additional file 2. Risk of bias data for all countries in our sample.
DOI: 10.6084/m9.figshare.22601942.v1
title: Additional file 1 of Experimental research on the performance of a Novel Geo-filament anchor for an Earthen architectural site

description: Additional file 1. The original data of Figures 11 to 22. The load-displacement curves (PS) of L, H, D, R, S, and A, as shown in Figures 11 to 16. The strain distribution curve of geo-filament-grouting interface corresponding to the valid data in Table 11 are extracted respectively (L, H, D, R, S, A), as shown in Figures 17 to 22.
DOI: 10.6084/m9.figshare.22601942
title: Additional file 1 of Experimental research on the performance of a Novel Geo-filament anchor for an Earthen architectural site

description: Additional file 1. The original data of Figures 11 to 22. The load-displacement curves (PS) of L, H, D, R, S, and A, as shown in Figures 11 to 16. The strain distribution curve of geo-filament-grouting interface corresponding to the valid data in Table 11 are extracted respectively (L, H, D, R, S, A), as shown in Figures 17 to 22.
DOI: 10.6084/m9.figshare.7397687
title: Additional file 3: of Dynamic transcriptomes of resistant and susceptible peach lines after infestation by green peach aphids (Myzus persicae SĂźlzer) reveal defence responses controlled by the Rm3 locus

description: RNA-seq data for sixteen aphid feeding time points after analysis by DESeq R. (XLSX 17265 kb)
DOI: 10.4119/unibi/2761273
title: Open Source Hardware files of tacTiles/SonicChair

description: #### Supplementary Material for Building your own tacTiles

+ [CAD-Files](https://pub.uni-bielefeld.de/download/2761273/2761277) (in [Siemens Solid Edge](http://www.plm.automation.siemens.com/en_us/products/velocity/solidedge/index.shtml) format, or as [image](https://pub.uni-bielefeld.de/download/2761273/2761276)).
+ [Schematic](https://pub.uni-bielefeld.de/download/2761273/2761283) and [PCB-Layout](https://pub.uni-bielefeld.de/download/2761273/2761282) file of electronics (in [Cadsoft Eagle](http://www.cadsoft.de/) format or as images - [Schematic](https://pub.uni-bielefeld.de/download/2761273/2761280), [PCB-Layout](https://pub.uni-bielefeld.de/download/2761273/2761274)).
+ PIC18F458 Microcontroller code as [MPLAB C18 source](https://pub.uni-bielefeld.de/download/2761273/2761279) and as [compiled binary](https://pub.uni-bielefeld.de/download/2761273/2761281).
+ [Bill-of-Materials](https://pub.uni-bielefeld.de/download/2761273/2761275)
+ Dissassembled tacTiles images: [sensors for the back](https://pub.uni-bielefeld.de/download/2761273/2761278), [backside of the mat](https://pub.uni-bielefeld.de/download/2761273/2761286).
DOI: 10.6084/m9.figshare.19980541
title: Additional file 2 of Tolerating bad health research: the continuing scandal

description: Additional file 2. Risk of bias data for all countries in our sample.
DOI: 10.6084/m9.figshare.7397651.v1
title: Additional file 1: of Dynamic transcriptomes of resistant and susceptible peach lines after infestation by green peach aphids (Myzus persicae SĂźlzer) reveal defence responses controlled by the Rm3 locus

description: Number of reads sequenced and mapped in each sample. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8970515.v2
title: Early Palaeozoic arc-related gabbro-diorite suite in East Junggar, southern Central Asian Orogenic Belt: petrogenesis and tectonic implications

description: The Armantai and Kalamaili oceans were both important branches of the Palaeo-Asian Ocean between the Altai microcontinent and the Junggar juvenile crust; however, their geological evolution is not completely clear. This paper reports detailed petrological, zircon geochronological, whole-rock elemental and Sr-Nd-Pb isotopic data for a newly discovered gabbro-diorite suite (Akputo pluton) in East Junggar to constrain this issue. Quartz diorite and hornblende gabbro yield intrusion <sup>206</sup>Pb/<sup>238</sup>U ages of ca. 444–440 Ma, which indicates that mafic-intermediate magmatism occurred in the earliest Silurian. The gabbroic-dioritic rocks have tholeiite to calc-alkaline affinities and are characterised by moderately fractionated rare earth element patterns with flat heavy rare earth elements, enrichment in Rb, Ba, K, Sr, and depletion in Nb, Ta, Ti. Low initial Sr and Pb isotopic compositions and positive ε<sub>Nd</sub>(t) indicate a derivation from the isotopically depleted mantle sources. The geochemical compositions and melting calculations suggest that the gabbro-diorite suite originated from partial melting of spinel-bearing mantle sources that had been metasomatised by subduction-derived fluids and sediments. The Akputo intrusions formed in an arc setting related to the southward subduction of the Armantai Ocean. Taking the regional angular unconformity between the Ordovician sediments and Silurian volcanics into account, we further suggest that the Early to Middle Silurian was a transition period of the closure of Armantai Ocean and the initial spreading of Kalamaili Ocean.