Publications by authors named "Ruimin Li"

69 Publications

Noninvasive prediction of residual disease for advanced high-grade serous ovarian carcinoma by MRI-based radiomic-clinical nomogram.

Eur Radiol 2021 Apr 16. Epub 2021 Apr 16.

Suzhou Institute of Biomedical Engineering and Technology, Chinese Academy of Sciences, Suzhou, 215163, China.

Objectives: To develop a preoperative MRI-based radiomic-clinical nomogram for prediction of residual disease (RD) in patients with advanced high-grade serous ovarian carcinoma (HGSOC).

Methods: In total, 217 patients with advanced HGSOC were enrolled from January 2014 to June 2019 and randomly divided into a training set (n = 160) and a validation set (n = 57). Finally, 841 radiomic features were extracted from each tumor on T2-weighted imaging (T2WI) and contrast-enhanced T1-weighted imaging (CE-T1WI) sequence, respectively. We used two fusion methods, the maximal volume of interest (MV) and the maximal feature value (MF), to fuse the radiomic features of bilateral tumors, so that patients with bilateral tumors have the same kind of radiomic features as patients with unilateral tumors. The radiomic signatures were constructed by using mRMR method and LASSO classifier. Multivariable logistic regression analysis was used to develop a radiomic-clinical nomogram incorporating radiomic signature and conventional clinico-radiological features. The performance of the nomogram was evaluated on the validation set.

Results: In total, 342 tumors from 217 patients were analyzed in this study. The MF-based radiomic signature showed significantly better prediction performance than the MV-based radiomic signature (AUC = 0.744 vs. 0.650, p = 0.047). By incorporating clinico-radiological features and MF-based radiomic signature, radiomic-clinical nomogram showed favorable prediction ability with an AUC of 0.803 in the validation set, which was significantly higher than that of clinico-radiological signature and MF-based radiomic signature (AUC = 0.623, 0.744, respectively).

Conclusions: The proposed MRI-based radiomic-clinical nomogram provides a promising way to noninvasively predict the RD status.

Key Points: • MRI-based radiomic-clinical nomogram is feasible to noninvasively predict residual disease in patients with advanced HGSOC. • The radiomic signature based on MF showed significantly better prediction performance than that based on MV. • The radiomic-clinical nomogram showed a favorable prediction ability with an AUC of 0.803.
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http://dx.doi.org/10.1007/s00330-021-07902-0DOI Listing
April 2021

Comparison of Survival Between Primary Debulking Surgery Versus Neoadjuvant Chemotherapy for Ovarian Cancers in a Personalized Treatment Cohort.

Front Oncol 2020 10;10:632195. Epub 2021 Feb 10.

Department of Gynecological Oncology, Fudan University Shanghai Cancer Center, Shanghai, China.

Objective: To compare survival between primary debulking surgery (PDS) and neoadjuvant chemotherapy (NACT) for the treatment of ovarian cancer patients per our selective protocol.

Methods: Between Sep 1, 2015, and Aug 31, 2017, 161 patients were enrolled in our prospective cohort. All of the patients received preoperative clinic-radiological assessments, according to the Suidan criteria for R0 resection. Patients with a score of 0-2 received PDS. Patients with a score of ≥3 were counseled on the choices of PDS, NACT, or an optional staging laparoscopy, according to the Fagotti criteria. Clinic-pathological data were prospectively collected until May 1, 2020, and the impacts of different treatment strategies on progression-free survival (PFS) and overall survival (OS) were analyzed.

Results: 110 patients underwent PDS, and 51 patients received NACT with consequent interval debulking surgery. The R0 resection rate was 57.8%. All but one of the patients received platinum-based chemotherapy, and 105 (65.2%) patients were platinum-sensitive. Based on the univariate analysis, the PDS group exhibited prolonged PFS compared with the NACT group (P=0.029). The subgroup analysis showed that patients receiving NACT with residual disease (RD) exhibited the worst PFS (P=0.001). Based on the multivariate analysis, NACT with RD was still an independent impaired factor for PFS (P=0.04). However, NACT did not affect OS in the univariate or multivariate analyses.

Conclusion: In our prospective cohort, NACT ovarian patients exhibited inferior PFS and noninferior OS compared with PDS patients. Given our selective protocol, NACT cannot be arbitrarily denied while appropriate PDS is still a priority.
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http://dx.doi.org/10.3389/fonc.2020.632195DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7902759PMC
February 2021

Immunostimulatory siRNA with a uridine bulge leads to potent inhibition of HBV and activation of innate immunity.

Virol J 2021 02 18;18(1):37. Epub 2021 Feb 18.

Postgraduate Training Basement of Jinzhou Medicical University, Taihe Hospital, Hubei University of Medicine, Shiyan, China.

Background: Hepatitis B virus (HBV) infection is difficult to cure. HBV-specific immune tolerance plays a key role in HBV persistence, and enhancing cellular and humoral immunity will improve the control of HBV infection. The purpose of the study was to explore the anti-HBV and immunostimulatory effects of msiRNAs that introduce unpaired uridine bulges in the passenger strand.

Methods: msiRNAs targeting the HBV S and X genes were designed and named msiHBs and msiHBx, respectively. HepG2 cells were cotransfected with siRNA or msiRNA and the HBV replication-competent plasmid pHY106-wta or pHY106-X15. HepG2.215 cells were transfected with siRNA or msiRNA. The levels of HBsAg, HBeAg, and the cytokines TNF-α, IFN-α, IFN-β, IL-1α, and IL-6 in the culture supernatant was detected by ELISA. The levels of intracellular HBV RNA, nuclear HBV replication intermediates, and HBV DNA in the supernatant were measured by quantitative RT-PCR and PCR. The levels of HBV replication intermediates were detected by Southern blotting. Peripheral blood mononuclear cells were transfected with siRNA or msiRNA, and the levels of secreted cytokines IFN-α and IFN-β were detected by ELISA. The bioactivity of type I interferons in the supernatants was detected by the virus protection assay.

Results: msiHBx treatment led to a significant decrease in HBsAg (to a negative level) and HBV DNA (95.5%) in the supernatant and intrahepatocellular HBV replication intermediates (89.8%) in HepG2 cells with transient HBV replication and in HepG2.2.15 cells. There was no significant difference between msiHBx and siHBx in terms of the reduction in HBV proteins and HBV replication (P > 0.05). Compared with siHBx, msiHBx treatment of HepG2 cells transfected with the HBV replication-competent plasmid led to a significant increase in the levels of the antiviral cytokines TNF-α (3.3-fold), IFN-α (1.4-fold), and IFN-β (2.5-fold) (P < 0.01), without upregulation of the proinflammatory cytokines IL-1α and IL-6. The virus protection assay results showed msiHBx-mediated type I interferons effectively protected L929 cells against ECMV infection.

Conclusions: msiHBx could effectively inhibit HBV expression and replication and induce an antiviral innate immune response without proinflammatory activation. The dual RNAi and immunostimulatory activity of msiRNAs may play an important role in the control of HBV infection.
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http://dx.doi.org/10.1186/s12985-021-01509-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7890953PMC
February 2021

Mitochondrial genome of (Coleoptera: Chrysomeloidea: Cerambycidae) and phylogenetic analysis.

Mitochondrial DNA B Resour 2021 Jan 13;6(1):71-72. Epub 2021 Jan 13.

School of Life Sciences, Gannan Normal University, Ganzhou, China.

The red-necked longhorn beetle is a major pest of peach orchards. In this study, we sequenced and analyzed the complete mitochondrial genome (mitogenome) of . This mitogenome was 15,760 bp long and encoded 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs) and two ribosomal RNA unit genes (rRNAs). Gene order was conserved and identical to most other previously sequenced Cerambycidae. Most PCGs of have the conventional start codons ATN (six ATT, five ATG and one ATC), with the exception of (TTG). Except for three genes (, and ) end with the incomplete stop codon T-, all other PCGs terminated with the stop codon TAA or TAG. The whole mitogenome exhibited heavy AT nucleotide bias (74.3%). Phylogenetic analysis positioned in a well-supported clade within the subfamily Cerambycinae with (tribe Xystrocerini). These results support the currently accepted taxonomy and provide a better understanding of the phylogenetic analysis of the Cerambycidae.
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http://dx.doi.org/10.1080/23802359.2020.1846475DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7819112PMC
January 2021

The miR-959-962 Cluster Members Repress Toll Signaling to Regulate Antibacterial Defense during Bacterial Infection.

Int J Mol Sci 2021 Jan 17;22(2). Epub 2021 Jan 17.

Laboratory for Comparative Genomics and Bioinformatics & Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Science, Nanjing Normal University, Nanjing 210046, China.

MicroRNAs (miRNAs) are a class of ~22 nt non-coding RNA molecules in metazoans capable of down-regulating target gene expression by binding to the complementary sites in the mRNA transcripts. Many individual miRNAs are implicated in a broad range of biological pathways, but functional characterization of miRNA clusters in concert is limited. Here, we report that miR-959-962 cluster (miR-959/960/961/962) can weaken immune response to bacterial infection evidenced by the reduced expression of antimicrobial peptide () and short survival within 24 h upon infection. Each of the four miRNA members is confirmed to contribute to the reduced expression and survival rate of . Mechanically, RT-qPCR and Dual-luciferase reporter assay verify that and () mRNAs, key components of Toll pathway, can simultaneously be targeted by miR-959 and miR-960, miR-961, and miR-962, respectively. Furthermore, miR-962 can even directly target to the 3' untranslated region (UTR) of . In addition, the dynamic expression pattern analysis in wild-type flies reveals that four miRNA members play important functions in immune homeostasis restoration at the late stage of () infection. Taken together, our results identify four miRNA members from miR-959-962 cluster as novel suppressors of Toll signaling and enrich the repertoire of immune-modulating miRNA in .
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http://dx.doi.org/10.3390/ijms22020886DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7831006PMC
January 2021

Does initial experience affect consumers' intention to use autonomous vehicles? Evidence from a field experiment in Beijing.

Accid Anal Prev 2021 Jan 7;149:105778. Epub 2020 Nov 7.

Institute of Transportation Engineering, Department of Civil Engineering, Tsingh Room 304, Heshanheng Building Tsinghua University, Beijing, 100084, China.

The demonstration, showcase, and city studies of autonomous vehicles (AVs) provide valuable opportunities for the public to interact with AV. Understanding the relationship between experiencing and intention to use AV is crucial because first-hand experience shapes an individual's initial impressions on autonomous driving. This study investigated the users' intention to use AVs based on extended theory of planned behavior, which incorporated experience satisfaction and trust. The data were collected through a field experiment from 117 respondents who had experienced a SAE Level 4 autonomous minibus in China. The proposed relationships were examined using partial least squares structural equation modelling. A satisfied experience contributes to a higher degree of trust, attitude, subjective norm (SN), and perceived behavioral control (PBC). Excluding SN, results suggest that attitude, PBC, experience satisfaction, and trust, are statistically proven to affect the intention to use AV. Moreover, an examination of individual difference reflects that the impact of experience satisfaction on PBC varies distinctively in male and female group, as well as in less educated and more educated group. Findings show the theoretical contributions and practical implications on the role of initial experience of AV acceptance.
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http://dx.doi.org/10.1016/j.aap.2020.105778DOI Listing
January 2021

AML-MRC with Basophilia Mimicking CLPD Due to Abnormally Clumped Chromatin.

Indian J Hematol Blood Transfus 2020 Oct 8;36(4):781-783. Epub 2020 Jun 8.

Department of Clinical Laboratory, Affiliated Hospitsal of Engineering University of Hebei, Handan, Hebei Province China.

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http://dx.doi.org/10.1007/s12288-020-01304-wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7573024PMC
October 2020

A preoperative prediction model for predicting coexisting adnexa malignancy of patients with G1/G2 endometrioid endometrial cancer.

Gynecol Oncol 2020 11 23;159(2):402-408. Epub 2020 Aug 23.

Department of Gynecologic Oncology, Fudan University Shanghai Cancer Center, Shanghai 200032, China; Department of Oncology, Shanghai Medical College, Fudan University, Shanghai 200032, China. Electronic address:

Objective: To identify the predictors of coexisting adnexa malignancy (CAM) before surgery for patients with G1/G2 endometrioid endometrial cancer (EEC).

Methods: Patients with G1/G2 EEC who received surgery in Fudan University Shanghai Cancer Center from 1996 to 2017 were enrolled. Univariate and multivariate logistic regression were performed to identify the predictors for CAM, and the nomogram was constructed and evaluated the discrimination and calibration.

Results: Among the 1511 patients in the study cohort, 66 (4.4%) coexisted adnexa malignancy (51 metastatic and 15 synchronous primaries). In the univariate logistic regression analysis, CA125 level (>35 U/ml), histologic grades, myometrial invasion depth in magnetic resonance imaging (MRI), adnexal involvement in MRI/surgical exploration (SEP) were found to be significant predictors for CAM (P < .001, 0.047, 0.011, <0.001, respectively). The multivariate analysis demonstrated that high CA125 level (P < .001; OR: 2.945; 95%CI: 1.700-5.101), deep myometrial invasion (P = .011; OR: 2.194; 95%CI: 1.200-4.011), and suspected adnexal involvement in MRI/SEP (P < .001; OR: 11.524; 95%CI: 6.726-19.744) were independent predictors for CAM (AUC = 0.786). In 338 patients with MMR results, eighty-seven (25.7%) were detected MSI-high. There were 5.7% (5/87) patients diagnosed with CAM in the MSI-high group compared with 4.4% (11/251) in the MSS group.

Conclusions: A nomogram with pre- and intra-operative factors was constructed to predict CAM in G1/G2 EEC patients, which may help clinicians in decision-making for ovarian preservation for these patients.
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http://dx.doi.org/10.1016/j.ygyno.2020.08.017DOI Listing
November 2020

Drosophila Myc restores immune homeostasis of Imd pathway via activating miR-277 to inhibit imd/Tab2.

PLoS Genet 2020 08 18;16(8):e1008989. Epub 2020 Aug 18.

Laboratory for Comparative Genomics and Bioinformatics & Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Science, Nanjing Normal University, Nanjing, China.

Drosophila Myc (dMyc), as a broad-spectrum transcription factor, can regulate the expression of a large number of genes to control diverse cellular processes, such as cell cycle progression, cell growth, proliferation and apoptosis. However, it remains largely unknown about whether dMyc can be involved in Drosophila innate immune response. Here, we have identified dMyc to be a negative regulator of Drosophila Imd pathway via the loss- and gain-of-function screening. We demonstrate that dMyc inhibits Drosophila Imd immune response via directly activating miR-277 transcription, which further inhibit the expression of imd and Tab2-Ra/b. Importantly, dMyc can improve the survival of flies upon infection, suggesting inhibiting Drosophila Imd pathway by dMyc is vital to restore immune homeostasis that is essential for survival. Taken together, our study not only reports a new dMyc-miR-277-imd/Tab2 axis involved in the negative regulation of Drosophila Imd pathway, and provides a new insight into the complex regulatory mechanism of Drosophila innate immune homeostasis maintenance.
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http://dx.doi.org/10.1371/journal.pgen.1008989DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7455005PMC
August 2020

Real-time traffic accidents post-impact prediction: Based on crowdsourcing data.

Accid Anal Prev 2020 Sep 21;145:105696. Epub 2020 Jul 21.

Department of Civil Engineering, Tsinghua University, Beijing 100084, China. Electronic address:

Traffic accident management is a critical issue for advanced intelligent traffic management. The increasingly abundant crowdsourcing data and floating car data provide new support for improving traffic accident management. This paper investigates the methods to predict the complicated behavior of traffic flow evolution after traffic accidents using crowdsourcing data. Based on the available data source, the traffic condition is divided into four levels by congestion delay index: severely congested, congested, slow moving and uncongested. Four types of accidents are consequently defined based on the occurrence of each level. A hierarchical scheme is designed for identifying the most congested level and sequentially predicting duration of each level. The proposed model is validated using traffic accident data in 2017 from an anonymous source in Beijing, China by embedding three machine learning algorithms, random forest (RF), support vector machine (SVM) and neural network (NN), in the scheme. The results show NN outperforms the other two models when the assessment is conducted in absolute differences. Meanwhile, RF has a slightly better performance than SVM, especially when predicting the short-period congestion of severely congested level at the first time. By continuously updating the traffic condition information, significant improvement in accuracy can be acquired regardless of the exact model used. This study shows that emerging crowdsourcing data can be used in a real-time analysis of traffic accidents and the proposed model is effective to analyze such data.
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http://dx.doi.org/10.1016/j.aap.2020.105696DOI Listing
September 2020

Effects of the penalty mechanism against traffic violations in China: A joint frailty model of recurrent violations and a terminal accident.

Accid Anal Prev 2020 Apr 22;141:105547. Epub 2020 Apr 22.

Department of Civil Engineering, Tsinghua University, Beijing, 100084, China. Electronic address:

A penalty mechanism is usually considered as a powerful means to reduce the probability of traffic violations and accidents by encouraging drivers to comply with traffic regulations. Penalty point and fine strategies are often used in parallel. Different degrees of penalty points and/or fines are imposed according to the specific violation behavior of drivers. However, the question of whether each penalty produces positive effects in maintaining a driver's compliance with traffic regulations and promoting the driver's traffic safety is still unanswered. This study focuses on quantifying the effects of penalty point and fine strategies on violation recurrences and accident occurrences of drivers. A frailty survival analysis method is conducted to jointly model the occurrence of violation and accident events of each individual. The frailty term in the model is leveraged to address the unobserved heterogeneity among drivers. Personal characteristics and penalty status are also incorporated as covariates in the model. Actual violation and accident data from a province in China are utilized to calibrate the model. The results show that penalty point strategy exhibits deterrent and binding effects; however, penalty fine strategy does not show the expected effects. The number of years of driving is also a significant factor that influences violation recurrence and accident occurrence. The present study provides insightful information for improving violation penalty mechanisms.
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http://dx.doi.org/10.1016/j.aap.2020.105547DOI Listing
April 2020

Radiographic Features of Metastatic Brain Tumors from ALK-rearranged Non-small Cell Lung Cancer: Implications for Optimal Treatment Modalities.

J Cancer 2019 22;10(26):6660-6665. Epub 2019 Oct 22.

Department of Radiation Oncology, Fudan University Shanghai Cancer Center, Shanghai, China.

To investigate the radiological features on magnetic resonance imaging (MRI) of brain metastases (BM) from -rearranged non-small cell lung cancer (NSCLC). We retrospectively evaluated data from 40 eligible patients with -rearranged NSCLC. Radiographic features of metastatic brain tumors, including the number, size, location, and peritumoral brain edema size (PBES), were delineated using MRI. 13 patients had metachronous BM (MBM), having developed BM at least 6 months after diagnosis with NSCLC. The remaining patients were categorized as having synchronous BM (SBM). Compared with patients in the SBM group, patients in the MBM group were found to have more favorable values for radiological features including BM number, BM size, and PBES. Ten (76.9%) of the 13 patients with MBM had ≤3 lesions and were asymptomatic, and none had developed a diffuse BM pattern, supporting the adoption of stereotactic radiosurgery (SRS) in the majority of these patients and against the administration of prophylactic cranial irradiation (PCI). Conversely, among the 27 patients with SBM, 15 (55.6%) patients had >3 lesions and 12 (44.4%) patients were symptomatic, highlighting the necessity of rapidly administrating brain radiotherapy, either as SRS or whole brain radiotherapy (WBRT). Importantly, only two patients (5.0%) had metastases in the hippocampus and peri-hippocampus region, and both were in the SBM group, indicating the feasibility of hippocampal avoidance WBRT in -rearranged NSCLC. Both WBRT and SRS are appropriate for the treatment of BM in patients with -rearranged NSCLC. The incidence of BM in the hippocampus and peri-hippocampus region is low in our radiological data. Nearly 80% of patients with metachronous BM have oligo-metastatic lesions, indicating that SRS is the preferred therapy while PCI is not indicated.
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http://dx.doi.org/10.7150/jca.30091DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6856904PMC
October 2019

VqbZIP1 isolated from Chinese wild Vitis quinquangularis is involved in the ABA signaling pathway and regulates stilbene synthesis.

Plant Sci 2019 Oct 26;287:110202. Epub 2019 Jul 26.

College of Horticulture, Northwest A & F University, Yangling, 712100 Shaanxi, China; Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi 712100, China; State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi, China. Electronic address:

Resveratrol is an important phytoalexin in grapevine. Not only does it confer increased disease resistance and but as a food component it offers significant benefits in human health. Abscisic acid (ABA) is an important phytohormone involved in many biological processes in plants and can also promote the accumulation of stilbenes. Stilbene synthase (STS) is an important enzyme which catalyzes the last step of resveratrol synthesis. Our study characterizes a basic leucine zipper (bZIP) transcription factor, VqbZIP1, isolated from Chinese wild Vitis quinquangularis accession Danfeng-2. The results show that VqbZIP1 encodes 299 amino acids and belongs to the Group A subfamily of the bZIP family. VqbZIP1 showed transcriptional activation activity in yeast and is predicted to be located in the nucleus. The yeast two-hybrid assay and bimolecular fluorescence complementation (BiFC) assay together show that VqbZIP1 interacts with VqSnRK2.4 and VqSnRK2.6. VqbZIP1, the STS genes, VqSnRK2.4 and VqSnRK2.6 can all be induced by ABA treatment. A GUS activity experiment indicates VqbZIP1 can activate the GUS reporter gene driven by STS promoters. Further studies show that co-expression of VqbZIP1 with VqSnRK2.4 or VqSnRK2.6 can confer higher efficiency than expression of VqbZIP1 alone in activating the STS promoters. Overexpression of VqbZIP1 in grape leaves promoted the transcript level of the STS genes and the accumulation of stilbenes. Overexpression of VqbZIP1 in Arabidopsis thaliana can confer ABA sensitivity. In summary, our results suggest VqbZIP1 participates in the ABA signaling pathway and regulates stilbene synthesis.
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http://dx.doi.org/10.1016/j.plantsci.2019.110202DOI Listing
October 2019

Differentiation of Gastric Schwannoma From Gastric Gastrointestinal Stromal Tumor With Dual-Phase Contrast-Enhanced Computed Tomography.

J Comput Assist Tomogr 2019 Sep/Oct;43(5):741-746

From the Department of Radiology, Fudan University Shanghai Cancer Center.

Objective: To identify the computed tomographic features to differentiate gastric schwannoma from gastric gastrointestinal stromal tumor.

Methods: Computed tomographic images of 103 pathologically confirmed patients with gastric schwannoma (n = 23) or gastric gastrointestinal stromal tumor (n = 80) were retrospectively studied. Sex, morphology, location, border, growth pattern, enhancement pattern, necrosis, calcification, ulceration, and perigastric lymph nodes were analyzed. Age, short diameter, long diameter, and the degree of enhancement were measured. Statistical analyses were performed, and receiver operating characteristic curve, sensitivity, and specificity values were analyzed.

Results: Female, age younger than 57.5 years, round or ovoid morphology, extraluminal growth, homogeneous enhancement, lack of necrosis, presence of perigastric lymph nodes, and an enhancement degree of less than 15.4 Hounsfield units in the arterial phase were significant variables for differentiating gastric schwannoma from gastric gastrointestinal stromal tumor (P < 0.05).

Conclusions: Dual-phase contrast-enhanced computed tomography can help to differentiate gastric schwannoma from gastric gastrointestinal stromal tumor.
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http://dx.doi.org/10.1097/RCT.0000000000000902DOI Listing
October 2019

Increased IFN-γ-producing Th17/Th1 cells and their association with lung function and current smoking status in patients with chronic obstructive pulmonary disease.

BMC Pulm Med 2019 Jul 26;19(1):137. Epub 2019 Jul 26.

Department of Respiratory Medicine, Beijing Tongren Hospital, Capital Medical University, Beijing, China.

Background: Th17 cells are believed to be important proinflammatory cells in the pathogenesis of chronic obstructive pulmonary disease (COPD). Recent evidence demonstrates that Th17 cells display substantial developmental plasticity, giving rise to Th17/Th1 cells that secret both IL-17 and IFN-γ and are more pathogenic in inflammatory diseases. The aim of this study was to examine the distribution of circulating Th17/Th1 subpopulation and its association with disease severity in patients with COPD.

Methods: Blood samples were obtained from 21 never-smokers, 31 smokers with normal lung function and 83 patients with COPD. The frequencies of Th17 cells and the Th17/Th1 subset were measured using flow cytometry. Plasma concentrations of IL-6, transforming growth factor (TGF)-β1 and IL-12 were determined by ELISA. The associations of Th17/Th1 cells with lung function and smoking were evaluated.

Results: In peripheral blood, significantly increased proportions of Th17/Th1 cells among CD4 cells and Th17 cells were found in COPD patients compared with never-smokers and smokers with normal lung function. The percentages of Th17/Th1 cells showed correlations with forced expiratory volume in 1 (FEV) % predicted value (r = - 0.244, p < 0.05), and higher proportions of Th17/Th1 cells in GOLD stage IV patients compared with stage I patients. The percentages of Th17/Th1 cells were significantly higher in current smokers compared with ex-smoker COPD patients, and positively correlated with pack-years of smoking (r = 0.352, p < 0.01). The plasma concentrations of IL-6, TGF-β1 and IL-12 were significantly increased in patients with COPD compared with never-smokers and smokers with normal lung function.

Conclusion: Our results revealed correlations of proportions of IFN-γ-producing Th17/Th1 cells with lung function and smoking, suggesting that increased Th17/Th1 cells may play a role in COPD progression.
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http://dx.doi.org/10.1186/s12890-019-0899-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6660926PMC
July 2019

VpSTS29/STS2 enhances fungal tolerance in grapevine through a positive feedback loop.

Plant Cell Environ 2019 11 16;42(11):2979-2998. Epub 2019 Jul 16.

College of Horticulture, Northwest A&F University, Yangling, People's Republic of China.

Accumulation of stilbene phytoalexins stimulates resistance mechanisms against the grapevine fungus Uncinula necator. However, the defensive mechanisms triggered by stilbene synthase (STS) genes, remain largely unknown. Here, we report the function and molecular mechanism of the stilbene synthase gene VpSTS29/STS2 from Vitis pseudoreticulata in the regulation of plant responses to powdery mildew. Stilbene synthesis occurred mainly in root tips and mesophyll cells of transgenic grapevines via transport through the vascular bundles. Overexpression of VpSTS29/STS2 in Vitis vinifera increased the abundance of STSs in mesophyll tissue and resulted in the accumulation of biologically active resveratrol derivatives at the invasion site. Similarly, expression of VpSTS29/STS2 in Arabidopsis increased resistance to Golovinomyces cichoracearum. The VpSTS29/STS2-expressing Arabidopsis lines showed increased piceid accumulation together with more local hypersensitive reactions, inhibition of mycelial growth, and a reduced incidence of pathogens. Transcriptome profiling analyses demonstrated that VpSTS29/STS2-induced defences led to reprograming of global gene expression and activation of salicylic acid (SA) signalling, thus increasing expression of WRKY-MYB transcription factors and other defence response genes. We propose a model for resveratrol-mediated coordination of defence responses in which SA participates in a positive feedback loop.
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http://dx.doi.org/10.1111/pce.13600DOI Listing
November 2019

Correlation between MDSC and Immune Tolerance in Transplantation: Cytokines, Pathways and Cell-cell Interaction.

Curr Gene Ther 2019 ;19(2):81-92

Department of Urology, ZhongShan Hospital, Fudan University, Shanghai, China.

MDSCs play an important role in the induction of immune tolerance. Cytokines and chemokines (GM-CSF, IL-6) contributed to the expansion, accumulation of MDSCs, and MDSCs function through iNOS, arginase and PD-L1. MDSCs are recruited and regulated through JAK/STAT, mTOR and Raf/MEK/ERK signaling pathways. MDSCs' immunosuppressive functions were realized through Tregs-mediated pathways and their direct suppression of immune cells. All of the above contribute to the MDSC-related immune tolerance in transplantation. MDSCs have huge potential in prolonging graft survival and reducing rejection through different ways and many other factors worthy to be further investigated are also introduced.
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http://dx.doi.org/10.2174/1566523219666190618093707DOI Listing
July 2020

Pyrolysis preparation of poly-γ-glutamic acid derived amorphous carbon nitride for supporting Ag and γ-FeO nanocomposites with catalytic and antibacterial activity.

Mater Sci Eng C Mater Biol Appl 2019 Aug 26;101:138-147. Epub 2019 Mar 26.

Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, Guangdong 510070, People's Republic of China. Electronic address:

Nanocomposites composed of Ag and γ-FeO nanoparticles within poly-γ-glutamic acid (γ-PGA) derived amorphous carbon nitride (a-CN) films (Ag + γ-FeO@a-CN) were synthesized by a one-step facile pyrolysis strategy. Transmission electron microscopy analysis shows that Ag and γ-FeO nanoparticles were obtained in situ and homogeneously dispersed on the a-CN matrix. The average size of nanoparticles was 8.1 nm. The presence of γ-FeO, Ag, and a-CN in the nanocomposite was confirmed by X-ray diffraction analysis, UV-visible absorption spectroscopy, Raman spectroscopy, and X-ray photoelectron spectroscopy. Ag + γ-FeO@a-CN catalyzed the degradation of methyl orange. This catalyst was also recycled ten times by magnetic separation without any loss in efficiency. Ag + γ-FeO@a-CN exhibited strong antibacterial activity against E. coli and S. aureus. It also exhibited excellent antibacterial activity even after 20 times magnetic recycling. This indicates that this is a promising recyclable antibacterial and catalyst for environmental applications.
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http://dx.doi.org/10.1016/j.msec.2019.03.096DOI Listing
August 2019

Dynamic Cytosine DNA Methylation Patterns Associated with mRNA and siRNA Expression Profiles in Alternate Bearing Apple Trees.

J Agric Food Chem 2019 May 30;67(18):5250-5264. Epub 2019 Apr 30.

College of Horticulture , Northwest A&F University , Yangling 712100 , Shaanxi , China.

Cytosine DNA methylation plays an important role in plants: it can mediate gene expression to affect plant growth and development. However, little is known about the potential involvement of cytosine DNA methylation in apple trees as well as in response to alternate bearing. Here, we performed whole-genome bisulfate sequencing to investigate genomic CG, CHG, and CHH methylation patterns, together with their global mRNA accumulation and small RNA expression in "Fuji" apple trees. Results showed that "Fuji" apple trees have a higher CHH methylation than Arabidopsis. Moreover, genomic methylation analysis revealed that CG and CHG methylation were robustly maintained at the early stage of flower induction. Additionally, differentially methylated regions (DMRs), including hypermethylated and hypomethylated DMRs, were also characterized in alternate bearing (AB) apple trees. Intriguingly, the DMRs were enriched in hormones, redox state, and starch and sucrose metabolism, which affected flowering. Further global gene expression evaluation based on methylome analysis revealed a negative correlation between gene body methylation and gene expression. Subsequent small RNA analyses showed that 24-nucleotide small interfering RNAs were activated and maintained in non-CG methylated apple trees. Our whole-genome DNA methylation analysis and RNA and small RNA expression profile construction provide valuable information for future studies.
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http://dx.doi.org/10.1021/acs.jafc.9b00871DOI Listing
May 2019

Automated Fine Motor Evaluation for Developmental Coordination Disorder.

IEEE Trans Neural Syst Rehabil Eng 2019 05 16;27(5):963-973. Epub 2019 Apr 16.

Developmental coordination disorder (DCD) is a type of motor learning difficulty that affects five to six percent of school-aged children, which may have a negative impact on the life of the sufferers. Timely and objective diagnosis of DCD are important for the success of the intervention. The present evaluation methods of DCD rely heavily on the observational analysis of occupational therapists and physiotherapists, who score the performance when children conduct some designed tasks. However, these methods are expensive, subjective, and are not easy to expand to a larger population. A fine motor evaluation system (FMES) is proposed with two views of cameras to record children's performance, when they carry out three fine motor tasks. Automated algorithms are developed to perform automated scoring of fine motor skill. The automated algorithms include task localization and individual task evaluation. The purpose of task localization is to detect each task and extract segments belonging to each task from the original video that includes multiple segments of different tasks. A convolutional neural network with temporal filtering is used to do frame-wise classification, and a boundary localization algorithm is proposed to localize each task segment. For individual task evaluation, the extracted video segments of task 1 and task 2 are evaluated based on the proposed feature extraction and time positioning algorithm, and the paper drawings of task 3 are evaluated based on image processing. The proposed methods are validated on a diverse population of children with or without DCD by comparing automated scoring with manual scoring from a professional evaluator. The experimental results suggest that the proposed methods can effectively achieve fine motor evaluation for DCD assessment. Besides, our system is a low-cost solution, and the evaluation methods developed are automated, objective, and can be suited for large population evaluation and analysis.
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http://dx.doi.org/10.1109/TNSRE.2019.2911303DOI Listing
May 2019

The miR-317 functions as a negative regulator of Toll immune response and influences Drosophila survival.

Dev Comp Immunol 2019 06 29;95:19-27. Epub 2019 Jan 29.

Laboratory for Comparative Genomics and Bioinformatics & Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Science, Nanjing Normal University, Nanjing, 210046, China. Electronic address:

The miR-317 has been revealed to involve in the reproductive response and the larval ovary morphogenesis of Drosophila. However, whether the miR-317 can also regulate Drosophila innate immune responses, which remains unclear to date. Here we have verified that miR-317 can directly target the 3'UTR of Dif-Rc to down-regulate the expression levels of AMP Drs to negatively control Drosophila Toll immune response in vivo and vitro. Specially, the Dif is an important transcription factor of Toll pathway with four transcripts (Dif-Ra, Dif-Rb, Dif-Rc and Dif-Rd). Our results show that miR-317 only targets to Dif-Rc, but not Dif-Ra/b/d, implying that miRNAs can regulate different isoforms of an alternative splicing gene to fine tune immune responses and maintain homeostasis in post-transcriptional level. Furthermore, we have demonstrated that the miR-317 sponge can restore the expression levels of Drs and Dif-Rc at mRNA and protein levels. Remarkably, during Gram-positive bacterial infection, the overexpressed miR-317 flies have poor survival outcome, whereas the knockout miR-317 flies have favorable survival compared to the control group, respectively, suggesting that the miR-317 might play a key role in Drosophila survival. Taken together, our current works not only reveal an innate immune function and a novel regulation pattern of miR-317, but also provide a new insight into the underlying molecular mechanisms of immunity disorder influencing on Drosophila survival.
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http://dx.doi.org/10.1016/j.dci.2019.01.012DOI Listing
June 2019

lncRNA WT1-AS inhibits the aggressiveness of cervical cancer cell via regulating p53 expression via sponging miR-330-5p.

Cancer Manag Res 2019 11;11:651-667. Epub 2019 Jan 11.

Department of Gynecology, Jiaozuo Maternal and Child Care Service Center, Jiaozuo, Henan Province, China.

Background: Emerging evidences have demonstrated that lncRNAs play vital roles in various pathological processes, including cancer. The lncRNA WT1 antisense RNA (WT1-AS) serves as a tumor suppressor in various cancers. Nevertheless, the expression and precise function of WT1-AS in cervical carcinoma still remain not yet investigated. The objective of our study was to explore the expression of WT1-AS and its biological roles in cervical cancer.

Methods: Differences in the lncRNA expression profiles between cervical cancer and adjacent normal tissues were assessed by lncRNA expression microarray analysis. The expression of p53 in cervical cancer cell was assessed by qRT-PCR and immunofluorescence assay. Loss-of-function studies were used to explore the effect of lncRNA WT1-AS on the growth and metastasis of cervical cancer cell in vitro and in vivo.

Results: Our results demonstrated that WT1-AS was remarkably down-regulated in cervical carcinoma. Functional assays proved that up-regulation of WT1-AS significantly suppressed cervical cancer cell proliferation, migration and invasion. In addition, the luciferase reporter assay identified that miR-330-5p was the target of WT1-AS. Moreover, tumor suppressor p53 was identified as the direct target of miR-330-5p and alternation of miR-330-5p/p53 axis reversed the effects of WT1-AS in cervical cancer cell.

Conclusion: Altogether, our findings suggested that WT1-AS was down-regulated in cervical carcinoma and WT1-AS suppressed cervical carcinoma cell- proliferation, migration and invasion through regulating the miR-330-5p/p53 axis.
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http://dx.doi.org/10.2147/CMAR.S176525DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6331070PMC
January 2019

Intensifying sulforaphane formation in broccoli sprouts by using other cruciferous sprouts additions.

Food Sci Biotechnol 2018 Aug 4;27(4):957-962. Epub 2018 Apr 4.

2Beijing Laboratory for Food Quality and Safety, Beijing Technology and Business University, Beijing, 100048 People's Republic of China.

Sulforaphane is a significant chemopreventive compound which is the predominant glucosinolate in broccoli sprouts. However, the existence of the epithiospecifier protein could direct the hydrolysis of glucosinolates toward sulforaphane nitrile formation instead of sulforaphane. Therefore, the study aimed on improving the yielding of sulforaphane in broccoli sprouts with a new method of the united hydrolysis of cruciferous sprouts. According to the results, the addition of radish, rocket and rape sprouts to broccoli sprouts could promote the hydrolysis of the glucoraphanin to anticancer effective sulforaphane to 2.03, 2.32 and 1.95-fold, respectively, compared to single broccoli sprouts. Meanwhile, the formation of non-bioactive sulforaphane nitrile in these three groups decreased greatly. However, the addition of mustard sprouts had no positive effect. These observations could make a contribution to the potential chemoprotective effects of broccoli sprouts.
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http://dx.doi.org/10.1007/s10068-018-0347-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6085252PMC
August 2018

Dme-Hsa Disease Database (DHDD): Conserved Human Disease-Related miRNA and Their Targeting Genes in .

Int J Mol Sci 2018 Sep 6;19(9). Epub 2018 Sep 6.

Laboratory for Comparative Genomics and Bioinformatics & Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Science, Nanjing Normal University, Nanjing 210046, Jiangsu, China.

Abnormal expressions of microRNA (miRNA) can result in human diseases such as cancer and neurodegenerative diseases. MiRNA mainly exert their biological functions via repressing the expression of their target genes. () is an ideal model for studying the molecular mechanisms behind biological phenotypes, including human diseases. In this study, we collected human and miRNA as well as known human disease-related genes. In total, we identified 136 human disease-related miRNA that are orthologous to 83 miRNA by mapping "seed sequence", and 677 human disease-related genes that are orthologous to 734 genes using the DRSC Integrative Ortholog Prediction Tool Furthermore, we revealed the target relationship between genes and miRNA using miRTarBase database and target prediction software, including miRanda and TargetScan. In addition, we visualized interaction networks and signalling pathways for these filtered miRNA and target genes. Finally, we compiled all the above data and information to generate a database designated DHDD This is the first comprehensive collection of human disease-related miRNA and their targeting genes conserved in a database. The DHDD provides a resource for easily searching human disease-related miRNA and their disease-related target genes as well as their orthologs in , and conveniently identifying the regulatory relationships among them in the form of a visual network.
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http://dx.doi.org/10.3390/ijms19092642DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6163619PMC
September 2018

Hydrogen bonding impact on chitosan plasticization.

Carbohydr Polym 2018 Nov 19;200:115-121. Epub 2018 Jul 19.

State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangzhou, 510070, China. Electronic address:

The use of chitosan natural polymers to replace synthetic polymers is of interest as part of the green materials movement. However, a major challenge of using chitosan material is its rigid and brittle nature associated primarily with its intra- and inter-molecular hydrogen bonds creating a hydrogen bond network. Plasticizers are able to make chitosan flexible, hypothetically by destroying its hydrogen bond networks. Herein, we showed the importance and complicated nature of the chitosan's hydrogen bond network with respect to its flexibility, through a comparative study of glycerol and ionic liquids plasticizers. The results demonstrated that glycerol's hydrogen bonding was able to disrupt the chitosan's hydrogen bond network resulting in a flexible film, but ionic liquids, even with their very strong hydrogen bonding, were not able to plasticize chitosan. This result suggested that the plasticization phenomenon was more complicated than hydrogen bond disruption. A molecular level study by quantum chemistry calculation showed that the efficiency of glycerol as chitosan plasticizer was due to its single hydrogen bonding site, which breaks down the chitosan hydrogen bonding networks, and leave hydrophobic C-H ending groups to limit the formation of inter molecular hydrogen bonds.
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http://dx.doi.org/10.1016/j.carbpol.2018.07.062DOI Listing
November 2018

3D convolutional neural network for differentiating pre-invasive lesions from invasive adenocarcinomas appearing as ground-glass nodules with diameters ≤3 cm using HRCT.

Quant Imaging Med Surg 2018 Jun;8(5):491-499

Department of Radiology, Fudan University Shanghai Cancer Center, Shanghai 200032, China.

Background: Identification of pre-invasive lesions (PILs) and invasive adenocarcinomas (IACs) can facilitate treatment selection. This study aimed to develop an automatic classification framework based on a 3D convolutional neural network (CNN) to distinguish different types of lung cancer using computed tomography (CT) data.

Methods: The CT data of 1,545 patients suffering from pre-invasive or invasive lung cancer were collected from Fudan University Shanghai Cancer Center. All of the data were preprocessed through lung mask extraction and 3D reconstruction to adapt to different imaging scanners or protocols. The general flow for the classification framework consisted of nodule detection and cancer classification. The performance of our classification algorithm was evaluated using a receiver operating characteristic (ROC) analysis, with diagnostic results from three experienced radiologists.

Results: The sensitivity, specificity, accuracy, and AUC (area under the ROC curve) values of our proposed automatic classification method were 88.5%, 80.1%, 84.0%, and 89.2%, respectively. The results of the CNN classification method were compared to those of three experienced radiologists. The AUC value of our method (AUC =0.892) was higher than those of all radiologists (radiologist 1: 80.5%; radiologist 2: 83.9%; and radiologist 3: 86.7%).

Conclusions: The 3D CNN-based classification algorithm is a promising tool for the diagnosis of pre-invasive and invasive lung cancer and for the treatment choice decision.
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http://dx.doi.org/10.21037/qims.2018.06.03DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6037956PMC
June 2018

Evidence for excessive osteoclast activation in SIRT6 null mice.

Sci Rep 2018 Jul 20;8(1):10992. Epub 2018 Jul 20.

State Key Laboratory of Oral Diseases, National Clinical Research Center for Oral Diseases, West China Hospital of Stomatology, Sichuan University, Chengdu, China.

SIRT6 is a NAD-dependent histone 3 deacetylase. SIRT6 null mice have been reported suffering osteopenia. However, the role of SIRT6 in bone resorption is still not well understood. In this study, we focused on the role of SIRT6 in osteoclast. We performed histological analysis on the femur, spine, alveolar bone and even tail of mutant mice, and found the bone mass is sharply decreased while the osteoclast activity is significantly increased. These phenotypes were further demonstrated by the osteoclast differentiation in cell-cultures with TRAP staining and Pit Resorption Assay. We next found the proliferation activity of mutant osteoclast precursors was increased, which might account for the enhanced osteoclast formation. The concentration of tartrate-resistant acid phosphatase 5b, a marker of osteoclast differentiation, was significantly higher in the mutant mice than control. Besides, the osteoclastogenic and NF-κB signaling related genes were significantly up-regulated. Moreover, osteoblast/osteoclast co-culture demonstrated that SIRT6 regulated osteoclast mainly through osteoblast paracrine manner, rather than osteoclast-autonomous behavior. Together, the enhanced osteoclast activation in SIRT6 null mice might be regulated by the hyperactive NF-κB signaling and the enhanced proliferation activity of osteoclast precursors through osteoblast paracrine manner at the cellular level.
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http://dx.doi.org/10.1038/s41598-018-28716-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6054613PMC
July 2018

Bioimaging Application and Growth-Promoting Behavior of Carbon Dots from Pollen on Hydroponically Cultivated Rome Lettuce.

ACS Omega 2017 Jul 26;2(7):3958-3965. Epub 2017 Jul 26.

Guangdong Provincial Engineering Technology Research Center for Optical Agriculture, College of Materials and Energy, College of Horticulture, South China Agricultural University, Guangzhou 510642, P.R. China.

Carbon dots (CDs) obtained from rapeseed pollen with a high production yield, good biocompatibility, good water solubility, low cost, and simple synthesis are systematically characterized. They can be directly added to Hoagland nutrient solution for planting hydroponically cultivated L. to explore their influence on the plants at different concentrations. By measuring lettuce indices of growth, morphology, nutrition quality, gas exchange, and content of photosynthetic pigment, amazing growth-promotion effects of CDs were discovered, and the mechanism was analyzed. Moreover, the in vivo transport route of CDs in lettuce was evaluated by macroscopic and microscopic observations under UV light excitation. The results demonstrate that pollen-derived CDs can be potentially used as a miraculous fertilizer for agricultural applications and as a great in vivo plant bioimaging probe.
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http://dx.doi.org/10.1021/acsomega.7b00657DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6044574PMC
July 2017

Biodegradable, Hydrogen Peroxide, and Glutathione Dual Responsive Nanoparticles for Potential Programmable Paclitaxel Release.

J Am Chem Soc 2018 06 6;140(24):7373-7376. Epub 2018 Jun 6.

Key Laboratory of Molecular Nanostructure and Nanotechnology, Institute of Chemistry , Chinese Academy of Sciences , and Beijing National Laboratory for Molecular Sciences, Beijing 100190 , China.

Reactive oxygen species (ROS) and glutathione (GSH) dual responsive nanoparticulate drug delivery systems (nano-DDSs) hold great promise to improve the therapeutic efficacy and alleviate the side effects of chemo drugs in cancer theranosis. Herein, hydrogen peroxide (HO) and GSH dual responsive thioketal nanoparticle (TKN) was rationally designed for paclitaxel (PTX) delivery. Compared to other stimuli-sensitive nano-DDSs, this dual responsive DDS is not only sensitive to biologically relevant HO and GSH for on-demand drug release but also biodegradable into biocompatible byproducts after fulfilling its delivering task. Considering the heterogeneous redox potential gradient, the PTX loaded TKNs (PTX-TKNs) might first respond to the extracellular ROS and then to the intracellular GSH, achieving a programmable release of PTX at the tumor site. The selective toxicity of PTX-TKNs to tumor cells with high levels of ROS and GSH was verified both in vitro and in vivo.
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http://dx.doi.org/10.1021/jacs.7b12025DOI Listing
June 2018

Publisher Correction: Investigating the relationship between Aerosol Optical Depth and Precipitation over Southeast Asia with Relative Humidity as an influencing factor.

Sci Rep 2018 May 10;8(1):7600. Epub 2018 May 10.

Department of Civil and Environmental Engineering, National University of Singapore, Singapore, Singapore.

A correction to this article has been published and is linked from the HTML and PDF versions of this paper. The error has been fixed in the paper.
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http://dx.doi.org/10.1038/s41598-018-25179-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5945860PMC
May 2018