205 Works

Bioinformatics analysis reveals the competing endogenous RNA (ceRNA) coexpression network in the tumor microenvironment and prognostic biomarkers in soft tissue sarcomas

Dandan Zou, Yang Wang, Meng Wang, Bo Zhao, Fei Hu, Yanguo Li & Bingming Zhang
Soft tissue sarcomas (STSs) are rare, heterogeneous mesenchymal neoplasias. Understanding the tumor microenvironment (TME) and identifying potential biomarkers for prognosis associated with the TME of STS might provide effective clues for immune therapy. We evaluated the immune scores and stromal scores of STS patients by using the RNA sequencing dataset from The Cancer Genome Atlas (TCGA) database and the ESTIMATE algorithm. Then, the differentially expressed mRNAs (DEGs), miRNAs (DEMs) and lncRNAs (DELs) were identified after...

Combining bulk and single-cell RNA-sequencing data to reveal gene expression pattern of chondrocytes in the osteoarthritic knee

Xiaoyu Li, Zheting Liao, Zhonghao Deng, Nachun Chen & Liang Zhao
Osteoarthritis (OA) occurs mostly in the knees, hips, finger interphalangeal joints, and spinal facet joints, and is characterized by cartilage degeneration. The existing bulk RNA sequencing (bulk RNA-seq) and single-cell sequencing (scRNA-seq) data for chondrocytes in the osteoarthritic knee joint provide the expression profiles of entire cell populations and individual cells, respectively. Here, we aimed to analyze these two types of sequencing data in order to obtain a more comprehensive understanding of OA. We compared...

Temporal and spatial characteristics of flocculated suspended solids in a deep reservoir: an in situ observation in the Biliuhe Reservoir

Yuyu Liu, Yuqing Feng, Xin Jiang, Shiguo Xu, Lin Zhu & Guoqing Sang
The amount of total suspended solids (TSS) is the most visible indicator for evaluating water quality in reservoirs. Previous investigations paid more attention to TSS of the surface layer in reservoirs, while suspended particles are prone to settle, resuspend, and aggregate at the bottom of reservoir. There may be different patterns of the TSS in different depths. This study is to assess the TSS concentration by weight analysis, find the evidence of the existence of...

Temporal and Spatial Characteristics of Flocculated Suspended Solids in a Deep Reservoir: an in situ Observation in the Biliuhe Reservoir

Yuyu Liu, Yuqing Feng, Xin Jiang, Shiguo Xu, Lin Zhu & Guoqing Sang
The amount of total suspended solids (TSS) is the most visible indicator for evaluating water quality in reservoirs. Previous investigations paid more attention to TSS of the surface layer in reservoirs, while suspended particles are prone to settle, resuspend, and aggregate at the bottom of reservoir. There may be different patterns of the TSS in different depths. Hence, it is significant to explore the temporal and spatial characteristics of suspended solids in different depths of...

Inference on moderation effect with third-variable effect analysis – application to explore the trend of racial disparity in oncotype dx test for breast cancer treatment

Qingzhao Yu, Lu Zhang, Xiaocheng Wu & Bin Li
Third variable effect refers to the effect from a third variable that explains an observed relationship between an exposure and an outcome. Depending on whether there is causal relationship, typically, a third variable takes the format of a mediator or a confounder. A moderation effect is a special case of the third-variable effect, where the moderator and other variables have an interactive effect on the outcome. In this paper, we extend the R package ‘mma’...

STAT3-induced ZBED3-AS1 promotes the malignant phenotypes of melanoma cells by activating PI3K/AKT signaling pathway

Yang Wang, Nan Lou, Min Zuo, Fuqiang Zhu, Yan He, Zhiqiang Cheng & Xiaomei Wang
Melanoma is considered as the most frequent primary malignancy occurring in skin. Accumulating studies have suggested that long non-coding RNAs (lncRNAs) play critical parts in multiple cancers. In this study, we explored the molecular mechanism of ZBED3 antisense RNA 1 (ZBED3-AS1) in melanoma. We observed that ZBED3-AS1 expression was remarkably up-regulated in melanoma tissues, and high ZBED3-AS1 level was linked to unsatisfactory survival of melanoma patients. Then, we discovered that ZBED3-AS1 was overexpressed in melanoma...

A new diterpenoid alkaloid from Delphinium gyalanum C. Marquand & Airy Shaw

Xinyu Li, Meizhen Ye, Feng Gao, Xianli Zhou, Lin Chen & Shuai Huang
A new C19-diterpenoid alkaloid named gyalanutine A (1) and fourteen known compounds 2-15 were isolated from the plant of Delphinium gyalanum C. Marquand & Airy Shaw. Compound 1 displayed an unusual lycoctonine-type C19-diterpenoid alkaloid skeleton with the cleavage of N-C19 and C7-C17 bonds, and the construction of the N-C7 bond. Structures were identified by multiple spectroscopic analyses including 1 D, 2 D NMR, IR and HR-ESI-MS. Compounds were tested for acetylcholinesterase inhibitory and anti-inflammatory activity.

Azilsartan protects against hyperglycemia-induced hyperpermeability of the blood-brain barrier

Jing Han, Hua Tang, Longfei Yao, Erliang Jin, Wanxi Pan & Shaojun Chen
Diabetes mellitus (DM) is a complex metabolic disease with significant neurological complications and is reported to be closely related to the blood-brain barrier (BBB) disruption. Azilsartan is an antagonist of the Angiotensin II receptor developed for the treatment of hypertension, and it has been recently reported to have neuroprotective effects. The present study aims to investigate the protective effect of Azilsartan against hyperglycemia-induced BBB disruption and its underlying mechanism. Male db/db mice were treated with...

An enhanced methodology for predicting protein-protein interactions between human and hepatitis C virus via ensemble learning algorithms

Xin Liu, Liang Wang, Cheng-Hao Liang, Ya-Ping Lu, Ting Yang & Xiao Zhang
Hepatitis C virus (HCV) is responsible for a variety of human life-threatening diseases, which include liver cirrhosis, chronic hepatitis, fibrosis and hepatocellular carcinoma (HCC) . Computational study of protein-protein interactions between human and HCV could boost the findings of antiviral drugs in HCV therapy and might optimize the treatment procedures for HCV infections. In this analysis, we constructed a prediction model for protein-protein interactions between HCV and human by incorporating the features generated by pseudo...

Sex difference in lipid levels in first-diagnosed drug-naïve depression patients: A case-control and 12-weeks follow-up study

Rui Yang, Lu Wang, Song Cao, Ming Chen, Chu-Jun Wu, Floyd Silva, Man-Jun Shen, Jin-Dong Chen, Mi-Mi Tang & Bi-Lian Liu
Patients with depression have a high prevalence of developing dyslipidemia. In this study, we aim to investigate the difference of serum lipids, including total cholesterol (TCH), high-density lipoprotein cholesterol (HDL-C), low-density lipoprotein cholesterol (LDL-C), and triglycerides (TG), between the depressed patients and healthy controls. Sex differences in lipids and their psychological correlations were also included. The study included 56 healthy controls (males/females = 26/30) and 110 first-diagnosed drug-naïve outpatients (males/females = 35/75). A total of...

Removal of harmful algae by Shigella sp. H3 and Alcaligenes sp. H5: algicidal pathways and characteristics

Gang Xue, Xiaonuan Wang, Chenlan Xu, Binxue Song & Hong Chen
Application of algicidal bacteria is a promising technology to control harmful algal blooms (HABs). In this study, algicidal bacteria strains Shigella sp. H3 and Alcaligenes sp. H5 were obtained via two different isolation methods from the same lake water sample, with optimal algicidal efficiencies 96% and 74% against algae mixture. The Shigella sp. H3 and Alcaligenes sp. H5 lysed algae cells through cells-to-cells direct contact and secretion of algicidal metabolites, respectively. The stronger algicidal capability...

An enhanced methodology for predicting protein-protein interactions between human and hepatitis C virus via ensemble learning algorithms

Xin Liu, Liang Wang, Cheng-Hao Liang, Ya-Ping Lu, Ting Yang & Xiao Zhang
Hepatitis C virus (HCV) is responsible for a variety of human life-threatening diseases, which include liver cirrhosis, chronic hepatitis, fibrosis and hepatocellular carcinoma (HCC) . Computational study of protein-protein interactions between human and HCV could boost the findings of antiviral drugs in HCV therapy and might optimize the treatment procedures for HCV infections. In this analysis, we constructed a prediction model for protein-protein interactions between HCV and human by incorporating the features generated by pseudo...

Association between atherosclerotic cardiovascular diseases risk and renal outcome in patients with type 2 diabetes mellitus

Honghong Ren, Lijun Zhao, Yutong Zou, Yiting Wang, Junlin Zhang, Yucheng Wu, Rui Zhang, Tingli Wang, Jiali Wang, Yitao Zhu, Ruikun Guo, Huan Xu, Lin Li, Mark E. Cooper & Fang Liu
Chronic kidney disease (CKD) and diabetes mellitus increase atherosclerotic cardiovascular diseases (ASCVD) risk. However, the association between renal outcome of diabetic kidney disease (DKD) and ASCVD risk is unclear. This retrospective study enrolled 218 type 2 diabetic patients with biopsy-proven DKD, and without known cardiovascular diseases. Baseline characteristics were obtained and the 10-year ASCVD risk score was calculated using the Pooled Cohort Equation (PCE). Renal outcome was defined as progression to end-stage renal disease (ESRD)....

Systematic analysis of Long non-coding RNAs reveals diagnostic biomarkers and potential therapeutic drugs for intervertebral disc degeneration

Jiawen Zhan, Shangquan Wang, Xu Wei, Minshan Feng, Xunlu Yin, Jie Yu, Tao Han, Guangwei Liu, Wangwen Xuan, Xiaobo Wang, Rui Xie, Kai Sun & Liguo Zhu
Long non-coding RNAs (lncRNAs) are related to a variety of human diseases. However, little is known about the role of lncRNA in intervertebral disc degeneration (IDD). LncRNA expression profile of human IDD were downloaded from Gene Expression Omnibus (GEO) database. Potential biomarkers and therapeutic drugs for IDD were analyzed by weighted gene co-expression network analysis (WGCNA), R software package Limma, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG). We identified 1455 differentially...

Evidence for the butyrate metabolism as key pathway improving ulcerative colitis in both pediatric and adult patients

Zheng Zhou, Jiasheng Cao, Xiaoming Liu & Mingsong Li
Accumulating evidence has shown many similarities and differences of gene profiles and pathways between pediatric and adult ulcerative colitis (UC) patients. In this study, we aimed to investigate the shared genes and pathways in intestinal tissues of pediatric and adult UC. Differentially expressed genes (DEGs) between pediatric and adult UC were identified via bioinformatic analysis of Gene Expression Omnibus datasets GSE87473 and GSE126124. Gene Ontology and pathway enrichment were used to analyze overlapped and distinguished...

Block-wise Variable Selection for Clustering via Latent States of Mixture Models

Beomseok Seo, Lin Lin & Jia Li
Mixture modeling is a major paradigm for clustering in statistics. In this paper, we develop a new block-wise variable selection method for clustering by exploiting the latent states of the hidden Markov model on variable blocks or the Gaussian mixture model. The variable blocks are formed by depth-first-search on a dendrogram created based on the mutual information between any pair of variables. It is demonstrated that the latent states of the variable blocks together with...

Additional file 3 of Using a WeChat mini-program-based lactation consultant intervention to increase the consumption of mother’s own milk by preterm infants in the neonatal intensive care unit: a study protocol for a cluster randomized controlled trial

Jie Huo, Xinping Wu, Chuanli Gu, Zhangbin Yu, Jun Zhang, Xiaohui Chen, Jingai Zhu, Feng Liu, Beibei Liu, Qianqian Li & Shuping Han
Additional file 3.

Accumulation and translocation of selenium in a soil–rice system in Guangxi, China

Zhen Wang, Fei Pang & Wei Huang
Selenium (Se) is an essential element for the human body. Humans meet their basic Se requirements primarily through food consumption. The largest Se-rich contiguous area in China is located in the southeast of Guangxi. In this study, the Se accumulation and translocation in the Guangxi rice–soil system was assessed. Organically bound Se (O-Se) was found to be the main type of soil Se (72.5%), and had a good linear relationship with soil total Se (TSe)...

Chemical composition characteristics and source analysis of PM2.5 in Jiaxing, China: Insights into the effect of COVID-19 outbreak

Chuanfang Xiong, Yinglong Zhang, Jing Yan, Xiaoxia Yang, Qiongzhen Wang, Rui Tu & Yi He
Jiaxing is a medium-sized city in the Yangtze River Delta (YRD), which showed complex local and surrounding pollution sources. To study the COVID-19 impact on the ambient PM2.5 in Jiaxing, we collected the PM2.5 samples from January 2 to April 25, 2020 and analyzed their chemical compositions (including carbon components, water-soluble ions (WSIs), and inorganic elements). The concentration of PM2.5 was 83.13 ± 30.93 μg/m3 before COVID-19 pandemic, and then remarkably decreased with COVID-19 outbreak...

A Unified Framework for Specification Tests of Continuous Treatment Effect Models

Wei Huang, Oliver Linton & Zheng Zhang
We propose a general framework for the specification testing of continuous treatment effect models. We assume a general residual function, which includes the average and quantile treatment effect models as special cases. The null models are identified under the unconfoundedness condition and contain a nonparametric weighting function. We propose a test statistic for the null model in which the weighting function is estimated by solving an expanding set of moment equations. We establish the asymptotic...

Study of calcitriol anti-aging effects on human natural killer cells in vitro

Weiran Li, Xu Che, Xuemei Chen, Meiling Zhou, Xiaoping Luo & Tao Liu
Vitamin D is widely considered to have a regulatory effect on the immune system. Some clinical investigations have shown that the demand for vitamin D increases with age. Calcitriol is the biologically active form of vitamin D. However, its effect on human natural killer (NK) cells remains unclear. Therefore, in this study, we investigated the anti-aging and immunomodulatory effects of calcitriol on NK cells using a series of immunological methods to explore its important role...

Four new cembranoids from the South China Sea soft coral Sarcophyton trocheliophorum

Lu Ren, Xue Leng, Te Li, Jing Liu, Wei Wang, Xiaojun Yan, Xia Yan & Shan He
Four new cembrane diterpenes, 1,13-di-epi-13-acetoxy launine P (1), 13-oxo-thunbergol (2), isocrassumol B (3) and 7α, 8α-sarcophine (4), together with two known launine P (5) and sarcophytonin B (6), were isolated from the extract of the South China Sea soft coral Sarcophyton trocheliophorum. The structures were elucidated by spectroscopic analysis, ECD analysis and comparison with literature data. All compounds were tested for their antimicrobial activity and antiviral activity. Compounds 1, 2 and 5 were found to...

Knock-down of microRNA miR-556-5p increases cisplatin-sensitivity in non-small cell lung cancer (NSCLC) via activating NLR family pyrin domain containing 3 (NLRP3)-mediated pyroptotic cell death

Feng Shi, Luquan Zhang, Xing Liu & Yue Wang
MicroRNAs (miRNAs) are small non-coding RNAs that are closely associated with cancer progression and drug resistance, however, up until now, the involvement of miR-556-5p in regulating cisplatin-sensitivity in non-small cell lung cancer (NSCLC) has not been studied. In the present study, we found that miR-556-5p was significantly upregulated in the cisplatin-resistant NSCLC (CR-NSCLC) patients’ tissues and cells, instead of the corresponding cisplatin-sensitive NSCLC (CS-NSCLC) tissues and cells. Further experiments validated that knock-down of miR-556-5p suppressed...

Association of soft drink and 100% fruit juice consumption with all-cause mortality, cardiovascular diseases mortality, and cancer mortality: A systematic review and dose-response meta-analysis of prospective cohort studies

Bei Pan, Long Ge, Honghao Lai, Qi Wang, Qian Zhang, Min Yin, Sheng Li, Jinhui Tian, Kehu Yang & Jiancheng Wang
Sugar-sweetened beverages (SSBs), artificially sweetened beverages (ASBs), and 100% fruit juices are frequently consumed and have been documented that they could lead to serious disease burden. However, inconsistent evidence on the association between SSBs, ASBs, and 100% fruit juices consumption and mortality have been presented. PubMed, Embase, Web of Science, Cochrane Central Register of Controlled Trials, and PsycINFO were systematically searched. We conducted a random-effects meta-analysis and dose-response meta-analysis to assess the association and calculated...

In-hospital acute kidney injury and atrial fibrillation: incidence, risk factors, and outcome

Guoqin Wang, Lijiao Yang, Nan Ye, Weijing Bian, Changsheng Ma, Dong Zhao, Jing Liu, Yongchen Hao, Na Yang & Hong Cheng
The incidence and the risk factors of in-hospitalized acute kidney injury (AKI) in patients hospitalized for atrial fibrillation (AF) were unclear. The Improving Care for Cardiovascular Disease in China-AF (CCC-AF) project is an ongoing registry and quality improvement project, with 240 hospitals recruited across China. We selected 4527 patients hospitalized for AF registered in the CCC-AF from January 2015 to January 2019. Patients were divided into the AKI and non-AKI groups according to the changes...

Registration Year

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Affiliations

  • Chongqing Medical University
    205
  • Shanghai Jiao Tong University
    136
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    127
  • Fudan University
    117
  • Huazhong University of Science and Technology
    115
  • Zhejiang University
    110
  • Sichuan University
    99
  • Capital Medical University
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  • Sun Yat-sen University
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  • Nanjing Medical University
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