Chunyan Li

Beihang University

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Chunhuan Ren

Anhui Agricultural University

Mingxing Chu

Chinese Academy of Agricultural Sciences

Xiaoyun He

Chinese Academy of Agricultural Sciences

Xuemei Lu

Chinese Academy of Sciences

Qilin Wang

University of Technology Sydney

Zijun Zhang

Wuhan University

Zijun Zhang

Anhui Agricultural University

Yue Zhao

University Hospital Cologne

Hui Bu

Hebei Medical University

Xin Chen

Nanjing Drum Tower Hospital

Cooperative Institutions

Chinese Academy of Sciences

146

The University of Texas MD Anderson Cancer Center

118

National Institutes of Health

107

Chinese Academy of Medical Sciences & Peking Union Medical College

University of Chinese Academy of Sciences

Baylor College of Medicine

Harvard University

Washington University in St. Louis

Huazhong University of Science and Technology

Sun Yat-sen University

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Glycoside Hydrolase Family 39 β-Xylosidase of Sphingomonas Showing Salt/Ethanol/Trypsin Tolerance, Low-pH/Low-Temperature Activity, and Transxylosylation Activity

Journal of Agricultural and Food Chemistry (2018)

Na Li Xiaowei Han Shujing Xu Chunyan Li Xin Wei

Mining for novel enzymes from new microorganisms is a way to obtain β-xylosidases with promising applications. A Sphingomonas β-xylosidase was expressed in Escherichia coli. The purified recombinant enzyme (rJB13GH39) was most active at pH 4.5 and 50 °C, retaining 10%-50% of its maximum activity at 0-20 °C. Most salts and chemical reagents including 3.0%-20.0% (w/v) NaCl showed little or no effect on the enzymatic activity. rJB13GH39 exhibited 71.9% and 55.2% activity in 10.0% and 15.0% (v/v) ethanol, respectively. rJB13GH39 was stable below 60 °C in 3.0%-30.0% (w/v) NaCl, 3.0%-20.0% (v/v) ethanol, and 2.2-87.0 mg/mL trypsin. The enzyme transferred one xylosyl moiety to certain sugars and alcohols. The salt/ethanol tolerance and low-temperature activity of the enzyme may be attributed to its high structural flexibility caused by high proportions of small amino acids ACDGNSTV and random coils.

Sphingomonas paucimobilis

10.1021/acs.jafc.8b03327

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MiR-5100 targets TOB2 to drive epithelial-mesenchymal transition associated with activating smad2/3 in lung epithelial cells.

PubMed (2017)

Chunyan Li Yahong Wang Ziying Lin Lawei Yang Shenglan Gao

Idiopathic pulmonary fibrosis (IPF) is a devastating disease and the pathogenesis of IPF remains unclear. Our previous study indicated that miR-5100 promotes the proliferation and metastasis of lung epithelial cells. In this study, we investigated the effect and mechanism of miR-5100 on bleomycin (BLM)-induced mouse lung fibrosis and transforming growth factor β (TGF-β1) or epidermal growth factor (EGF) induced EMT-model in A549 and Beas-2B cells. The elevated level of miR-5100 was observed in both the mouse lung fibrosis tissues and EMT cell model. Furthermore, the exogenous expression of miR-5100 promoted the EMT-related changes, enhanced TGF-β1 or EGF-induced EMT and activated the smad2/3 in lung epithelial cells, while silencing miR-5100 had the converse effects. In addition, transwell assay showed that miR-5100 can enhance cell migration. Using target prediction software and luciferase reporter assays, we identified TOB2 as a specific target of miR-5100 and miR-5100 can decrease the accumulation of endogenous TOB2 in A549 and Beas-2B cells. Moreover, the exogenous expression of TOB2 relieves the promotion of miR-5100 on EMT process and migration ability. Taken together, our results indicate that miR-5100 promotes the EMT process by targeting TOB2 associated with activating smad2/3 in lung epithlium cells. Our findings may provide novel insights into the pathogenesis of IPF.

Pathogenesis

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Allicin improves endoplasmic reticulum stress-related cognitive deficits via PERK/Nrf2 antioxidative signaling pathway

European Journal of Pharmacology (2015)

Yaofeng Zhu Xianhui Li Zhipeng Yuan Chunyan Li Rong-Bo Tian

EIF-2 kinase

Tunicamycin

10.1016/j.ejphar.2015.06.002

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Additional file 17 of Pineal gland transcriptomic profiling reveals the differential regulation of lncRNA and mRNA related to prolificacy in STH sheep with two FecB genotypes

Figshare (2021)

Chunyan Li Xiaoyun He Zijun Zhang Chunhuan Ren Mingxing Chu

Additional file 17: Supplementary material 7A. Total set of the top 20 KEGG enrichment pathways for differentially expressed lncRNA targets in MM_FP vs MM_LP. Supplementary material 7B. Total set of the top 20 KEGG enrichment pathways for differentially expressed lncRNA targets in MM_FP vs ww_FP. Supplementary material 7C. Total set of the top 20 KEGG enrichment pathways for differentially expressed lncRNA targets in MM_LP vs ww_LP. Supplementary material 7D. Total set of the top 20 KEGG enrichment pathways for differentially expressed lncRNA targets in ww_FP vs ww_LP.

10.6084/m9.figshare.14059290

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Additional file 19 of Pineal gland transcriptomic profiling reveals the differential regulation of lncRNA and mRNA related to prolificacy in STH sheep with two FecB genotypes

Figshare (2021)

Chunyan Li Xiaoyun He Zijun Zhang Chunhuan Ren Mingxing Chu

Additional file 19: Supplementary material 9A. Co-expression details of DE lncRNA-mRNA after lncRNA targets coincided with DE mRNAs in MM_FP vs MM_LP. Supplementary material 9B. Co-expression details of DE lncRNA-mRNA after lncRNA targets coincided with DE mRNAs in MM_FP vs ww_FP. Supplementary material 9C. Co-expression details of DE lncRNA-mRNA after lncRNA targets coincided with DE mRNAs in MM_LP vs ww_LP. Supplementary material 9D. Co-expression details of DE lncRNA-mRNA after lncRNA targets coincided with DE mRNAs in ww_FP vs ww_LP.

Profiling (computer programming)

10.6084/m9.figshare.14059296

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DNA‐鋳型化Ag/Pt二金属ナノクラスタに基づいた血管内皮成長因子(VEGF)の検出のための電気化学アプタセンサ【Powered by NICT】

Chinese Chemical Letters (2016)

Xian-ming Fu Zhijing Liu Shuxian Cai Zhao Yanping Wu Dongzhi

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COVID-19患者におけるQingfei Paidu煎剤の早期治療と良好な臨床転帰との関連性: 後向き多施設コホート研究【JST・京大機械翻訳】

Pharmacological Research (2020)

Nannan Shi Bin Liu Ning Liang Yan Ma Ge Youwen

2019-20 coronavirus outbreak

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Detection of genes mutations in cerebrospinal fluid circulating tumor DNA from neoplastic meningitis patients using next generation sequencing

Research Square (Research Square) (2020)

Yue Zhao Junying He Junzhao Cui Zi-Qi Meng New Yueli Zou

Abstract Background: This study profiled the somatic gene mutations and the copy number variations (CNVs) in cerebrospinal fluid (CSF)-circulating tumor DNA (ctDNA) from patients with neoplastic meningitis (NM). Methods: A total of 62 CSF ctDNA samples were collected from 58 NM patients for the next generation sequencing. The data were blasted in GenBank and bioinformatically analyzed. Results: Cancer-associated gene mutations occurred in all 62 CSF ctDNA samples in TP53 (54/62; 87.10%), EGFR (44/62; 70.97%), PTEN (39/62; 62.90%), CDKN2A (32/62; 51.61%), APC (27/62: 43.55%), TET2 (27/62; 43.55%), GNAQ (18/62; 29.03%), NOTCH1 (17/62; 27.42%), VHL (17/62; 27.42%), FLT3 (16/62; 25.81%), PTCH1 (15/62; 24.19%), BRCA2 (13/62; 20.97%), KDR (10/62; 16.13%), KIT (9/62; 14.52%), MLH1 (9/62; 14.52%), ATM (8/62; 12.90%), CBL (8/62; 12.90%), and DNMT3A (7/62; 11.29%). The mutated genes enriched by the KEGG pathway analysis were the PI3K-Akt, which included the genes of TP53 , EGFR , PTEN , KIT and KDR. After receiving intrathecal and systemic chemotherapy, the ERK1/2 signaling pathways of these CSF samples were activated. Furthermore, the CNVs of these genes were also identified in these 62 samples. Conclusions: This study identified gene mutations in all CSF ctDNA samples, indicating that these mutated genes may be acted as a kind of biomarker for diagnosis of NM, and these mutated genes may affect meningeal metastasis through PI3K-Akt signaling pathway.

GNAQ

MLH1

KEGG

10.21203/rs.2.16237/v2

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A comparative study of gene expression level in peripheral blood mononuclear cells between children and adults patients with Kashin-Beck disease

Chin J Endemiol (2015)

Yan Wen Feng Zhang Chunyan Li Shulan He Wuhong Tan

Objective To investigate and compare the differentially expressed genes of children and adults patients with Kashin-Beck disease (KBD) in peripheral blood mononuclear cells (PBMCs) so as to provide new clues to identify the genes related to cartilage lesion of KBD. Methods Eighteen KBD children and 18 healthy children were selected and divided into 6 matched groups according to age and gender. Twenty-one KBD adults and 21 healthy adults were selected and divided into 7 matched groups according to age and gender. Every group had 3 patients and 3 healthy persons. Peripheral blood samples were collected and total RNA was extracted respectively. The expression levels of 367 target genes in 4 child groups (24 subjects) and 5 adult groups (30 subjects) were evaluated using customized oligonucleotide microarray. Those genes with ≥2.0 or ≤0.5 expression ratio were regarded as differentially expressed genes. Quantitative real-time reverse transcription polymerase chain reaction (qRT-PCR) was conducted to validate the microarray data using the remaining 2 child groups (12 subjects) and 2 adult groups (12 subjects). Results There detected 101 differentially expressed genes in KBD children, accounting for 27.5% of all 367 target genes. It was less than that in KBD adults (159, 43.3%, χ2 = 20.036, P < 0.01). Fifty-seven differentially expressed genes were shared by KBD children and KBD adults but 21 of them were asynchronously expressed in KBD children compared to KBD adults. The result of qRT-PCR experiment was consistent with that of the microarray study. Conclusions There are significant differences in gene expression pattern between KBD children and KBD adults relating to the severity of articular cartilage and motor function damages. Bone-development related genes may play an important role in epiphyseal plate lesion of KBD children and we should pay more attention to its role in the early stage of KBD. Key words: Kashin-Beck disease; Gene expression; Child; Adult

10.3760/cma.j.issn.2095-4255.2015.11.004

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The regulatory mechanisms by enhancers during cancer initiation and progression.

PubMed (2022)

Sihan Qi Qilin Wang Junyou Zhang Qian Liu Chunyan Li

Enhancer is a DNA sequence, and mainly acts in cis to regulate gene transcription. Due to the uncertainty in both location and distance between enhancers and their target genes, it is more complex and difficult to study the underlying regulatory mechanism of enhancers. Accumulating evidences indicate that enhancers are closely associated with the occurrence and development of diseases, such as cancer. Therefore, the studies of enhancers in cancer will be helpful to deeply unravel cancer pathogenesis and to promote the development of antitumor drugs. The related research is with great social significance and economic value. Currently, the identification of enhancers is insufficient. The regulatory mechanisms by enhancers during the initiation and progression of cancer and other diseases have not been fully delineated. In this review, we provide an overview of enhancers, super enhancers and their properties, followed by a description of enhancer prediction and identification at the genome-wide level. Finally, we summarize the regulatory roles of enhancers during diseases such as cancer in recent years, thereby providing a reference for the future exploration on enhancer regulatory mechanisms as well as cancer diagnosis and treatment.增强子是一段具有转录调控功能的DNA序列,主要通过顺式调控方式发挥作用。由于增强子及其调控基因在位置和距离上的不确定性,大大增加了研究增强子作用机制的复杂性和困难性。越来越多的证据表明,增强子与癌症等疾病的发生发展密切相关,因此开展癌症相关增强子的研究,将有助于全面解析癌症发病机制,并推动抗肿瘤药物的高效研发,具有重要的社会意义和经济价值。目前对于增强子的鉴定不充分,增强子在癌症和其他疾病中的发生发展调控机制尚未得到完整的解析。本文主要对增强子和超级增强子及其特性进行介绍,并在全基因组水平上对增强子的预测和鉴定进行了描述,最后总结了近年来增强子在癌症等疾病发生过程中所发挥的调控作用,从而为未来解析增强子调控机制以及癌症的诊断和治疗提供参考。.

Enhancer RNAs

10.16288/j.yczz.21-440

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Citations (1)