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Article ; Online: Bao Yuan decoction alleviates fatigue by restraining inflammation and oxidative stress via the AMPK/CRY2/PER1 signaling pathway.

Zheng, Yuan / Ren, Xueyang / Qi, Xiaodan / Song, Ruolan / Zhao, Chongjun / Ma, Jiamu / Li, Xianxian / Deng, Qingyue / He, Yingyu / Kong, Lingmei / Qian, Liyan / Zhang, Feng / Li, Mingxia / Sun, Mengyu / Liu, Wei / Liu, Haibin / She, Gaimei

Journal of ethnopharmacology

2024 Volume 328, Page(s) 118058

Abstract: Ethnopharmacological relevance: Baoyuan Decoction (BYD) was initially recorded in the classic of "Bo Ai Xin Jian" in the Ming dynasty. It is traditionally used for treating weakness and cowardice, and deficiency of vital energy. In researches related to ...

Abstract	Ethnopharmacological relevance: Baoyuan Decoction (BYD) was initially recorded in the classic of "Bo Ai Xin Jian" in the Ming dynasty. It is traditionally used for treating weakness and cowardice, and deficiency of vital energy. In researches related to anti-fatigue effects, the reciprocal regulation of AMPK and circadian clocks likely plays an important role in anti-fatigue mechanism, while it has not yet been revealed. Therefore, we elucidated the anti-fatigue mechanism of BYD through AMPK/CRY2/PER1 pathway. Aim of the study: To investigate the effect and mechanism of BYD in reducing fatigue, using pharmacodynamics, network pharmacology and transcriptomics through the AMPK/CRY2/PER1 signaling pathway. Materials and methods: Firstly, the chemical constituents of BYD were qualitatively identified by UHPLC-Q-Exactive Orbitrap/MS, establishing a comprehensive strategy with an in-house library, Xcalibur software and Pubchem combined. Secondly, a Na Results: In total, 114 compounds from the water extract of BYD were identified as major compounds. Na₂SO₃-induced fatigue model and AAPH-induced oxidative stress model indicated that BYD has significant anti-fatigue and antioxidant effects. Meanwhile, BYD showed significant anti-inflammatory effects on CuSO Conclusion: Herein, we identified 114 chemical constituents of BYD, performed zebrafish activity validation, while demonstrated that BYD can relieve fatigue by AMPK/CRY2/PER1 signaling pathway through network pharmacology and transcriptome.
MeSH term(s)	Animals ; AMP-Activated Protein Kinases ; Zebrafish ; Oxidative Stress ; Fatigue/drug therapy ; Drugs, Chinese Herbal/pharmacology ; Drugs, Chinese Herbal/therapeutic use ; Inflammation/drug therapy ; Antioxidants ; Signal Transduction ; Anti-Inflammatory Agents/pharmacology ; Anti-Inflammatory Agents/therapeutic use ; Amidines
Chemical Substances	AMP-Activated Protein Kinases (EC 2.7.11.31) ; 2,2'-azobis(2-amidinopropane) (7381JDR72F) ; Drugs, Chinese Herbal ; Antioxidants ; Anti-Inflammatory Agents ; Amidines
Language	English
Publishing date	2024-03-20
Publishing country	Ireland
Document type	Journal Article
ZDB-ID	134511-4
ISSN	1872-7573 ; 0378-8741
ISSN (online)	1872-7573
ISSN	0378-8741
DOI	10.1016/j.jep.2024.118058
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Article: Exploring the Mechanisms of Traditional Chinese Herbal Therapy in Gastric Cancer: A Comprehensive Network Pharmacology Study of the Tiao-Yuan-Tong-Wei decoction.

Chen, Juan / Kang, Jingdong / Yuan, Shouli / O'Connell, Peter / Zhang, Zizhu / Wang, Lina / Liu, Junying / Chen, Rongfeng

Pharmaceuticals (Basel, Switzerland)

2024 Volume 17, Issue 4

Abstract: ... proposes a comprehensive exploratory analysis of the Tiao-Yuan-Tong-Wei decoction (TYTW), utilizing ...

Abstract	The use of herbal medicine as an adjuvant therapy in the management of gastric cancer has yielded encouraging outcomes, notably in enhancing overall survival rates and extending periods of disease remission. Additionally, herbal medicines have demonstrated potential anti-metastatic effects in gastric cancer. Despite these promising findings, there remains a significant gap in our understanding regarding the precise pharmacological mechanisms, the identification of specific herbal compounds, and their safety and efficacy profiles in the context of gastric cancer therapy. In addressing this knowledge deficit, the present study proposes a comprehensive exploratory analysis of the Tiao-Yuan-Tong-Wei decoction (TYTW), utilizing an integrative approach combining system pharmacology and molecular docking techniques. This investigation aims to elucidate the pharmacological actions of TYTW in gastric pathologies. It is hypothesized that the therapeutic efficacy of TYTW in counteracting gastric diseases stems from its ability to modulate key signaling pathways, thereby influencing PIK3CA activity and exerting anti-inflammatory effects. This modulation is observed predominantly in pathways such as PI3K/AKT, MAPK, and those directly associated with gastric cancer. Furthermore, the study explores how TYTW's metabolites (agrimoniin, baicalin, corosolic acid, and luteolin) interact with molecular targets like AKT1, CASP3, ESR1, IL6, PIK3CA, and PTGS2, and their subsequent impact on these critical pathways and biological processes. Therefore, this study represents preliminary research on the anticancer molecular mechanism of TYTW by performing network pharmacology and providing theoretical evidence for further experimental investigations.
Language	English
Publishing date	2024-03-25
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2193542-7
ISSN	1424-8247
ISSN	1424-8247
DOI	10.3390/ph17040414
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Article: Erratum: Yuan, W., et al. Genome-Wide Identification of Banana

Yuan, Weina / Liu, Jing / Takáč, Tomáš / Chen, Houbin / Li, Xiaoquan / Meng, Jian / Tan, Yehuan / Ning, Tong / He, Zhenting / Yi, Ganjun / Xu, Chunxiang

Plants (Basel, Switzerland)

2021 Volume 10, Issue 4

Abstract: The authors wish to make the following corrections to this paper [ ... ]. ...

Abstract	The authors wish to make the following corrections to this paper [...].
Language	English
Publishing date	2021-03-30
Publishing country	Switzerland
Document type	Published Erratum
ZDB-ID	2704341-1
ISSN	2223-7747
ISSN	2223-7747
DOI	10.3390/plants10040654
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Article ; Online: Assembly and comparative analysis of the first complete mitochondrial genome of a traditional Chinese medicine Angelica biserrata (Shan et Yuan) Yuan et Shan.

Wang, Le / Liu, Xue / Xu, Yuanjiang / Zhang, Zhiwei / Wei, Yongsheng / Hu, Ying / Zheng, Changbing / Qu, Xianyou

International journal of biological macromolecules

2023 Volume 257, Issue Pt 1, Page(s) 128571

Abstract: Duhuo, a member of the Angelica family, is widely used to treat ailments such as rheumatic pain. It possesses a diverse array of bioactivities, including anti-tumor, anti-inflammatory, and analgesic properties, as recent pharmacological research has ... ...

Abstract	Duhuo, a member of the Angelica family, is widely used to treat ailments such as rheumatic pain. It possesses a diverse array of bioactivities, including anti-tumor, anti-inflammatory, and analgesic properties, as recent pharmacological research has revealed. Nevertheless, the mtDNA of Angelica species remains relatively unexplored. To address this gap, we sequenced and assembled the mtDNA of A. biserrata to shed light on its genetic mechanisms and evolutionary pathways. Our investigation indicated a distinctive multi-branched conformation in the A. biserrata mtDNA. A comprehensive analysis of protein-coding sequences (PCGs) across six closely related species revealed the presence of 11 shared genes in their mitochondrial genomes. Intriguingly, positive selection emerged as a significant factor in the evolution of the atp4, matR, nad3, and nad7 genes. In addition, our data highlighted a recurring trend of homologous fragment migration between chloroplast and mitochondrial organelles. We identified 13 homologous fragments spanning both chloroplast and mitochondrial genomes. The phylogenetic tree established a close relationship between A. biserrata and Saposhnikovia divaricata. To sum up, our research would contribute to the application of population genetics and evolutionary studies in the genus Acanthopanax and other genera in the Araliaceae family.
MeSH term(s)	Medicine, Chinese Traditional ; Angelica/genetics ; Phylogeny ; Genome, Mitochondrial/genetics ; DNA, Mitochondrial
Chemical Substances	DNA, Mitochondrial
Language	English
Publishing date	2023-12-03
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	282732-3
ISSN	1879-0003 ; 0141-8130
ISSN (online)	1879-0003
ISSN	0141-8130
DOI	10.1016/j.ijbiomac.2023.128571
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Book ; Online: Yuan 1.0

Wu, Shaohua / Zhao, Xudong / Yu, Tong / Zhang, Rongguo / Shen, Chong / Liu, Hongli / Li, Feng / Zhu, Hong / Luo, Jiangang / Xu, Liang / Zhang, Xuanwei

Large-Scale Pre-trained Language Model in Zero-Shot and Few-Shot Learning

2021

Abstract: ... into model architecture design. With this method, Yuan 1.0, the current largest singleton language model ... Few-Shot performance, and steady improvement is observed on the accuracy of various tasks. Yuan 1.0 ...

Abstract	Recent work like GPT-3 has demonstrated excellent performance of Zero-Shot and Few-Shot learning on many natural language processing (NLP) tasks by scaling up model size, dataset size and the amount of computation. However, training a model like GPT-3 requires huge amount of computational resources which makes it challengeable to researchers. In this work, we propose a method that incorporates large-scale distributed training performance into model architecture design. With this method, Yuan 1.0, the current largest singleton language model with 245B parameters, achieves excellent performance on thousands GPUs during training, and the state-of-the-art results on NLP tasks. A data processing method is designed to efficiently filter massive amount of raw data. The current largest high-quality Chinese corpus with 5TB high quality texts is built based on this method. In addition, a calibration and label expansion method is proposed to improve the Zero-Shot and Few-Shot performance, and steady improvement is observed on the accuracy of various tasks. Yuan 1.0 presents strong capacity of natural language generation, and the generated articles are difficult to distinguish from the human-written ones.
Keywords	Computer Science - Computation and Language ; Computer Science - Artificial Intelligence
Subject code	004
Publishing date	2021-10-10
Publishing country	us
Document type	Book ; Online
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Article ; Online: Shen Yuan extract exerts a hypnotic effect via the tryptophan/5-hydroxytryptamine/melatonin pathway in mice.

Xia, Tian-Ji / Jin, Su-Wei / Liu, Yong-Guang / Zhang, Shan-Shan / Wang, Zhi / Liu, Xin-Min / Pan, Rui-Le / Jiang, Ning / Liao, Yong-Hong / Yan, Ming-Zhu / Chang, Qi

Journal of ethnopharmacology

2024 Volume 326, Page(s) 117992

Abstract: ... Traditional Chinese medicine prescriptions composed of Ginseng Radix et Rhizoma and Polygalae Radix (Shen Yuan, SY) are ...

Abstract	Ethnopharmacological relevance: Sleep plays a critical role in several physiologic processes, and sleep disorders increase the risk of depression, dementia, stroke, cancer, and other diseases. Stress is one of the main causes of sleep disorders. Ginseng Radix et Rhizoma and Polygalae Radix have been reported to have effects of calming the mind and intensifying intelligence in Chinese Pharmacopoeia. Traditional Chinese medicine prescriptions composed of Ginseng Radix et Rhizoma and Polygalae Radix (Shen Yuan, SY) are commonly used to treat insomnia, depression, and other psychiatric disorders in clinical practice. Unfortunately, the underlying mechanisms of the SY extract's effect on sleep are still unknown. Aim of the study: This study aimed to investigate the hypnotic effect of the SY extract in normal mice and mice with chronic restraint stress (CRS)-induced sleep disorders and elucidate the underlying mechanisms. Materials and methods: The SY extract (0.5 and 1.0 g/kg) was intragastrically administered to normal mice for 1, 14, and 28 days and to CRS-treated mice for 28 days. The open field test (OFT) and pentobarbital sodium-induced sleep test (PST) were used to evaluate the hypnotic effect of the SY extract. Liquid chromatography-tandem mass spectrometry and enzyme-linked immunosorbent assay were utilized to detect the levels of neurotransmitters and hormones. Molecular changes at the mRNA and protein levels were determined using real-time quantitative polymerase chain reaction and Western blot analysis to identify the mechanisms by which SY improves sleep disorders. Results: The SY extract decreased sleep latency and increased sleep duration in normal mice. Similarly, the sleep duration of mice subjected to CRS was increased by administering SY. The SY extract increased the levels of tryptophan (Trp) and 5-hydroxytryptamine (5-HT) and the expression of tryptophan hydroxylase 2 (TPH2) in the cortex of normal mice. The SY extract increased the Trp level, transcription and expression of estrogen receptor beta and TPH2 in the cortex in mice with sleep disorders by decreasing the serum corticosterone level, which promoted the synthesis of 5-HT. Additionally, the SY extract enhanced the expression of arylalkylamine N-acetyltransferase, which increased the melatonin level and upregulated the expressions of melatonin receptor-2 (MT2) and Cryptochrome 1 (Cry1) in the hypothalamus of mice with sleep disorders. Conclusions: The SY extract exerted a hypnotic effect via the Trp/5-HT/melatonin pathway, which augmented the synthesis of 5-HT and melatonin and further increased the expressions of MT2 and Cry1.
MeSH term(s)	Humans ; Mice ; Animals ; Hypnotics and Sedatives/pharmacology ; Hypnotics and Sedatives/therapeutic use ; Tryptophan ; Serotonin/metabolism ; Drugs, Chinese Herbal/pharmacology ; Drugs, Chinese Herbal/therapeutic use ; Melatonin/pharmacology ; Sleep Initiation and Maintenance Disorders/drug therapy
Chemical Substances	Hypnotics and Sedatives ; Tryptophan (8DUH1N11BX) ; Serotonin (333DO1RDJY) ; Drugs, Chinese Herbal ; Melatonin (JL5DK93RCL)
Language	English
Publishing date	2024-02-28
Publishing country	Ireland
Document type	Journal Article
ZDB-ID	134511-4
ISSN	1872-7573 ; 0378-8741
ISSN (online)	1872-7573
ISSN	0378-8741
DOI	10.1016/j.jep.2024.117992
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Zs.A 1494: Show issues

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Article ; Online: Premature conclusions about the signal-to-noise ratio in structural equation modeling research: A commentary on Yuan and Fang (2023).

Schuberth, Florian / Schamberger, Tamara / Rönkkö, Mikko / Liu, Yide / Henseler, Jörg

The British journal of mathematical and statistical psychology

2023 Volume 76, Issue 3, Page(s) 682–694

Abstract: In a recent article published in this journal, Yuan and Fang (British Journal of Mathematical and ... thus corresponds to greater values of the [SNR]." In our commentary, we show that Yuan and Fang have made ... their methodological choice regarding CB-SEM and regression analysis with composites on the findings of Yuan and Fang ...

Abstract	In a recent article published in this journal, Yuan and Fang (British Journal of Mathematical and Statistical Psychology, 2023) suggest comparing structural equation modeling (SEM), also known as covariance-based SEM (CB-SEM), estimated by normal-distribution-based maximum likelihood (NML), to regression analysis with (weighted) composites estimated by least squares (LS) in terms of their signal-to-noise ratio (SNR). They summarize their findings in the statement that "[c]ontrary to the common belief that CB-SEM is the preferred method for the analysis of observational data, this article shows that regression analysis via weighted composites yields parameter estimates with much smaller standard errors, and thus corresponds to greater values of the [SNR]." In our commentary, we show that Yuan and Fang have made several incorrect assumptions and claims. Consequently, we recommend that empirical researchers not base their methodological choice regarding CB-SEM and regression analysis with composites on the findings of Yuan and Fang as these findings are premature and require further research.
MeSH term(s)	Latent Class Analysis ; Signal-To-Noise Ratio ; Least-Squares Analysis ; Research Design ; Normal Distribution
Language	English
Publishing date	2023-04-18
Publishing country	England
Document type	Observational Study ; Journal Article ; Comment
ZDB-ID	218109-5
ISSN	2044-8317 ; 0007-1102
ISSN (online)	2044-8317
ISSN	0007-1102
DOI	10.1111/bmsp.12304
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Zs.B 981: Show issues

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Article: Protective effects of Shen Yuan Dan on myocardial ischemia-reperfusion injury via the regulation of mitochondrial quality control.

Zhang, Zhuhua / Zhou, Mingxue / Liu, Hongxu / Liu, Wei / Chen, Jiaping

Cardiovascular diagnosis and therapy

2023 Volume 13, Issue 2, Page(s) 395–407

Abstract: ... of Shen Yuan Dan (SYD) on cardiomyocytes hypoxia-reoxygenation (H/R) injury via the regulation ...

Abstract	Background: Myocardial cell death resulting from ischemia-reperfusion (I/R) injury has been a predominant contributor to morbidity and mortality globally. The mitochondria-centered mechanism plays an important role in the formation of I/R injury. This study intended to discuss the protective mechanism of Shen Yuan Dan (SYD) on cardiomyocytes hypoxia-reoxygenation (H/R) injury via the regulation of mitochondrial quality control (MQC). Additionally, this study clarified the mechanism by which SYD suppressed mitophagy activity through the suppression of the PTEN-induced kinase 1 (PINK1)/Parkin pathway. Methods: To induce cellular injury, H9c2 cardiomyocytes were exposed to H/R stimulation. Following the pretreatment with SYD, cardiomyocytes were subjected to H/R stimulation. Mitochondrial membrane potential (MMP), adenosine triphosphate (ATP), superoxide dismutase (SOD), and methane dicarboxylic aldehyde (MDA) were detected to evaluate the degree of cardiomyocyte mitochondrial damage. Laser confocal microscopy was applied to observe the mitochondrial quality, and the messenger (mRNA) levels of mitofusin 1 (Mfn1), mitofusin 2 (Mfn2), optic atrophy protein 1 (Opa1), dynamin-related protein 1 (Drp1), fission 1 (Fis1), and peroxisome proliferator-activated receptor gamma coactivator-1α (PGC-1α) in cardiomyocytes were assessed using reverse transcription-quantitative polymerase chain reaction (RT-qPCR). Western blotting was employed for the estimation of light chain 3 (LC3)-I, LC3-II, PINK1, and Parkin in cardiomyocytes. Results: It was discovered that SYD pretreatment elevated MMP in H/R injury cardiomyocytes, enhanced ATP content, activated SOD activity, and reduced MDA level. SYD treatment increased the mRNA levels of Mfn1, Mfn2, Opa1 and PGC-1α decreased the mRNA levels of Drp1 and Fis1, and reduced the protein levels of LC3, PINK1, and Parkin. Conclusions: SYD plays a protective role in H/R injury to cardiomyocytes by regulating mitochondrial quality. Meanwhile, SYD may inhibit mitophagy activity through inhibiting the PINK1/Parkin pathway. This study provides insights into the underlying mechanism of SYD in alleviating myocardial I/R injury.
Language	English
Publishing date	2023-04-24
Publishing country	China
Document type	Journal Article
ZDB-ID	2685043-6
ISSN	2223-3660 ; 2223-3652
ISSN (online)	2223-3660
ISSN	2223-3652
DOI	10.21037/cdt-23-86
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Article: The Effects of Yuan-Zhi Decoction and Its Active Ingredients in Both

Liu, Yan / Huang, Xiaobo / Chen, Wenqiang / Chen, Yujing / Wang, Ningqun / Wu, Xiling

Evidence-based complementary and alternative medicine : eCAM

2020 Volume 2020, Page(s) 6807879

Abstract: Chronic cerebral hypoperfusion (CCH) is closely related to the occurrence of Alzheimer's disease (AD) in the elderly. CCH can induce overactivation of autophagy, which increases the deposition of amyloid- ...

Abstract	Chronic cerebral hypoperfusion (CCH) is closely related to the occurrence of Alzheimer's disease (AD) in the elderly. CCH can induce overactivation of autophagy, which increases the deposition of amyloid-
Language	English
Publishing date	2020-02-22
Publishing country	United States
Document type	Journal Article
ZDB-ID	2171158-6
ISSN	1741-4288 ; 1741-427X
ISSN (online)	1741-4288
ISSN	1741-427X
DOI	10.1155/2020/6807879
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Zs.A 5995: Show issues

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Article: Response to Comment on Yuan et al: The use of external fixation for the management of acute and chronic Monteggia fractures in children.

Yuan, Zhe / Xu, HongWen / Liu, YuanZhong / Li, YiQiang / Li, JingChun / Canavese, Federico

Journal of children's orthopaedics

2020 Volume 14, Issue 2, Page(s) 152–153

Language	English
Publishing date	2020-04-25
Publishing country	England
Document type	Journal Article
ZDB-ID	2279410-4
ISSN	1863-2548 ; 1863-2521
ISSN (online)	1863-2548
ISSN	1863-2521
DOI	10.1302/1863-2548.14.200031
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