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Article: Application of AI on cholangiocarcinoma.

Huang, Jianhao / Bai, Xuesong / Qiu, Yanyu / He, Xiaodong

2024 Volume 14, Page(s) 1324222

Abstract: Cholangiocarcinoma, classified as intrahepatic, perihilar, and extrahepatic, is considered a deadly malignancy of the hepatobiliary system. Most cases of cholangiocarcinoma are asymptomatic. Therefore, early detection of cholangiocarcinoma is significant ...

Abstract	Cholangiocarcinoma, classified as intrahepatic, perihilar, and extrahepatic, is considered a deadly malignancy of the hepatobiliary system. Most cases of cholangiocarcinoma are asymptomatic. Therefore, early detection of cholangiocarcinoma is significant but still challenging. The routine screening of a tumor lacks specificity and accuracy. With the application of AI, high-risk patients can be easily found by analyzing their clinical characteristics, serum biomarkers, and medical images. Moreover, AI can be used to predict the prognosis including recurrence risk and metastasis. Although they have some limitations, AI algorithms will still significantly improve many aspects of cholangiocarcinoma in the medical field with the development of computing power and technology.
Language	English
Publishing date	2024-01-29
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2649216-7
ISSN	2234-943X
ISSN	2234-943X
DOI	10.3389/fonc.2024.1324222
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Article: Construction of a prognostic model for HCC based on ferroptosis-related lncRNAs expression and its potential to predict the response and irAEs of immunotherapy.

Dong, Liangbo / Zhou, Shengnan / Bai, Xuesong / He, Xiaodong

Frontiers in pharmacology

2023 Volume 14, Page(s) 1090895

Abstract: Background: ...

Abstract	Background:
Language	English
Publishing date	2023-03-13
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587355-6
ISSN	1663-9812
ISSN	1663-9812
DOI	10.3389/fphar.2023.1090895
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Article: Risk relationship between leukocyte telomere length and constipation: a Mendelian randomization study.

Chi, Zhenfei / Bai, Xuesong / Zhang, Zhe

Frontiers in medicine

2023 Volume 10, Page(s) 1177785

Abstract: Objective: Some epidemiological studies have investigated the associations between aging and constipation, yet their outcomes are inconclusive, so we strive to ascertain whether aging is the cause of constipation.: Methods: We conducted a two-sample ... ...

Abstract	Objective: Some epidemiological studies have investigated the associations between aging and constipation, yet their outcomes are inconclusive, so we strive to ascertain whether aging is the cause of constipation. Methods: We conducted a two-sample Mendelian randomization (MR) analysis using publicly accessible genome-wide association study (GWAS) summary statistics. As a marker of cellular and biological aging, we employed 15 single-nucleotide polymorphisms as instrumental variables for leukocyte telomere length (LTL) as exposure and a GWAS for constipation in the Finnish database as an outcome. To select the instrumental variables strongly associated with the phenotype, we eliminated confounding factors and direct effects outcomes to determine the causal relationship of exposure factors on the outcome; the analysis was mainly performed using the random-effect inverse variance weighting method, MR-Egger, weighted median, and sensitivity analysis of the results. Results: Random effect inverse variance weighted odds ratio = 1.035 (95% CI 0.907-1.180), but Conclusion: LTL as a proxy for aging does not necessarily indicate an increased likelihood of constipation. Further research is needed to explore the specific mechanisms of constipation.
Language	English
Publishing date	2023-09-13
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2775999-4
ISSN	2296-858X
ISSN	2296-858X
DOI	10.3389/fmed.2023.1177785
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Article ; Online: Cerebral infarction caused by coexisting elongated styloid process and carotid web.

Xu, Wenlong / Song, Gang / Bai, Xuesong / Jiao, Liqun

Journal of stroke and cerebrovascular diseases : the official journal of National Stroke Association

2023 Volume 32, Issue 5, Page(s) 107088

Abstract: Objective: Elongated styloid process (ESP) and carotid web are rare etiologies of ischemic stroke. We report a rare case of ESP concomitant with carotid web as the cause of recurrent stroke.: Case presentation: A 59-year-old man was admitted to our ... ...

Abstract	Objective: Elongated styloid process (ESP) and carotid web are rare etiologies of ischemic stroke. We report a rare case of ESP concomitant with carotid web as the cause of recurrent stroke. Case presentation: A 59-year-old man was admitted to our hospital with recurrent numbness and weakness in the right upper extremity. The patient had a long-standing history of lightheadedness and left-side amaurosis with neck flexion. Magnetic resonance imaging (MRI) confirmed scattered infarctions in the left frontal and parietal lobes. After multi-modal imaging we determined that embolic cerebral infarction was most likely to be secondary to the carotid web. Moreover, ESP causes dynamic hypoperfusion during neck flexion. We believe that this is a good reason for dealing with both pathologies during the same surgery. Thus, carotid endarterectomy and styloid process resection were performed at the same time. The previous symptoms during the head position change did not recur, and the right hand weakness was resolved. Conclusion: ESP and carotid web are unusual mechanisms of ischemic stroke. Early diagnosis and timely treatment are essential to prevent subsequent severe strokes.
MeSH term(s)	Male ; Humans ; Middle Aged ; Carotid Arteries ; Cerebral Infarction/etiology ; Cerebral Infarction/complications ; Stroke/etiology ; Ischemic Stroke/complications
Language	English
Publishing date	2023-03-20
Publishing country	United States
Document type	Case Reports
ZDB-ID	1131675-5
ISSN	1532-8511 ; 1052-3057
ISSN (online)	1532-8511
ISSN	1052-3057
DOI	10.1016/j.jstrokecerebrovasdis.2023.107088
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Article ; Online: Antibacterial and Anti-Inflammatory Polysaccharide from

Xi, Yanli / Hu, Lianxin / Chen, Xiang / Zuo, Lili / Bai, Xuesong / Du, Weijie / Xu, Na

Molecules (Basel, Switzerland)

2024 Volume 29, Issue 7

Abstract: In cutaneous wound healing, an overproduction of inflammatory chemokines and bacterial infections impedes the process. Hydrogels can maintain a physiologically moist microenvironment, absorb chemokines, prevent bacterial infection, inhibit bacterial ... ...

Abstract	In cutaneous wound healing, an overproduction of inflammatory chemokines and bacterial infections impedes the process. Hydrogels can maintain a physiologically moist microenvironment, absorb chemokines, prevent bacterial infection, inhibit bacterial reproduction, and facilitate wound healing at a wound site. The development of hydrogels provides a novel treatment strategy for the entire wound repair process. Here, a series of
MeSH term(s)	Pectins/pharmacology ; Ligustrum ; Polyvinyl Alcohol ; Polysaccharides/pharmacology ; Wound Healing ; Anti-Bacterial Agents/pharmacology ; Anti-Inflammatory Agents/pharmacology ; Collagen Type I ; Chemokines ; Hydrogels
Chemical Substances	Pectins (89NA02M4RX) ; polyvinyl alcohol hydrogel ; Polyvinyl Alcohol (9002-89-5) ; Polysaccharides ; Anti-Bacterial Agents ; Anti-Inflammatory Agents ; Collagen Type I ; Chemokines ; Hydrogels
Language	English
Publishing date	2024-03-22
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	1413402-0
ISSN	1420-3049 ; 1431-5165 ; 1420-3049
ISSN (online)	1420-3049
ISSN	1431-5165 ; 1420-3049
DOI	10.3390/molecules29071423
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Article ; Online: Numerical study on liquid ammonia direct injection spray characteristics under engine-relevant conditions

Zhang, Yanzhi / Xu, Leilei / Zhu, Yizi / Xu, Shijie / Bai, Xue-Song

Applied Energy. 2023 Mar., v. 334 p.120680-

2023

Abstract: This paper reports on CFD modeling of the fuel/air mixing characteristics of liquid ammonia under direct injection engine-relevant conditions. Several questions are addressed including, whether the widely used Lagrange particle tracking (LPT) spray ... ...

Abstract	This paper reports on CFD modeling of the fuel/air mixing characteristics of liquid ammonia under direct injection engine-relevant conditions. Several questions are addressed including, whether the widely used Lagrange particle tracking (LPT) spray models developed for traditional fossil fuels are suitable for ammonia spray, whether certain improvement of the current models should be introduced, and under what conditions the improvement of models needs to be considered. It is found that liquid ammonia spray characteristics can be well reproduced by the current Lagrange-based spray models under non-flash boiling conditions. However, there are obvious gaps between measurements and predictions under strong flash boiling conditions. A strong flash boiling region is found near the nozzle while its intensity decreases downstream due to the significant cooling effect of ammonia spray, and initial superheat degree defined as the ratio of ambient pressure to the saturation vapor pressure at initial fuel temperature, can be adopted to determine the boundary of flash boiling model that needs to be employed in the modeling of liquid ammonia spray. Spray included angle is a crucial parameter within the LPT simulation framework to reproduce the collapse effect for multi-plume sprays. The flash model considering only the evaporation promotion effect cannot replicate the ammonia spray characteristics and it does not result in obvious differences compared with the results from the normal evaporation model. Liquid ammonia is a thermal sensitive fuel and has a strong tendency of flash boiling, and a more accurate flash boiling model that considers the thermal breakup effect should be proposed to accurately predict ammonia fuel/air mixing characteristics under wide engine-relevant conditions.
Keywords	air ; ambient pressure ; ammonia ; energy ; evaporation ; fuels ; liquids ; models ; temperature ; vapor pressure ; Liquid ammonia spray ; Flash boiling ; Fuel/air mixing ; Decarbonization ; Computational fluid dynamics (CFD)
Language	English
Dates of publication	2023-03
Publishing place	Elsevier Ltd
Document type	Article ; Online
Note	Use and reproduction
ZDB-ID	2000772-3
ISSN	0306-2619
ISSN	0306-2619
DOI	10.1016/j.apenergy.2023.120680
Database	NAL-Catalogue (AGRICOLA)

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Article: M6A RNA methylation in biliary tract cancer: the function roles and potential therapeutic implications.

Bai, Xuesong / Huang, Jianhao / Jin, Yiqun / Chen, Jiemin / Zhou, Shengnan / Dong, Liangbo / Han, Xianlin / He, Xiaodong

Cell death discovery

2024 Volume 10, Issue 1, Page(s) 83

Abstract: Biliary tract cancers (BTCs) are relatively rare malignancies with a poor prognosis. For advanced BTCs, the efficacy of current chemotherapeutic approaches is limited. Consequently, there is an urgent need to deepen our understanding of the molecular ... ...

Abstract	Biliary tract cancers (BTCs) are relatively rare malignancies with a poor prognosis. For advanced BTCs, the efficacy of current chemotherapeutic approaches is limited. Consequently, there is an urgent need to deepen our understanding of the molecular mechanisms underlying BTC tumorigenesis and development for the exploration of effective targeted therapies. N6-methyladenosine (m6A), the most abundant RNA modifications in eukaryotes, is found usually dysregulated and involved in tumorigenesis, progression, and drug resistance in tumors. Numerous studies have confirmed that aberrant m6A regulators function as either oncogenes or tumor suppressors in BTCs by the reversible regulation of RNA metabolism, including splicing, export, degradation and translation. In this review, we summarized the current roles of the m6A regulators and their functional impacts on RNA fate in BTCs. The improved understanding of m6A modification in BTCs also provides a reasonable outlook for the exploration of new diagnostic strategies and efficient therapeutic targets.
Language	English
Publishing date	2024-02-16
Publishing country	United States
Document type	Journal Article ; Review
ISSN	2058-7716
ISSN	2058-7716
DOI	10.1038/s41420-024-01849-z
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Article: Identifying endoplasmic reticulum stress-related genes as new diagnostic and prognostic biomarkers in clear cell renal cell carcinoma.

Yu, Haitao / Zhang, Chunlin / Bai, Xuesong / Yin, Hubin / Li, Xinyuan / Zhou, Xiang / He, Weiyang / Kuang, Youlin / Gou, Xin / Li, Jie

Translational andrology and urology

2024 Volume 13, Issue 1, Page(s) 1–24

Abstract: Background: Clear cell renal cell carcinoma (ccRCC) is one of the most common cancers worldwide, and its incidence is increasing every year. Endoplasmic reticulum stress (ERS) caused by protein misfolding has broad and profound effects on the ... ...

Abstract	Background: Clear cell renal cell carcinoma (ccRCC) is one of the most common cancers worldwide, and its incidence is increasing every year. Endoplasmic reticulum stress (ERS) caused by protein misfolding has broad and profound effects on the progression and metastasis of various cancers. Accumulating evidence suggests that ERS is closely related to the occurrence and progression of ccRCC. This study aimed to identify ERS-related genes for evaluating the prognosis of ccRCC. Methods: Transcriptomic expression profiles were obtained from the Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA), and clinical data were downloaded from the TCGA. First, the differentially expressed genes (DEGs) were analyzed using the limma package, and the DEGs related to ERS (ERS-DEGs) were identified from the GeneCards database. Second, a function and pathway enrichment analysis and a Gene Set Enrichment Analysis (GSEA) were performed. Third, a protein-protein interaction (PPI) network was constructed to identify the hub genes, and a gene-micro RNA (miRNA) network and gene-transcription factor (TF) network were established using the hub genes. Finally, a least absolute shrinkage and selection operator (LASSO) regression analysis was conducted to establish a diagnostic model, and a Cox analysis was used to analyze the correlations between the expression of the characteristic genes and the clinical characteristics. Results: We identified 11 signature genes and established a diagnostic model. Further, the Cox analysis results revealed a correlation between the expression levels of the signature genes and the clinical characteristics. Ultimately, five signature genes (i.e., Conclusions: This study suggests that
Language	English
Publishing date	2024-01-23
Publishing country	China
Document type	Journal Article
ZDB-ID	2851630-8
ISSN	2223-4691 ; 2223-4691 ; 2223-4683
ISSN (online)	2223-4691
ISSN	2223-4691 ; 2223-4683
DOI	10.21037/tau-23-374
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Article ; Online: YTHDF1 promotes gallbladder cancer progression via post-transcriptional regulation of the m6A/UHRF1 axis.

Chen, Jiemin / Bai, Xuesong / Zhang, Wenqin / Yan, Zhiyu / Liu, Yongru / Zhou, Shengnan / Wu, Xi / He, Xiaodong / Yang, Aiming

Journal of cellular and molecular medicine

2024 Volume 28, Issue 9, Page(s) e18328

Abstract: Gallbladder cancer is a rare but fatal malignancy. However, the mechanisms underlying gallbladder carcinogenesis and its progression are poorly understood. The function of m6A modification and its regulators was still unclear for gallbladder cancer. The ... ...

Abstract	Gallbladder cancer is a rare but fatal malignancy. However, the mechanisms underlying gallbladder carcinogenesis and its progression are poorly understood. The function of m6A modification and its regulators was still unclear for gallbladder cancer. The current study seeks to investigate the function of YTH m6A RNA-binding protein 1 (YTHDF1) in gallbladder cancer. Transcriptomic analysis and immunochemical staining of YTHDF1 in gallbladder cancer tissues revealed its upregulation compared to paracancerous tissues. Moreover, YTHDF1 promotes the proliferation assays, Transwell migration assays, and Transwell invasion assays of gallbladder cancer cells in vitro. And it also increased tumour growth in xenograft mouse model and metastases in tail vein injection model in vivo. In vitro, UHRF1 knockdown partly reversed the effects of YTHDF1 overexpression. Mechanistically, dual-luciferase assays proved that YTHDF1 promotes UHRF1 expression via direct binding to the mRNA 3'-UTR in a m6A-dependent manner. Overexpression of YTHDF1 enhanced UHRF1 mRNA stability, as demonstrated by mRNA stability assays, and Co-IP studies confirmed a direct interaction between YTHDF1 and PABPC1. Collectively, these findings provide new insights into the progression of gallbladder cancer as well as a novel post-transcriptional mechanism of YTHDF1 via stabilizing target mRNA.
MeSH term(s)	Gallbladder Neoplasms/genetics ; Gallbladder Neoplasms/pathology ; Gallbladder Neoplasms/metabolism ; Humans ; Animals ; Gene Expression Regulation, Neoplastic ; Cell Proliferation/genetics ; Disease Progression ; Mice ; RNA-Binding Proteins/metabolism ; RNA-Binding Proteins/genetics ; Cell Line, Tumor ; Ubiquitin-Protein Ligases/metabolism ; Ubiquitin-Protein Ligases/genetics ; Cell Movement/genetics ; CCAAT-Enhancer-Binding Proteins/metabolism ; CCAAT-Enhancer-Binding Proteins/genetics ; Mice, Nude ; Male ; Female ; RNA Stability/genetics ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Adenosine/analogs & derivatives
Chemical Substances	YTHDF1 protein, human ; RNA-Binding Proteins ; Ubiquitin-Protein Ligases (EC 2.3.2.27) ; CCAAT-Enhancer-Binding Proteins ; N-methyladenosine (CLE6G00625) ; RNA, Messenger ; Adenosine (K72T3FS567)
Language	English
Publishing date	2024-04-29
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2074559-X
ISSN	1582-4934 ; 1582-4934 ; 1582-1838
ISSN (online)	1582-4934
ISSN	1582-4934 ; 1582-1838
DOI	10.1111/jcmm.18328
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Zs.A 5752: Show issues

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Article ; Online: YTHDF2 promotes gallbladder cancer progression and gemcitabine resistance via m6A-dependent DAPK3 degradation.

Bai, Xuesong / Chen, Jiemin / Zhang, Wenqin / Zhou, Shengnan / Dong, Liangbo / Huang, Jianhao / He, Xiaodong

Cancer science

2023 Volume 114, Issue 11, Page(s) 4299–4313

Abstract: N6-methyladenosine (m6A) is the most abundant internal modification in eukaryotic RNA and involved in the carcinogenesis of various malignancies. However, the functions and mechanisms of m6A in gallbladder cancer (GBC) remain unclear. In this study, we ... ...

Abstract	N6-methyladenosine (m6A) is the most abundant internal modification in eukaryotic RNA and involved in the carcinogenesis of various malignancies. However, the functions and mechanisms of m6A in gallbladder cancer (GBC) remain unclear. In this study, we investigated the role and underlying mechanism of the RNA-binding protein YT521-B homology domain-containing family protein 2 (YTHDF2), an m6A reader, in GBC. Herein, we detected that YTHDF2 was remarkably upregulated in GBC tissues compared to normal gallbladder tissues. Functionally, YTHDF2 overexpression promoted the proliferation, tumor growth, migration, and invasion of GBC cells while inhibiting the apoptosis in vitro and in vivo. Conversely, YTHDF2 knockdown induced opposite results. Mechanistically, we further investigated the underlying mechanism by integrating RNA immunoprecipitation sequencing (RIP-seq), m6A-modified RIP-seq, and RNA sequencing, which revealed that death-associated protein kinase 3 (DAPK3) is a direct target of YTHDF2. YTHDF2 binds to the 3'-UTR of DAPK3 mRNA and facilitates its degradation in an m6A-dependent manner. DAPK3 inhibition restores the tumor-suppressive phenotype induced by YTHDF2 deficiency. Moreover, the YTHDF2/DAPK3 axis induces the resistance of GBC cells to gemcitabine. In conclusion, we reveal the oncogenic role of YTHDF2 in GBC, demonstrating that YTHDF2 increases the mRNA degradation of the tumor suppressor DAPK3 in an m6A-dependent way, which promotes GBC progression and desensitizes GBC cells to gemcitabine. Our findings provide novel insights into potential therapeutic strategies for GBC.
MeSH term(s)	Humans ; Gemcitabine ; Gallbladder Neoplasms/drug therapy ; Gallbladder Neoplasms/genetics ; Gallbladder Neoplasms/metabolism ; RNA-Binding Proteins/genetics ; RNA-Binding Proteins/metabolism ; Transcription Factors/metabolism ; RNA ; Death-Associated Protein Kinases/metabolism
Chemical Substances	Gemcitabine ; RNA-Binding Proteins ; Transcription Factors ; RNA (63231-63-0) ; DAPK3 protein, human (EC 2.7.11.1) ; Death-Associated Protein Kinases (EC 2.7.11.1) ; YTHDF2 protein, human
Language	English
Publishing date	2023-09-12
Publishing country	England
Document type	Journal Article
ZDB-ID	2115647-5
ISSN	1349-7006 ; 1349-7006
ISSN (online)	1349-7006
ISSN	1349-7006
DOI	10.1111/cas.15953
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