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Article ; Online: Letter to the Editor: Additional viewpoints from transplant surgeons on Banff consensus recommendations for the assessment of steatotic donor livers.

Cao, Huan / Gu, Jinyang

2024

Language	English
Publishing date	2024-02-13
Publishing country	United States
Document type	Journal Article
ZDB-ID	604603-4
ISSN	1527-3350 ; 0270-9139
ISSN (online)	1527-3350
ISSN	0270-9139
DOI	10.1097/HEP.0000000000000785
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Article ; Online: Biochar loaded with cobalt ferrate activated persulfate to degrade naphthalene.

Gu, Shuaijie / Cui, Jingying / Liu, Fangqin / Chen, Jinyang

RSC advances

2023 Volume 13, Issue 8, Page(s) 5283–5292

Abstract: Considering the simple preparation of biochar and the excellent activation performance of cobalt ferrate material, a biochar supported cobalt ferrate composite was synthesized by a solvothermal method. The material was used to activate persulfate (PS) to ...

Abstract	Considering the simple preparation of biochar and the excellent activation performance of cobalt ferrate material, a biochar supported cobalt ferrate composite was synthesized by a solvothermal method. The material was used to activate persulfate (PS) to degrade naphthalene (NAP) in water. The structure and morphology characterization showed that the composite (CoFe
Language	English
Publishing date	2023-02-10
Publishing country	England
Document type	Journal Article
ISSN	2046-2069
ISSN (online)	2046-2069
DOI	10.1039/d2ra08120b
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Article ; Online: A physically constrained Monte Carlo-Neural Network coupling algorithm for BNCT dose calculation.

Wang, Yongquan / Du, Junliang / Lin, Huan / Guan, Xingcai / Zhang, Lu / Li, Jinyang / Gu, Long

Medical physics

2024

Abstract: Background: In boron neutron capture therapy (BNCT)-a form of binary radiotherapy-the primary challenge in treatment planning systems for dose calculations arises from the time-consuming nature of the Monte Carlo (MC) method. Recent progress, including ... ...

Abstract	Background: In boron neutron capture therapy (BNCT)-a form of binary radiotherapy-the primary challenge in treatment planning systems for dose calculations arises from the time-consuming nature of the Monte Carlo (MC) method. Recent progress, including the use of neural networks (NN), has been made to accelerate BNCT dose calculations. However, this approach may result in significant dose errors in both the tumor and the skin, with the latter being a critical organ in BNCT. Furthermore, owing to the lack of physical processes in purely NN-based approaches, their reliability for clinical dose calculations in BNCT is questionable. Purpose: In this study, a physically constrained MC-NN (PCMC-NN) coupling algorithm is proposed to achieve fast and accurate computation of the BNCT three-dimensional (3D) therapeutic dose distribution. This approach synergizes the high precision of the MC method with the speed of the NN and utilizes physical conservation laws to constrain the coupling process. It addresses the time-consuming issue of the traditional MC method while reducing dose errors. Methods: Clinical data were collected from 113 glioblastoma patients. For each patient, the 3D dose distributions for both the coarse and detailed dose grids were calculated using the MC code PHITS. Among these patients, the data from 14 patients were allocated to the test set, 9 to the validation set, and the remaining to the training set. A neural network, 3D-Unet, was built based on the coarse grid dose and patient CT information to enable fast and accurate computation of the 3D detailed grid dose distribution of BNCT. Results: Statistical evaluations, including relative deviation, dose deviation, mean absolute error (MAE), and mean absolute percentage error (MAPE) were conducted. Our findings suggested that the PCMC-NN algorithm substantially outperformed the traditional NN and interpolation methods. Furthermore, the proposed algorithm significantly reduced errors, particularly in the skin and GTV, and improved computational accuracy (hereinafter referred to simply as 'accuracy') with a MAPE range of 1.6%-4.0% and a maximum MAE of 0.3 Gy (IsoE) for different organs. The dose-volume histograms generated by the PCMC-NN aligned well with those obtained from the MC method, further validating its accuracy. Conclusions: The PCMC-NN algorithm enhanced the speed and accuracy of BNCT dose calculations by combining the MC method with the NN algorithm. This indicates the significant potential of the proposed algorithm for clinical applications in optimizing treatment planning.
Language	English
Publishing date	2024-02-01
Publishing country	United States
Document type	Journal Article
ZDB-ID	188780-4
ISSN	2473-4209 ; 0094-2405
ISSN (online)	2473-4209
ISSN	0094-2405
DOI	10.1002/mp.16966
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Article ; Online: HRANet: Hierarchical region-aware network for crowd counting.

Xie, Jinyang / Gu, Lingyu / Li, Zhonghui / Lyu, Lei

Applied intelligence (Dordrecht, Netherlands)

2022 Volume 52, Issue 11, Page(s) 12191–12205

Abstract: Aiming to tackle the most intractable problems of scale variation and complex backgrounds in crowd counting, we present an innovative framework called Hierarchical Region-Aware Network (HRANet) for crowd counting in this paper, which can better focus on ... ...

Abstract	Aiming to tackle the most intractable problems of scale variation and complex backgrounds in crowd counting, we present an innovative framework called Hierarchical Region-Aware Network (HRANet) for crowd counting in this paper, which can better focus on crowd regions to accurately predict crowd density. In our implementation, first, we design a Region-Aware Module (RAM) to capture the internal differences within different regions of the feature map, thus adaptively extracting contextual features within different regions. Furthermore, we propose a Region Recalibration Module (RRM) which adopts a novel region-aware attention mechanism (RAAM) to further recalibrate the feature weights of different regions. By the integration of the above two modules, the influence of background regions can be effectively suppressed. Besides, considering the local correlations within different regions of the crowd density map, a Region Awareness Loss (RAL) is designed to reduce false identification while producing the locally consistent density map. Extensive experiments on five challenging datasets demonstrate that the proposed method significantly outperforms existing methods in terms of counting accuracy and quality of the generated density map. In addition, a series of specific experiments in crowd gathering scenes indicate that our method can be practically applied to crowd localization.
Language	English
Publishing date	2022-02-02
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	1479519-X
ISSN	1573-7497 ; 0924-669X
ISSN (online)	1573-7497
ISSN	0924-669X
DOI	10.1007/s10489-021-03030-w
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Article ; Online: UDP-glucuronate metabolism controls RIPK1-driven liver damage in nonalcoholic steatohepatitis.

Zhang, Tao / Zhang, Na / Xing, Jing / Zhang, Shuhua / Chen, Yulu / Xu, Daichao / Gu, Jinyang

Nature communications

2023 Volume 14, Issue 1, Page(s) 2715

Abstract: Hepatocyte apoptosis plays an essential role in the progression of nonalcoholic steatohepatitis (NASH). However, the molecular mechanisms underlying hepatocyte apoptosis remain unclear. Here, we identify UDP-glucose 6-dehydrogenase (UGDH) as a suppressor ...

Abstract	Hepatocyte apoptosis plays an essential role in the progression of nonalcoholic steatohepatitis (NASH). However, the molecular mechanisms underlying hepatocyte apoptosis remain unclear. Here, we identify UDP-glucose 6-dehydrogenase (UGDH) as a suppressor of NASH-associated liver damage by inhibiting RIPK1 kinase-dependent hepatocyte apoptosis. UGDH is progressively reduced in proportion to NASH severity. UGDH absence from hepatocytes hastens the development of liver damage in male mice with NASH, which is suppressed by RIPK1 kinase-dead knockin mutation. Mechanistically, UGDH suppresses RIPK1 by converting UDP-glucose to UDP-glucuronate, the latter directly binds to the kinase domain of RIPK1 and inhibits its activation. Recovering UDP-glucuronate levels, even after the onset of NASH, improved liver damage. Our findings reveal a role for UGDH and UDP-glucuronate in NASH pathogenesis and uncover a mechanism by which UDP-glucuronate controls hepatocyte apoptosis by targeting RIPK1 kinase, and suggest UDP-glucuronate metabolism as a feasible target for more specific treatment of NASH-associated liver damage.
MeSH term(s)	Animals ; Male ; Mice ; Glucose/metabolism ; Glucuronates/metabolism ; Hepatocytes/metabolism ; Liver/metabolism ; Non-alcoholic Fatty Liver Disease/genetics ; Non-alcoholic Fatty Liver Disease/metabolism ; Receptor-Interacting Protein Serine-Threonine Kinases/genetics ; Receptor-Interacting Protein Serine-Threonine Kinases/metabolism ; Uridine Diphosphate/metabolism
Chemical Substances	Glucose (IY9XDZ35W2) ; Glucuronates ; Receptor-Interacting Protein Serine-Threonine Kinases (EC 2.7.11.1) ; Ripk1 protein, mouse (EC 2.7.11.1) ; Uridine Diphosphate (58-98-0)
Language	English
Publishing date	2023-05-11
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-023-38371-2
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Article ; Online: Dual FGFR and VEGFR inhibition synergistically restrain hexokinase 2-dependent lymphangiogenesis and immune escape in intrahepatic cholangiocarcinoma.

Peng, Min / Li, Hui / Cao, Huan / Huang, Yamei / Yu, Weiping / Shen, Chuanlai / Gu, Jinyang

Journal of gastroenterology

2023 Volume 58, Issue 9, Page(s) 908–924

Abstract: Background: Therapies for cholangiocarcinoma are largely limited and ineffective. Herein, we examined the role of the FGF and VEGF pathways in regulating lymphangiogenesis and PD-L1 expression in intrahepatic cholangiocarcinoma (iCCA).: Methods: The ... ...

Abstract	Background: Therapies for cholangiocarcinoma are largely limited and ineffective. Herein, we examined the role of the FGF and VEGF pathways in regulating lymphangiogenesis and PD-L1 expression in intrahepatic cholangiocarcinoma (iCCA). Methods: The lymphangiogenic functions of FGF and VEGF were evaluated in lymphatic endothelial cells (LECs) and iCCA xenograft mouse models. The relationship between VEGF and hexokinase 2 (HK2) was validated in LECs by western blot, immunofluorescence, ChIP and luciferase reporter assays. The efficacy of the combination therapy was assessed in LECs and xenograft models. Microarray analysis was used to evaluate the pathological relationships of FGFR1 and VEGFR3 with HK2 in human lymphatic vessels. Results: FGF promoted lymphangiogenesis through c-MYC-dependent modulation of HK2 expression. VEGFC also upregulated HK2 expression. Mechanistically, VEGFC phosphorylated components of the PI3K/Akt/mTOR axis to upregulate HIF-1α expression at the translational level, and HIF-1α then bound to the HK2 promoter region to activate its transcription. More importantly, dual FGFR and VEGFR inhibition with infigratinib and SAR131675 almost completely inhibited lymphangiogenesis, and significantly suppressed iCCA tumor growth and progression by reducing PD-L1 expression in LECs. Conclusions: Dual FGFR and VEGFR inhibition inhibits lymphangiogenesis through suppression of c-MYC-dependent and HIF-1α-mediated HK2 expression, respectively. HK2 downregulation decreased glycolytic activity and further attenuated PD-L1 expression. Our findings suggest that dual FGFR and VEGFR blockade is an effective novel combination strategy to inhibit lymphangiogenesis and improve immunocompetence in iCCA.
MeSH term(s)	Humans ; Mice ; Animals ; Lymphangiogenesis ; B7-H1 Antigen/metabolism ; Hexokinase/metabolism ; Hexokinase/pharmacology ; Vascular Endothelial Growth Factor A/metabolism ; Vascular Endothelial Growth Factor A/pharmacology ; Endothelial Cells/metabolism ; Endothelial Cells/pathology ; Phosphatidylinositol 3-Kinases/metabolism ; Phosphatidylinositol 3-Kinases/pharmacology ; Cholangiocarcinoma/drug therapy ; Cholangiocarcinoma/pathology
Chemical Substances	B7-H1 Antigen ; Hexokinase (EC 2.7.1.1) ; Vascular Endothelial Growth Factor A ; Phosphatidylinositol 3-Kinases (EC 2.7.1.-)
Language	English
Publishing date	2023-07-11
Publishing country	Japan
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1186495-3
ISSN	1435-5922 ; 0944-1174
ISSN (online)	1435-5922
ISSN	0944-1174
DOI	10.1007/s00535-023-02012-8
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Zs.A 620: Show issues

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Article ; Online: COVID-19: Gastrointestinal Manifestations and Potential Fecal-Oral Transmission.

Gu, Jinyang / Han, Bing / Wang, Jian

Gastroenterology

2020 Volume 158, Issue 6, Page(s) 1518–1519

MeSH term(s)	Betacoronavirus/classification ; Betacoronavirus/genetics ; Betacoronavirus/isolation & purification ; COVID-19 ; Coronavirus Infections/complications ; Coronavirus Infections/pathology ; Coronavirus Infections/transmission ; Feces/virology ; Gastrointestinal Diseases/etiology ; Gastrointestinal Diseases/pathology ; Gastrointestinal Diseases/virology ; Humans ; Pandemics ; Pneumonia, Viral/complications ; Pneumonia, Viral/pathology ; Pneumonia, Viral/transmission ; SARS-CoV-2
Keywords	covid19
Language	English
Publishing date	2020-03-03
Publishing country	United States
Document type	Editorial
ZDB-ID	80112-4
ISSN	1528-0012 ; 0016-5085
ISSN (online)	1528-0012
ISSN	0016-5085
DOI	10.1053/j.gastro.2020.02.054
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Zs.MO 572: Show issues

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Article ; Online: Defects in Macrophage Reprogramming in Cancer Therapy: The Negative Impact of PD-L1/PD-1.

Cai, Hao / Zhang, Yichi / Wang, Jian / Gu, Jinyang

Frontiers in immunology

2021 Volume 12, Page(s) 690869

Abstract: Classically activated M1 macrophages and alternatively activated M2 macrophages are two polarized subsets of macrophages at the extreme ends of a constructed continuum. In the field of cancer research, M2 macrophage reprogramming is defined as the ... ...

Abstract	Classically activated M1 macrophages and alternatively activated M2 macrophages are two polarized subsets of macrophages at the extreme ends of a constructed continuum. In the field of cancer research, M2 macrophage reprogramming is defined as the repolarization of pro-tumoral M2 to anti-tumoral M1 macrophages. It is known that colony-stimulating factor 1 (CSF1)/CSF1 receptor (CSF1R) and CSF2/CSF2R signaling play important roles in macrophage polarization. Targeting CSF1/CSF1R for M2 macrophage reprogramming has been widely performed in clinical trials for cancer therapy. Other targets for M2 macrophage reprogramming include Toll-like receptor 7 (TLR7), TLR8, TLR9, CD40, histone deacetylase (HDAC), and PI3Kγ. Although macrophages are involved in innate and adaptive immune responses, M1 macrophages are less effective at phagocytosis and antigen presenting, which are required properties for the activation of T cells and eradication of cancer cells. Similar to T and dendritic cells, the "functionally exhausted" status might be attributed to the high expression of programmed death-ligand 1 (PD-L1) or programmed cell death protein 1 (PD-1). PD-L1 is expressed on both M1 and M2 macrophages. Macrophage reprogramming from M2 to M1 might increase the expression of PD-L1, which can be transcriptionally activated by STAT3. Macrophage reprogramming or PD-L1/PD-1 blockade alone is less effective in the treatment of most cancers. Since PD-L1/PD-1 blockade could make up for the defect in macrophage reprogramming, the combination of macrophage reprogramming and PD-L1/PD-1 blockade might be a novel treatment strategy for cancer therapy.
MeSH term(s)	Animals ; B7-H1 Antigen/immunology ; Humans ; Macrophages/immunology ; Neoplasms/immunology ; Neoplasms/therapy ; Programmed Cell Death 1 Receptor/immunology
Chemical Substances	B7-H1 Antigen ; Programmed Cell Death 1 Receptor
Language	English
Publishing date	2021-06-23
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	2606827-8
ISSN	1664-3224 ; 1664-3224
ISSN (online)	1664-3224
ISSN	1664-3224
DOI	10.3389/fimmu.2021.690869
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Book ; Online: MTAD

Liu, Jinyang / Gu, Wenwei / Chen, Zhuangbin / Li, Yichen / Su, Yuxin / Lyu, Michael R.

Tools and Benchmarks for Multivariate Time Series Anomaly Detection

2024

Abstract: Key Performance Indicators (KPIs) are essential time-series metrics for ensuring the reliability and stability of many software systems. They faithfully record runtime states to facilitate the understanding of anomalous system behaviors and provide ... ...

Abstract	Key Performance Indicators (KPIs) are essential time-series metrics for ensuring the reliability and stability of many software systems. They faithfully record runtime states to facilitate the understanding of anomalous system behaviors and provide informative clues for engineers to pinpoint the root causes. The unprecedented scale and complexity of modern software systems, however, make the volume of KPIs explode. Consequently, many traditional methods of KPI anomaly detection become impractical, which serves as a catalyst for the fast development of machine learning-based solutions in both academia and industry. However, there is currently a lack of rigorous comparison among these KPI anomaly detection methods, and re-implementation demands a non-trivial effort. Moreover, we observe that different works adopt independent evaluation processes with different metrics. Some of them may not fully reveal the capability of a model and some are creating an illusion of progress. To better understand the characteristics of different KPI anomaly detectors and address the evaluation issue, in this paper, we provide a comprehensive review and evaluation of twelve state-of-the-art methods, and propose a novel metric called salience. Particularly, the selected methods include five traditional machine learning-based methods and seven deep learning-based methods. These methods are evaluated with five multivariate KPI datasets that are publicly available. A unified toolkit with easy-to-use interfaces is also released. We report the benchmark results in terms of accuracy, salience, efficiency, and delay, which are of practical importance for industrial deployment. We believe our work can contribute as a basis for future academic research and industrial application. Comment: The code and datasets are available at https://github.com/OpsPAI/MTAD
Keywords	Computer Science - Software Engineering ; Computer Science - Artificial Intelligence ; Computer Science - Machine Learning
Subject code	006
Publishing date	2024-01-10
Publishing country	us
Document type	Book ; Online
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Article: Living donor liver transplantation combined with splenectomy in a child with Niemann-Pick disease type B: single-centre experience of perioperative anticoagulation regimen.

Ding, Han / Wang, Jian / Zhang, Yichi / Zhao, Shuai / Han, Bing / Cai, Hao / Gu, Jinyang

Hepatobiliary surgery and nutrition

2021 Volume 11, Issue 3, Page(s) 498–501

Language	English
Publishing date	2021-01-29
Publishing country	China (Republic : 1949- )
Document type	Journal Article
ZDB-ID	2812398-0
ISSN	2304-389X ; 2304-3881
ISSN (online)	2304-389X
ISSN	2304-3881
DOI	10.21037/hbsn-21-454
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