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Book ; Online ; Thesis: Covalent coupling of growth factors to collagen matrices: a novel development towards a tissue substitute with enhanced angiogenesis

Chen, Jingsong

2001

Author's details	vorgelegt von Jingsong Chen
Language	English ; German
Size	1 Computerdatei (2,4 MB)
Publishing country	Germany
Document type	Book ; Online ; Thesis
Thesis / German Habilitation thesis	Aachen, Techn. Hochsch., Diss., 2001
Note	Open Access
HBZ-ID	HT013237237
Database	ZB MED Catalogue: Medicine, Health, Nutrition, Environment, Agriculture

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Article ; Online: Bayesian Inference of Stochastic Dynamic Models Using Early-Rejection Methods Based on Sequential Stochastic Simulations.

Zhang, Hu / Chen, Jingsong / Tian, Tianhai

IEEE/ACM transactions on computational biology and bioinformatics

2022 Volume 19, Issue 3, Page(s) 1484–1494

Abstract: Stochastic modelling is an important method to investigate the functions of noise in a wide range of biological systems. However, the parameter inference for stochastic models is still a challenging problem partially due to the large computing time ... ...

Abstract	Stochastic modelling is an important method to investigate the functions of noise in a wide range of biological systems. However, the parameter inference for stochastic models is still a challenging problem partially due to the large computing time required for stochastic simulations. To address this issue, we propose a novel early-rejection method by using sequential stochastic simulations. We first show that a large number of stochastic simulations are required to obtain reliable inference results. Instead of generating a large number of simulations for each parameter sample, we propose to generate these simulations in a number of stages. The simulation process will go to the next stage only if the accuracy of simulations at the current stage satisfies a given error criterion. We propose a formula to determine the error criterion and use a stochastic differential equation model to examine the effects of different criteria. Three biochemical network models are used to evaluate the efficiency and accuracy of the proposed method. Numerical results suggest the proposed early-rejection method achieves substantial improvement in the efficiency for the inference of stochastic models.
MeSH term(s)	Bayes Theorem ; Computer Simulation ; Models, Biological ; Stochastic Processes
Language	English
Publishing date	2022-06-03
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1557-9964
ISSN (online)	1557-9964
DOI	10.1109/TCBB.2020.3039490
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: The Expression of PPAR Pathway-Related Genes Can Better Predict the Prognosis of Patients with Colon Adenocarcinoma.

Zhou, Xiao-Yu / Wang, Jian-Qi / Chen, Jin-Xu / Chen, Jing-Song

PPAR research

2022 Volume 2022, Page(s) 1285083

Abstract: The postoperative survival time and quality of life of patients with colon adenocarcinoma (COAD) varies widely. In order to make accurate decisions after surgery, clinicians need to distinguish patients with different prognostic trends. However, we still ...

Abstract	The postoperative survival time and quality of life of patients with colon adenocarcinoma (COAD) varies widely. In order to make accurate decisions after surgery, clinicians need to distinguish patients with different prognostic trends. However, we still lack effective methods to predict the prognosis of COAD patients. Accumulated evidences indicated that the inhibition of peroxisome proliferator-activated receptors (PPARs) and a portion of their target genes were associated with the development of COAD. Our study found that the expression of several PPAR pathway-related genes were linked to the prognosis of COAD patients. Therefore, we developed a scoring system (named PPAR-Riskscore) that can predict patients' outcomes. PPAR-Riskscore was constructed by univariate Cox regression based on the expression of 4 genes (NR1D1, ILK, TNFRSF1A, and REN) in tumor tissues. Compared to typical TNM grading systems, PPAR-Riskscore has better predictive accuracy and sensitivity. The reliability of the system was tested on six external validation datasets. Furthermore, PPAR-Riskscore was able to evaluate the immune cell infiltration and chemotherapy sensitivity of each tumor sample. We also combined PPAR-Riskscore and clinical features to create a nomogram with greater clinical utility. The nomogram can help clinicians make precise treatment decisions regarding the possible long-term survival of patients after surgery.
Language	English
Publishing date	2022-04-18
Publishing country	United States
Document type	Journal Article
ZDB-ID	2237981-2
ISSN	1687-4765 ; 1687-4757
ISSN (online)	1687-4765
ISSN	1687-4757
DOI	10.1155/2022/1285083
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: A Wafer Pre-Alignment Algorithm Based on Weighted Fourier Series Fitting of Circles and Least Squares Fitting of Circles.

Chen, Jingsong / Lan, Zhou / Xue, Cheng / Lan, Jun / Liu, Zhenghao / Yang, Yong

Micromachines

2023 Volume 14, Issue 5

Abstract: The wafer pre-aligner is a crucial component in the lithography process to correct the wafer center and notch orientation. To improve the precision and the efficiency of pre-alignment, a new method to calibrate the center and the orientation of a wafer ... ...

Abstract	The wafer pre-aligner is a crucial component in the lithography process to correct the wafer center and notch orientation. To improve the precision and the efficiency of pre-alignment, a new method to calibrate the center and the orientation of a wafer based on the weighted Fourier series fitting of circles (WFC) method and the least squares fitting of circles (LSC) method, respectively, is proposed. The WFC method effectively suppressed the influence of the outliers and had high stability compared with the LSC method when fitted to the center of the circle. While the weight matrix degenerated to the identity matrix, the WFC method degenerated into the Fourier series fitting of circles (FC) method. The fitting efficiency of the FC method is 28% higher than that of the LSC method, and the fitting accuracy of the center of the FC method is the same as that of the LSC method. In addition, the WFC method and the FC method perform better than the LSC method in radius fitting. The pre-alignment simulation results showed that the absolute position accuracy of the wafer was ±2 µm, the absolute direction accuracy was 0.01°, and the total calculation time was less than 3.3 s in our platform.
Language	English
Publishing date	2023-04-27
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2620864-7
ISSN	2072-666X
ISSN	2072-666X
DOI	10.3390/mi14050956
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Article: A Method of Water COD Retrieval Based on 1D CNN and 2D Gabor Transform for Absorption-Fluorescence Spectra.

Xia, Meng / Yang, Ruifang / Zhao, Nanjing / Chen, Xiaowei / Dong, Ming / Chen, Jingsong

Micromachines

2023 Volume 14, Issue 6

Abstract: Chemical Oxygen Demand (COD) is one of the indicators of organic pollution in water bodies. The rapid and accurate detection of COD is of great significance to environmental protection. To address the problem of COD retrieval errors in the absorption ... ...

Abstract	Chemical Oxygen Demand (COD) is one of the indicators of organic pollution in water bodies. The rapid and accurate detection of COD is of great significance to environmental protection. To address the problem of COD retrieval errors in the absorption spectrum method for fluorescent organic matter solutions, a rapid synchronous COD retrieval method for the absorption-fluorescence spectrum is proposed. Based on a one-dimensional convolutional neural network and 2D Gabor transform, an absorption-fluorescence spectrum fusion neural network algorithm is developed to improve the accuracy of water COD retrieval. Results show that the RRMSEP of the absorption-fluorescence COD retrieval method is 0.32% in amino acid aqueous solution, which is 84% lower than that of the single absorption spectrum method. The accuracy of COD retrieval is 98%, which is 15.3% higher than that of the single absorption spectrum method. The test results on the actual sampled water spectral dataset demonstrate that the fusion network outperformed the absorption spectrum CNN network in measuring COD accuracy, with the RRMSEP improving from 5.09% to 1.15%.
Language	English
Publishing date	2023-05-27
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2620864-7
ISSN	2072-666X
ISSN	2072-666X
DOI	10.3390/mi14061128
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Article ; Online: Similar incidence of graft glomerulonephritis in recipients with definitively diagnosed glomerulonephritis and those with unknown etiology: a retrospective observational study.

Wu, Qianqian / Ni, Xuefeng / Chen, Jingsong / Cheng, Dongrui / Zhang, Mingchao / Xie, Kenan / Li, Xue / Wen, Jiqiu

Renal failure

2024 Volume 46, Issue 1, Page(s) 2325644

Abstract: Objective: In China, most of the patients who underwent kidney transplants have unknown causes of end-stage renal disease (uESRD). However, little is known regarding the incidence of graft glomerulonephritis (GN) and graft survival in kidney transplant ... ...

Abstract	Objective: In China, most of the patients who underwent kidney transplants have unknown causes of end-stage renal disease (uESRD). However, little is known regarding the incidence of graft glomerulonephritis (GN) and graft survival in kidney transplant recipients (KTRs) with uESRD. Methods: In this retrospective cohort study, 473 of the 565 KTRs who underwent kidney transplantation (KTx) from 2015 to 2020 were included. We mainly observed the occurrence of graft GN between uESRD group and definitively diagnosed GN group, and repeatedly compared after propensity score matching (PSM). Results: The median follow-up was 50 months in 473 KTRs, and about 75% of KTRs of native kidney disease of unknown etiology. The total cumulative incidence of graft GN was 17%, and no difference was observed between the definitively diagnosed GN group and the uESRD group ( Conclusions: The incidence of graft GN was similar between uESRD and definitively diagnosed GN group. The allograft survival was also similar between two groups.
MeSH term(s)	Male ; Humans ; Incidence ; Retrospective Studies ; Glomerulonephritis/complications ; Glomerulonephritis/epidemiology ; Kidney Failure, Chronic/epidemiology ; Kidney Failure, Chronic/surgery ; China/epidemiology
Language	English
Publishing date	2024-03-06
Publishing country	England
Document type	Observational Study ; Journal Article
ZDB-ID	632949-4
ISSN	1525-6049 ; 0886-022X
ISSN (online)	1525-6049
ISSN	0886-022X
DOI	10.1080/0886022X.2024.2325644
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Characterization of diseased primary human hepatocytes in an all-human cell-based triculture system.

Odanga, Justin J / Anderson, Sharon M / Breathwaite, Erick K / Presnell, Sharon C / LeCluyse, Edward L / Chen, Jingsong / Weaver, Jessica R

Scientific reports

2024 Volume 14, Issue 1, Page(s) 6772

Abstract: Liver diseases, including NAFLD, are a growing worldwide health concern. Currently, there is a lack of suitable in vitro models that sustain basic primary human hepatocyte (PHH) morphology and functionality while supporting presentation of disease- ... ...

Abstract	Liver diseases, including NAFLD, are a growing worldwide health concern. Currently, there is a lack of suitable in vitro models that sustain basic primary human hepatocyte (PHH) morphology and functionality while supporting presentation of disease-associated phenotypic characteristics such as lipid accumulation and inflammasome activation. In TruVivo, an all-human triculture system (hTCS), basic metabolic functions were characterized in PHHs isolated from normal or diseased livers during two-weeks of culture. Decreases in albumin and urea levels and CYP3A4 activity were seen in diseased-origin PHHs compared to normal PHHs along with higher CYP2E1 expression. Positive expression of the macrophage markers CD68 and CD163 were seen in the diseased PHH preparations. Elevated levels of the pro-inflammatory cytokines IL-6 and MCP-1 and the fibrotic markers CK-18 and TGF-β were also measured. Gene expression of FASN, PCK1, and G6PC in the diseased PHHs was decreased compared to the normal PHHs. Further characterization revealed differences in lipogenesis and accumulation of intracellular lipids in normal and diseased PHHs when cultured with oleic acid and high glucose. TruVivo represents a promising new platform to study lipogenic mechanisms in normal and diseased populations due to the preservation of phenotypic differences over a prolonged culture period.
MeSH term(s)	Humans ; Hepatocytes/metabolism ; Non-alcoholic Fatty Liver Disease/metabolism ; Cytochrome P-450 CYP2E1/metabolism ; Albumins/metabolism
Chemical Substances	Cytochrome P-450 CYP2E1 (EC 1.14.13.-) ; Albumins
Language	English
Publishing date	2024-03-21
Publishing country	England
Document type	Journal Article
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-024-57463-7
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Article ; Online: Study on Optimization of Stope Structural Parameters and Filling Scheme of Wawu Phosphate Mine in Yichang City, China

Gao Peng / Dong Gaoyi / Chen Jingsong / Chunmei Zhou / Lin Manqing / Zhang Weizhong / Sun Yang

Frontiers in Earth Science, Vol

2022 Volume 10

Abstract: Reasonable stope structural parameters are very important to ensure the safety and efficiency of mining. In this paper, based on the elastic-plastic constitutive model of Mohr-Coulomb strength criterion, the reasonable span and critical span are ... ...

Abstract	Reasonable stope structural parameters are very important to ensure the safety and efficiency of mining. In this paper, based on the elastic-plastic constitutive model of Mohr-Coulomb strength criterion, the reasonable span and critical span are calculated by using simply supported beam theory and mine room width calculation formula. PLAXIS2D finite element analysis software was used to conduct numerical simulation research on 7 m × 9 m, 5 m × 12 m stope structure parameter schemes and 7 m × 9m, 5 m × 12 m waste rock filling schemes. The optimal structure parameters of the stope were determined based on the calculation and analysis of displacement variation rule, surrounding rock stress distribution and plastic zone. The analysis and simulation results show that Case 1 one-time mining 7 m × 9 m and Case 3 one-time mining 5 m × 12 m, the plastic zone is connected, the simulation calculation is not convergent, and the stope is unstable. Case 2 waste rock filling 7 m × 9 m and Case 4 waste rock filling 5 m × 12 m, the distribution and change of stress, displacement and plastic zone in the goaf under the two cases are compared, and finally the waste rock filling 7 m × 9 m is obtained can improve the economy and safety of mining in the mining area, and verify the feasibility of implementing stope structural parameters and waste rock filling mining system is verified.
Keywords	phosphate mine ; optimization of stope structure parameters ; stability of surrounding rock ; PLAXIS2D ; numerical simulation ; Science ; Q
Subject code	600
Language	English
Publishing date	2022-04-01T00:00:00Z
Publisher	Frontiers Media S.A.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Book ; Online: AutoCellLibX

Liang, Tingyuan / Chen, Jingsong / Li, Lei / Zhang, Wei

Automated Standard Cell Library Extension Based on Pattern Mining

2022

Abstract: Custom standard cell libraries can improve the final quality of the corresponding VLSI designs but properly customizing standard cell libraries remains challenging due to the complex characteristics of the VLSI designs. This paper presents an automatic ... ...

Abstract	Custom standard cell libraries can improve the final quality of the corresponding VLSI designs but properly customizing standard cell libraries remains challenging due to the complex characteristics of the VLSI designs. This paper presents an automatic standard-cell library extension framework, AutoCellLibX. It can find a set of standard cell cluster pattern candidates from the post-technology mapping gate-level netlist, with the consideration of standard cell characteristics and technology mapping constraints, based on our high-efficiency frequent subgraph mining algorithm. Meanwhile, to maximize the area benefit of standard cell customization for the given gate-level netlist, AutoCellLibX includes our proposed pattern combination algorithm which can iteratively find a set of gate-level patterns from numerous candidates as the extension part of the given initial standard cell library. To the best of our knowledge, AutoCellLibX is the first automated standard cell extension framework that closes the optimization loop between the analysis of gate-level netlist and standard cell library customization for VLSI design productivity. The experiments with FreePDK45 library and benchmarks from various domains show that AutoCellLibX can generate the library extension with up to 5 custom standard cells within 1.1 hours for each of the 31 benchmark designs and the resultant extension of the standard cell library can save design area by 4.49% averagely.
Keywords	Computer Science - Hardware Architecture
Subject code	005
Publishing date	2022-07-25
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: A Dynamic Constitutive Model and Simulation of Braided CFRP under High-Speed Tensile Loading.

Jin, Wei / Zhang, Yingchuan / Jiang, Lanxin / Yang, Guangwu / Chen, Jingsong / Li, Penghang

Materials (Basel, Switzerland)

2022 Volume 15, Issue 18

Abstract: In this study, a dynamic constitutive model for woven-carbon-fiber-reinforced plastics (CFRP) is formulated by combining dynamic tensile test data and fitting curves and incorporating variation rules established for the modulus of elasticity, strength, ... ...

Abstract	In this study, a dynamic constitutive model for woven-carbon-fiber-reinforced plastics (CFRP) is formulated by combining dynamic tensile test data and fitting curves and incorporating variation rules established for the modulus of elasticity, strength, and fracture strain with respect to the strain rate. The dynamic constitutive model is then implemented with finite element software. The accuracy and applicability of the dynamic constitutive model are evaluated by comparing the numerically predicted load-displacement curves and strain distributions with the test data. The stress distribution, failure factor, modulus, and strength of the material under dynamic tension are also explored. The results show that the response simulated with the dynamic constitutive model is in good agreement with the experimental results. The strain is uniformly distributed during the elastic phase compared with the DIC strain field. Subsequently, it becomes nonuniform when stress exceeds 600 MPa. Then, the brittle fracture occurs. With the increase in the strain rate, the input modulus decreased, and the tensile strength increased. When the displacement was 0.13 mm, the simulation model was damaged at a low strain rate, and the stress value was 837.8 MPa. When it reached the high strain rate of 800 s
Language	English
Publishing date	2022-09-14
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2487261-1
ISSN	1996-1944
ISSN	1996-1944
DOI	10.3390/ma15186389
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