Brep2Seq: a dataset and hierarchical deep learning network for reconstruction and generation of computer-aided design models

Zhang Shu-Ming,Guan Zhidong,Jiang Hao,Ning Tao,Wang Xiao-Dong,Tan Pingan 한국CDE학회 2024 Journal of computational design and engineering Vol.11 No.1

Three-dimensional (3D) reconstruction is a significant research topic in the field of computer-aided design (CAD), which is used to recover editable CAD models from original shapes, including point clouds, voxels, meshes, and boundary representations (B-rep). Recently, there has been considerable research interest in deep model generation due to the increasing potential of deep learning methods. To address the challenges of 3D reconstruction and generation, we propose Brep2Seq, a novel deep neural network designed to transform the B-rep model into a sequence of editable parametrized feature-based modeling operations comprising principal primitives and detailed features. Brep2Seq employs an encoder-decoder architecture based on the transformer, leveraging geometry and topological information within B-rep models to extract the feature representation of the original 3D shape. Due to its hierarchical network architecture and training strategy, Brep2Seq achieved improved model reconstruction and controllable model generation by distinguishing between the primary shape and detailed features of CAD models. To train Brep2Seq, a large-scale dataset comprising 1 million CAD designs is established through an automatic geometry synthesis method. Extensive experiments on both DeepCAD and Fusion 360 datasets demonstrate the effectiveness of Brep2Seq, and show its applicability to simple mechanical components in real-world scenarios. We further apply Brep2Seq to various downstream applications, including point cloud reconstruction, model interpolation, shape constraint generation, and CAD feature recognition.

Survival Analysis of Oral Squamous Cell Carcinoma in a Subgroup of Young Patients

Fan, Yi,Zheng, Lei,Mao, Ming-Hui,Huang, Ming-Wei,Liu, Shu-Ming,Zhang, Jie,Li, Sheng-Lin,Zheng, Lei,Zhang, Jian-Guo Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.20

Oral squamous cell carcinoma (OSCC) is predominantly a disease of middle-aged men with long-term exposure to tobacco and alcohol. An increasing trend has been reported at a younger age worldwide. Clinical records of 100 patients under the age of 45 years treated specifically for oral cavity SCC in our hospital during a 10-year period were retrospectively analyzed to calculate the survival rates. An obvious male predominance coincided with smoking trend among Chinese young individuals and female patients were more likely to have no traditional risk factors such as smoking or drinking. The 5-year overall survival rate and disease-free survival rate were 61.0% and 75.5%, respectively, consistent with other published series over the decade showing a relatively better survival among the young. No significant differences clearly correlated with outcome when comparing non-smokers non-drinkers to ever-smokers and ever drinkers (P>0.05). Overall survival rate and disease free survival rate was found to be significantly higher in patients with early-stage disease than with advanced stage disease (P=0.001, P=0.009 respectively). The strong influence of clinical stage on prognosis emphasizes the importance of early diagnosis and treatment of oral malignancies for this unique clinical subgroup.

The Effect of Transformation on the Virulence of Streptococcus pneumoniae

Zhang Xue-Mei,Yin Yi-Bing,Zhu Dan,Chen Bao-De,Luo Jin-Yong,Deng Vi-Ping,Liu Ming-Fang,Chen Shu-Hui,Meng Jiang-Ping,Lan Kai,Huang Yuan-Shuai,Kang Ge-Fei The Microbiological Society of Korea 2005 The journal of microbiology Vol.43 No.4

Although pneumococcus is one of the most frequently encountered opportunistic pathogen in the world, the mechanisms responsible for its infectiveness have not yet been fully understood. In this paper, we have attempted to characterize the effects of pneumococcal transformation on the pathogenesis of the organism. We constructed three transformation-deficient pneumococcal strains, which were designated as Nos. 1d, 2d, and 22d. The construction of these altered strains was achieved via the insertion of the inactivated gene, comE, to strains 1, 2 and 22. We then conducted a comparison between the virulence of the transformation-deficient strains and that of the wild-type strains, via an evaluation of the ability of each strain to adhere to endothelial cells, and also assessed psaA mRNA expression, and the survival of hosts after bacterial challenge. Compared to what was observed with the wild-type strains, our results indicated that the ability of all of the transformation-deficient strains to adhere to the ECV304 cells had been significantly reduced (p < 0.05), the expression of psaA mRNA was reduced significantly (p < 0.05) in strains 2d and 22d, and the median survival time of mice infected with strains Id and 2d was increased significantly after intraperitoneal bacterial challenge (p < 0.05). The results of our study also clearly indicated that transformation exerts significant effects on the virulence characteristics of S. pneumoniae, although the degree to which this effect is noted appears to depend primarily on the genetic background of the bacteria.

Characteristics of Microsatellites in the Transcript Sequences of the Laccaria bicolor Genome

( Shu Xian Li ),( Xin Ye Zhang ),( Tong Ming Yin ) 한국미생물 · 생명공학회 2010 Journal of microbiology and biotechnology Vol.20 No.3

Correlation of CT Perfusion Images with VEGF Expression in Solitary Brain Metastases

Zhang, Jian-Hua,Wang, Ming-Sheng,Pan, Hai-Hong,Li, Shu-Feng,Wang, Zhong-Qiu,Chen, Wang-Sheng Asian Pacific Journal of Cancer Prevention 2012 Asian Pacific journal of cancer prevention Vol.13 No.4

Objectives: To obtain permeability surface (PS) values using multi-slice helical CT perfusion imaging and to evaluate the spatial distribution correlation between PS values and vascular endothelial growth factor (VEGF) expression in solitary brain metastases. Methods: Imaging was performed on 21 patients, PS values being calculated from the central, border and peripheral parts of tumours. VEGF expression was determined by immunohistochemical staining. Results: Rim enhancement was found in 16 cases, the border of the tumour featuring PS elevation with high VEGF expression in 13 cases. In the 5 cases with nodular enhancement, the border and the central part had high permeability and VEGF expression was high in all cases, the correlation being significant (P<0.01). Conclusion: VEGF expression in brain metastases positively correlates with PS values from CT perfusion imaging, so that the latter can be used in the surveillance of angiogenic activity in brain metastases.

Prognostic Significance of CYFRA21-1, CEA and Hemoglobin in Patients with Esophageal Squamous Cancer Undergoing Concurrent Chemoradiotherapy

Zhang, Hai-Qin,Wang, Ren-Ben,Yan, Hong-Jiang,Zhao, Wei,Zhu, Kun-Li,Jiang, Shu-Mei,Hu, Xi-Gang,Yu, Jin-Ming Asian Pacific Journal of Cancer Prevention 2012 Asian Pacific journal of cancer prevention Vol.13 No.1

Purpose: To evaluate the prognostic value of serum CYFRA21-1, CEA and hemoglobin levels regarding long-term survival of patients with esophageal squamous cell carcinoma (ESCC) treated with concurrent chemoradiotherapy (CRT). Methods: Age, gender, Karnofsky Performance Status (KPS), tumor location, tumor length, T stage, N stage and serum hemoglobin, and CYFRA21-1 and CEA levels before concurrent CRT were retrospectively investigated and related to outcome in 113 patients receiving 5-fluorouracil and cisplatin combined with radiotherapy for ESCC. The Kaplan-Meier method was used to analyze prognosis, the log-rank to compare groups, the Cox proportional hazards model for multivariate analysis, and ROC curve analysis for assessment of predictive performance of biologic markers. Results: The median survival time was 20.1 months and the 1-, 2-, 3-, 5- year overall survival rates were 66.4%, 43.4%, 31.9% and 15.0%, respectively. Univariate analysis showed that factors associated with prognosis were KPS, tumor length, T-stage, N-stage, hemoglobin, CYFRA21-1 and CEA level. Multivariate analysis showed T-stage, N-stage, hemoglobin, CYFRA21-1 and CEA level were independent predictors of prognosis. By ROC curve, CYFRA21-1 and hemoglobin showed better predictive performance for OS than CEA (AUC= 0.791, 0.704, 0.545; P=0.000, 0.000, 0.409). Conclusions: Of all clinicopathological and molecular factors, T stage, N stage, hemoglobin, CYFRA21-1 and CEA level were independent predictors of prognosis for patients with ESCC treated with concurrent CRT. Among biomarkers, CYFRA21-1 and hemoglobin may have a better predictive potential than CEA for long-term outcomes.

SPON2 Promotes M1-like Macrophage Recruitment and Inhibits Hepatocellular Carcinoma Metastasis by Distinct Integrin–Rho GTPase–Hippo Pathways

Zhang, Yan-Li,Li, Qing,Yang, Xiao-Mei,Fang, Fang,Li, Jun,Wang, Ya-Hui,Yang, Qin,Zhu, Lei,Nie, Hui-Zhen,Zhang, Xue-Li,Feng, Ming-Xuan,Jiang, Shu-Heng,Tian, Guang-Ang,Hu, Li-Peng,Lee, Ho-Young,Lee, Su-J American Association for Cancer Research 2018 Cancer research Vol.78 No.9

<P>Matricellular protein SPON2 acts as an HCC suppressor and utilizes distinct signaling events to perform dual functions in HCC microenvironment.</P><P>Tumor-associated macrophages (TAM) represent key regulators of the complex interplay between cancer and the immune microenvironment. Matricellular protein SPON2 is essential for recruiting lymphocytes and initiating immune responses. Recent studies have shown that SPON2 has complicated roles in cell migration and tumor progression. Here we report that, in the tumor microenvironment of hepatocellular carcinoma (HCC), SPON2 not only promotes infiltration of M1-like macrophages but also inhibits tumor metastasis. SPON2-α4β1 integrin signaling activated RhoA and Rac1, increased F-actin reorganization, and promoted M1-like macrophage recruitment. F-Actin accumulation also activated the Hippo pathway by suppressing LATS1 phosphorylation, promoting YAP nuclear translocation, and initiating downstream gene expression. However, SPON2-α5β1 integrin signaling inactivated RhoA and prevented F-actin assembly, thereby inhibiting HCC cell migration; the Hippo pathway was not noticeably involved in SPON2-mediated HCC cell migration. In HCC patients, SPON2 levels correlated positively with prognosis. Overall, our findings provide evidence that SPON2 is a critical factor in mediating the immune response against tumor cell growth and migration in HCC.</P><P><B>Significance:</B> Matricellular protein SPON2 acts as an HCC suppressor and utilizes distinct signaling events to perform dual functions in HCC microenvironment.</P><P><B>Graphical Abstract:</B> http://cancerres.aacrjournals.org/content/canres/78/9/2305/F1.large.jpg. <I>Cancer Res; 78(9); 2305–17. ©2018 AACR</I>.</P><P><B>Graphical Abstract</B></P><P> [Figure]</P>

Impact of Initial Moisture Content on the Shrinkage-Swelling Behavior of Heishan Bentonite

Shu-Cui Zhang,Kai Li,Ke-Ming Sun,Shuo Wang 대한토목학회 2022 KSCE JOURNAL OF CIVIL ENGINEERING Vol.26 No.2

Bentonite is generally used as buffer or backfill material in geological repositories and its mechanical behavior is important to affect surrounding structures. In this paper, cyclic shrinkage-swelling tests are performed on Heishan bentonite taking into account the effect of initial moisture content. Results reveal that the shrinkage-swelling behavior of Heishan bentonite relies on initial moisture content and an obvious water retention property is obtainedwith the increases of initial moisture content. To investigate the accurate determination of aforementioned behavior of studied bentonite during drying and wetting cycle, the captured image of digital camera and the binary image processing technique are employed in this study. A simplified analytical model is proposed to simulate the shrinkage-swelling behavior at different initial moisture contents and the model parameters are calibrated by experimental results of Heishan bentonite. Based on the model performance, the model simulation agrees well with the tests and the proposed approach is able to predict the behavior of Heishan bentonite.

Port-Site Metastases and Chimney Effect of B-Ultrasound-Guided and Laparoscopically-Assisted Hyperthermic Intraperitoneal Perfusion Chemotherapy

Ming-Chen Ba,Hui Long,Xiang-Liang Zhang,Yuan-Feng Gong,Zhao-Fei Yan,Shuai Wang,Yun-Qiang Tang,Shu-Zhong Cui 연세대학교의과대학 2017 Yonsei medical journal Vol.58 No.3

Purpose: CO2 leakage along the trocar (chimney effect) has been proposed to be an important factor underlying port-site metastasisafter laparoscopic surgery. This study aimed to test this hypothesis by comparing the incidence of port-site metastasis betweenB-ultrasound-guided and laparoscopically-assisted hyperthermic intraperitoneal perfusion chemotherapy (HIPPC). Materials and Methods: Sixty-two patients with malignant ascites induced by gastrointestinal or ovarian cancer were divided into two groups to receive either B-ultrasound-guided or laparoscopically-assisted HIPPC. Clinical efficacy was assessed from the objective remission rate (ORR), the Karnofsky Performance Status (KPS) score, and overall survival. The incidence of port-site metastasis was compared between the two groups. Results: Patients in the B-ultrasound (n=32) and laparoscopy (n=30) groups were comparable in terms of age, sex, primary diseasetype, volume of ascites, and free cancer cell (FCC)-positive ascites. After HIPPC, there were no significant differences between the B-ultrasound and laparoscopy groups in the KPS score change, ORR, and median survival time. The incidence of port-site metastasis after HIPPC was not significantly different between the B-ultrasound (3 of 32, 9.36%) and laparoscopy (3 of 30, 10%) groups, but significantly different among pancreatic, gastric, ovarian, and colorectal cancer (33.33, 15.79, 10.00, and 0.00%, p<0.001). Conclusion: The chimney effect may not be the key reason for port-site metastasis after laparoscopy. Other factors may play a role, including the local microenvironment at the trocar site and the delivery of viable FCCs (from the tumor or malignant ascites) to the trauma site during laparoscopic surgery.

Effect of Fluorescence Light on Phenolic Compounds and Antioxidant Activities of Soybeans (Glycine max L. Merrill) during Germination

Ming Yuan,Xuejing Jia,ChunBang Ding,Haiqiong Zeng,Lei Du,Shu Yuan,Zhongwei Zhang,Qi Wu,Chao Hu,Jing Liu 한국식품과학회 2015 Food Science and Biotechnology Vol.24 No.5

Effects of light on phenolic compounds and antioxidant activities during germination of soybean seeds were studied. Soybean seeds were germinated in the presence and absence of light. Chlorophylls and morphological characteristics of sprouts were evaluated daily. Antioxidant activities were determined using 2,2-diphenyl-1-picryl-hydrazyl (DPPH) and ferric reducing activity power methods. Morphological characteristics of light-grown sprouts were superior to dark-grown sprouts and the metabolism of phenolic compounds was regulated by light. Light treatment improved accumulation of phenolic compounds in soybean sprouts and increased antioxidant activities. The optimum harvest time of light-grown sprouts was on the seventh day when sprouts achieved the best nutraceutical value. Green sprouts can serve as a good vegetable source for the human diet.