Xiaolei Shen

Jinzhou Medical University

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Jian‐Ren Liu

Shanghai Jiao Tong University

Rong Zhao

First Affiliated Hospital of Kunming Medical University

Zhihui Shao

Yunnan University

Qiang Zeng

South China University of Technology

Hongbin Zhang

Yunnan University

Lishi Wang

Inner Mongolia Medical University

Fengqun Wang

Southern Medical University

Li‐Wei Zou

Shanghai University of Traditional Chinese Medicine

Feng-Di Liu

Shanghai Jiao Tong University

Xinwei He

Taizhou Central Hospital

Cooperative Institutions

Shanghai Jiao Tong University

Shanghai Ninth People's Hospital

Chinese Academy of Sciences

Washington University in St. Louis

Zhejiang University

Jinzhou Medical University

South China University of Technology

Sichuan University

Fudan University

Chinese Academy of Medical Sciences & Peking Union Medical College

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Brain Tumor Segmentation Based on Refined Fully Convolutional Neural Networks with A Hierarchical Dice Loss

arXiv (Cornell University) (2017)

Jiachi Zhang Xiaolei Shen Tianqi Zhuo Hong Zhou

As a basic task in computer vision, semantic segmentation can provide fundamental information for object detection and instance segmentation to help the artificial intelligence better understand real world. Since the proposal of fully convolutional neural network (FCNN), it has been widely used in semantic segmentation because of its high accuracy of pixel-wise classification as well as high precision of localization. In this paper, we apply several famous FCNN to brain tumor segmentation, making comparisons and adjusting network architectures to achieve better performance measured by metrics such as precision, recall, mean of intersection of union (mIoU) and dice score coefficient (DSC). The adjustments to the classic FCNN include adding more connections between convolutional layers, enlarging decoders after up sample layers and changing the way shallower layers' information is reused. Besides the structure modification, we also propose a new classifier with a hierarchical dice loss. Inspired by the containing relationship between classes, the loss function converts multiple classification to multiple binary classification in order to counteract the negative effect caused by imbalance data set. Massive experiments have been done on the training set and testing set in order to assess our refined fully convolutional neural networks and new types of loss function. Competitive figures prove they are more effective than their predecessors.

Dice

Sørensen–Dice coefficient

Binary classification

10.48550/arxiv.1712.09093

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Citations (22)

Dual cryoprotective and antioxidant effects of silver carp (Hypophthalmichthys molitrix) protein hydrolysates on unwashed surimi stored at conventional and ultra-low frozen temperatures

LWT (2021)

Xiaolei Shen Ting Li Xianghong Li Faxiang Wang Yongle Liu

The dual cryoprotective and antioxidant effects of silver carp hydrolysates on unwashed surimi, stored at conventional (−18 °C) or ultra-low (−60 °C) temperatures and subject to three and six freeze-thaw treatments, were examined. The addition of hydrolysates could alleviate the formation of carbonyls of myofibrillar protein, inhibit the decrease of free sulfhydryl content and keep the protein bands stability compared to the control and SuSo group. The lipid peroxidation product malondialdehyde, and the target volatiles hexanal, nonanal and 1-octen-3-ol of the unwashed surimi as detected by HS-SPME-GC-MS, increased slowly under the protection of hydrolysates. The oxidation for proteins and lipids in freeze-thawed samples stored at −18 °C are lower than those of samples stored at −60 °C (p < 0.05), indicating that ultra-low frozen temperature storage accompanied by freeze-thaw cycles accelerates structural deterioration of unwashed surimi. LF-NMR and SEM also revealed that the hydrolysates facilitated to form gel network with preferable structural integrity and stability during freeze-thaw treatments. This study provides theoretical supports for the application of silver carp protein hydrolysates as a cryoprotectant in transportation and storage of frozen surimi.

Cryoprotectant

Lipid Oxidation

Hypophthalmichthys

Malondialdehyde

10.1016/j.lwt.2021.112563

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Citations (40)

CCDC 899102: Experimental Crystal Structure Determination

The Cambridge Structural Database (2013)

Ze‐Qian Li Shaoxiong Zhang Shou‐Tao Wu Xiaolei Shen Li‐Wei Zou

An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.

10.5517/ccz5l90

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Molecularly imprinted electrochemical sensor for advanced diagnosis of alpha-fetoprotein

Analytical Methods (2016)

Xiaolei Shen Ya Ma Qiang Zeng Jia Tao Jianzhi Huang

An accurate, easily prepared, low cost biosensor is fabricated by a surface imprinting method for the specific determination of AFP

Alpha-fetoprotein

Alpha (finance)

Electrochemical gas sensor

10.1039/c6ay01922f

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Citations (25)

MIPs-graphene nanoplatelets-MWCNTs modified glassy carbon electrode for the determination of cardiac troponin I

Analytical Biochemistry (2016)

Ya Ma Xiaolei Shen Haishui Wang Jia Tao Jianzhi Huang

Ethylene glycol dimethacrylate

Molecularly imprinted polymer

Azobisisobutyronitrile

Electrochemical gas sensor

Glutaraldehyde

10.1016/j.ab.2016.12.018

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Citations (45)

Enantioselective Palladium‐Catalyzed Decarboxylative Allylation of Carbazolones: Total Synthesis of (−)‐Aspidospermidine and (+)‐Kopsihainanine A

Angewandte Chemie International Edition (2013)

Ze‐Qian Li Shaoxiong Zhang Shou‐Tao Wu Xiaolei Shen Li‐Wei Zou

Functionalized chiral carbazolones with α-quaternary carbon centers are formed through the ligand-controlled Pd-catalyzed enantioselective decarboxylative allylic alkylation of carbazolones (see scheme). This catalytic asymmetric reaction was employed as the key step in the total synthesis of aspidospermidine and (+)-kopsihainanine A.

Tsuji–Trost reaction

Chiral ligand

10.1002/anie.201209878

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Citations (128)

Rice ubiquitin‐conjugating enzyme OsUBC26 is essential for immunity to the blast fungus Magnaporthe oryzae

Molecular Plant Pathology (2021)

Xin Liu Linlin Song Heng Zhang Yijuan Lin Xiaolei Shen

Abstract The functions of ubiquitin‐conjugating enzymes (E2) in plant immunity are not well understood. In this study, OsUBC26, a rice ubiquitin‐conjugating enzyme, was characterized in the defence against Magnaporthe oryzae . The expression of OsUBC26 was induced by M. oryzae inoculation and methyl jasmonate treatment. Both RNA interference lines and CRISPR/Cas9 null mutants of OsUBC26 reduced rice resistance to M. oryzae . WRKY45 was down‐regulated in OsUBC26 null mutants. In vitro E2 activity assay indicated that OsUBC26 is an active ubiquitin‐conjugating enzyme. Yeast two‐hybrid assays using OsUBC26 as bait identified the RING‐type E3 ligase UCIP2 as an interacting protein. Coimmunoprecipitation assays confirmed the interaction between OsUBC26 and UCIP2. The CRISPR/Cas9 mutants of UCIP2 also showed compromised resistance to M. oryzae . Yeast two‐hybrid screening using UCIP2 as bait revealed that APIP6 is a binding partner of UCIP2. Moreover, OsUBC26 working with APIP6 ubiquitinateds AvrPiz‐t, an avirulence effector of M. oryzae , and OsUBC26 null mutation impaired the proteasome degradation of AvrPiz‐t in rice cells. In summary, OsUBC26 plays important roles in rice disease resistance by regulating WRKY45 expression and working with E3 ligases such as APIP6 to counteract the effector protein AvrPiz‐t from M. oryzae .

Magnaporthe

10.1111/mpp.13132

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Citations (21)

Predictive role of CHADS₂ and CHA₂DS₂-VASc scores on stroke and thromboembolism in patients without atrial fibrillation: a meta-analysis

Annals of Medicine (2016)

Feng-Di Liu Xiaolei Shen Rong Zhao Gefei Li Yi-Lan Wu

Objective: CHA2DS2-VASc is the extension of the CHADS2 score developed by Birmingham 2009. This risk stratification schema is often used in clinical setting when considering additional risk factors for developing stroke in AF patients. However, its role in the non-AF population is unknown. This study was designed to evaluate the accuracy of the CHADS2 and the CHA2DS2-VASc scoring systems.Methods: Studies designed for CHADS2 and CHA2DS2-VASc score in stratifying the risks for stroke development in non-AF patients were included.Results: Among the 114 studies identified, six trials were chosen finally and included for meta-analysis. The pooled diagnostic odds ratio (DOR) for CHADS2 and CHA2DS2-VASc was 2.86 (95% CI =1.83–4.28) and 2.80 (95% CI =1.83–4.28), respectively. CHA2DS2-VASc score was of better sensitivity than CHADS2 score (0.920 vs. 0.768). However, both scores were showed to have inherent heterogeneity and poor specificity.Conclusions: Though having good diagnostic accuracy, the clinical application of the CHADS2 and CHA2DS2-VASc scores in predicting risk of stroke development in non-AF patients still needs further validation.Key messageThe overall diagnostic accuracy of CHADS2 and CHA2DS2-VASc in stroke-risk stratification was good in patients with non-atrial fibrillation.

Stroke

CHA2DS2–VASc score

Diagnostic odds ratio

Risk Stratification

10.1080/07853890.2016.1179390

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Citations (17)

Cancer antigen 125 detection using the plasmon resonance scattering properties of gold nanorods

The Analyst (2013)

Kaixia Zhang Xiaolei Shen

Cancer antigen 125 (CA 125) is a useful tumor marker with a threshold value of 35 U mL−1 expressed by more than 80% of patients with non-mucinous epithelial ovarian cancer. In this work, a novel strategy for the analysis of CA 125 using the plasmon resonance scattering (PRS) properties of gold nanorods was proposed. The gold nanorod (GNR)–anti-CA 125 conjugates were prepared first. The immunoreaction between the GNR modified CA 125 antibody and CA 125 took place in aqueous solution after the addition of CA 125. The target protein concentration was determined by analyzing the level of GNR aggregation caused by CA 125 antibody–antigen interactions using PRS. At a concentration of 1.0–80 U mL−1, CA 125 could be determined with a detection limit of 0.4 U mL−1. The PRS immunosensor showed high sensitivity, selectivity, and reproducibility. Determination of CA 125 in serum samples showed good recovery.

Nanorod

10.1039/c3an36614f

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Citations (44)

Altered Spontaneous Activity and Functional Connectivity in the Posterior Pons of Patients With Migraine Without Aura

Journal of Pain (2019)

Zhaoxia Qin Xinwei He Jilei Zhang Shuai Xu Gefei Li

Pons

Cortical Spreading Depression

Parahippocampal gyrus

10.1016/j.jpain.2019.08.001

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Citations (11)