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A Method for Segmentation of Glioma on Multimodal Magnetic Resonance Images Based on Wavelet Fusion and Deep Learning
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GONG Jin-chang, WANG Yu, WANG Yuan-jun
Chinese Journal of Magnetic Resonance, 2020, 37(2): 131-143.
DOI: 10.11938/cjmr20192709
An automatic algorithm based on wavelet fusion is proposed for segmenting brain glioma with blurred boundaries and complex intratumoral structures on multimodal magnetic resonance (MR) images. Firstly, the T1, T1ce, T2 and Flair MR images of brain glioma are fused with the bias field corrected. Secondly, the image blocks to be classified are extracted, and the 3D-UNet network is trained to classify the pixels in the image blocks. Finally, the trained network model is used for segmentation, and the contour extraction method based on connected regions is used to reduce false positives. The average segmentation accuracy (DSC ) of the whole, core and edema parts of the tumors was found to be 90.64%, 80.74% and 86.37%, respectively. The results indicated that the accuracy of the algorithm proposed was similar with or higher than the gold standard method. Compared with the method without multimodal image fusion, the algorithm proposed not only reduced the amount of data and redundant information in the input network, but also improved the accuracy and robustness of segmentation.
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Prostate Cancer Diagnosis Based on Cascaded Convolutional Neural Networks
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LIU Ke-wen, LIU Zi-long, WANG Xiang-yu, CHEN Li, LI Zhao, WU Guang-yao, LIU Chao-yang
Chinese Journal of Magnetic Resonance, 2020, 37(2): 152-161.
DOI: 10.11938/cjmr20192717
Interpreting magnetic resonance imaging (MRI) data by radiologists is time consuming and demands special expertise. Diagnosis of prostate cancer (PCa) with deep learning can also be time consuming and data storage consuming. This work presents an automated method for PCa detection based on cascaded convolutional neural network (CNN), including pre-network and post-network. The pre-network is based on a Faster-RCNN and trained with prostate images in order to separate the prostate from nearby tissues; the ResNet-based post-network is for PCa diagnosis, which is connected by bottlenecks and improved by applying batch normalization (BN) and global average pooling (GAP). The experimental results demonstrated that the cascaded CNN proposed had a good classification results on the in-house datasets, with less training time and computation resources.
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Calculating Porosity From Two-Dimensional NMR Relaxation Spectra of the Leikoupo Group's 4th Section
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HOU Ke-jun, WU Jian-meng, GE Xiang, ZHANG Shi-mao
Chinese Journal of Magnetic Resonance, 2020, 37(2): 162-171.
DOI: 10.11938/cjmr20192708
Formation porosity can be calculated from one-dimensional nuclear magnetic resonance (NMR) logging data with a fixed cutoff value and the volume model of conventional logging data. However, the porosity calculated with this method often appears to be overestimated in the enlarged hole section. In this work, the calculation methods for T 2 and T 1 nuclear magnetic porosity from NMR results of core samples and two-dimensional NMR logging data were investigated. Firstly, the characteristics of NMR relaxation spectra of fluids at different pore sizes were obtained and used to analyze the distribution range of pore diameter and affecting factors of the cutoff value of the drilling fluid peak. A model for estimating the cutoff value of the drilling fluid relaxation time was then established. A method for calculating the effective porosity was then proposed with variable cutoff value of clay bond water relaxation time, according to the deterministic principle about cutoff value of clay bond water relaxation time in un-enlarged and enlarged hole section. The method proposed was applied to the data from many wells, and demonstrated better accuracy than the traditional method using T 1 distribution spectra. The method can effectively solve the problem of overestimated porosity in the enlarged hole section and meet the requirement for reservoir evaluation.
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Effects of Echo Time on NMR Apparent Porosity and Correction Methods
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ZHANG Gong, HE Zong-bin, CAO Wen-qian, CHEN Yao
Chinese Journal of Magnetic Resonance, 2020, 37(2): 172-181.
DOI: 10.11938/cjmr20192771
In order to study the effect of echo time (T E ) on nuclear magnetic resonance (NMR) porosity in tight oil (gas) and shale reservoir, multi-T E NMR experiments and NMR numerical simulations were performed on CuSO4 solutions with specific transversal relaxation time (T 2 ). The results showed that the normalization NMR porosity of different T 2 relaxation components remained 100% in the low T E region, and rapidly decreased with increasing T E . When T E was greater than certain value, the normalization NMR porosity dropped to zero. However, the T E value at which the normalization NMR porosity began to decrease and the T E value at which the normalization NMR porosity dropped to zero were different for different NMR relaxation component. Moreover, the whole NMR measurement was divided into lossless zone, fast decay zone, invalid parameter zone and instrument blind zone, based on the relationships between the normalization NMR porosity of different relaxation component and T E . For each specific relaxation component, a logarithmic relationship was demonstrated between the loss of relaxation component and T E in the fast decay zone. A method for NMR porosity correction was given.
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Preparation of Nuclear Spin Singlet States and Analysis of Influencing Factors on Their Conversion Efficiency and Lifetime
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LIU Hui-xia, XIN Jia-xiang, WEI Da-xiu, YAO Ye-feng
Chinese Journal of Magnetic Resonance, 2020, 37(2): 182-192.
DOI: 10.11938/cjmr20192725
The long-life nuclear spin singlet states (LLSs) have broad application prospects due to the unique nature of their long lifetime. Herein, in a solution of alanylglycylgcine (AGG), the nuclear spin singlet state of a two-spin system far from the chiral carbon in the structure is prepared. Then, the effects of sample concentration, temperature, radiofrequency (RF) center, J -coupling value and magnetic field inhomogeneity on conversion efficiency and lifetime of the LLSs were investigated. The experimental results showed that the conversion efficiency and lifetime of the singlet state were not affected by the sample concentration and magnetic field inhomogeneity, but increased with increasing experimental temperature. The influence of the position of RF center on the singlet state was not obvious when it changed within a small range, but the conversion efficiency and lifetime reduced significantly when the changes were large. Moreover, the singlet state was found to be sensitive to the changes of J -coupling value. The conversion efficiency and lifetime reduced significantly with choose of non-accurate J -coupling constant.
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A Scheme for Generating Discontinuous Microwave Inquiry Signal in Rubidium Atomic Frequency Standard
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BAO Wan-jing, ZENG Qing-qi, YU Fang, QIN Lei, CHEN Zhi-yong
Chinese Journal of Magnetic Resonance, 2020, 37(2): 209-215.
DOI: 10.11938/cjmr20192722
The microwave probing signal of the rubidium atomic frequency standard (RAFS) is used to excite the transitions between the ground-state energy levels of rubidium atoms, and realize resonance detection. At present, the microwave generation schemes commonly used all have the disadvantages of complicated circuit structure, high power consumption and inconvenient integration. This work introduces a design scheme for generating discontinuous microwave inquiry signal using the phase-locked loop (PLL) technology. The scheme takes the 10 MHz signal as a reference frequency, and is capable of obtain the (6 834.687 5 MHz ±f M ) signal directly under a reasonable configuration of single chip microcomputer. The scheme has the advantages of simple circuit structure, low power consumption and high digitization. The stability of the whole machine was found to be better than 1.5E-11/√τ (1 s ≤ τ ≤ 100 s). The performance indexes can meet the requirements of small commercial rubidium atomic clock.
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A Proton Nuclear Magnetic Resonance Method for Quantitative Analysis of Ticagrelor
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ZHANG Fen-fen, SHEN Wen-bin, XU Kai-bing, YANG Ming
Chinese Journal of Magnetic Resonance, 2020, 37(2): 216-223.
DOI: 10.11938/cjmr20192705
A novel proton nuclear magnetic resonance (1 H NMR) method for determining the absolute content of ticagrelor was proposed. The ideal spectra were obtained on a Bruker Avance-300 spectrometer with deuterated methanol (CD3 OD) as the solvent and sulfadoxin as the internal standard. The ticagrelor signals at δ H 7.14 (2H, m) and δ H 7.04 (1H, s), as well as those of sulfadoxin at δ H 8.04 (1H, s), δ H 7.73 (2H, d) and δ H 6.54 (2H, d), were selected for quantitative analysis. The detection conditions were as following:probe temperature 308 K, spectrum width 3 511.5 Hz, center frequency 1 470.6 Hz, pulse angle θ =30°, delay time (d 1) 10 s, number of scans 16 and line broadening 0.3 Hz. The signals from ticagrelor and internal standard sulfadoxin showed good separation, precision, reproducibility, and wide linearity ranges with Y =1.053X -0.081 (r =0.996, n =5). The content of ticagrelor was estimated to be 99.4% (RSD =0.20%). This method was proven simple, accurate and rapid.
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Spectral Analyses and Structural Elucidation of Cyflumetofen
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ZHANG Yi-ming, CHEN Zhi-xue, YANG Xiao-yun
Chinese Journal of Magnetic Resonance, 2020, 37(2): 224-231.
DOI: 10.11938/cjmr20192723
Cyflumetofen is a new type of acaricide with high efficiency and low residue. In this work, the compound was characterized by infrared absorption (IR), ultraviolet absorption (UV) and mass spectrometry, as well as nuclear magnetic resonance spectroscopy (1 H NMR, 13 C NMR, DEPT, 1 H-1 H COSY, 1 H-13 C HSQC and 1 H-13 C HMBC). The characteristic absorption peaks in the UV and IR spectra were discussed. The 1 H and 13 C NMR signals of cyflumetofen were assigned, and the two-dimensional signals were used to elucidate its structure.
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Proton Magnetic Resonance Spectroscopy in Brain Science Researches
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LIU Tao-tao, WANG Jie, GUO Xiang-yang
Chinese Journal of Magnetic Resonance, 2020, 37(2): 232-240.
DOI: 10.11938/cjmr20182702
Nuclear magnetic resonance spectroscopy, especially in vivo proton magnetic resonance spectrum (1 H MRS) and proton nuclear magnetic resonance (1 H NMR), has been increasingly used in brain science researches. There are pros and cons in 1 H MRS and 1 H NMR with respect to experiment design, sample preparation and data processing. In this review, we summarized and discussed the recent progresses of these two techniques in the ends of application range, sample preparation, quantification and data analysis. The work will provide a reference and insights for neuroscience researchers who are interested in using magnetic resonance spectroscopy for metabolic studies of the brain.
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Advances in Construction of Human Brain Atlases from Magnetic Resonance Images
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CAI Wen-qin, WANG Yuan-jun
Chinese Journal of Magnetic Resonance, 2020, 37(2): 241-253.
DOI: 10.11938/cjmr20192706
Human brain atlases constructed from magnetic resonance images are extremely important for brain and cognition researches. With these atlases or brain maps, researchers can accurately analyze and compare different brain images. In this paper, the research progresses of brain atlas construction from magnetic resonance images are reviewed. Firstly, the development of human brain atlases from magnetic resonance images was introduced, including the technical skills required as well as the limitations. Then the basic technical methods for atlas construction are described. Finally, the statistical methods used for quantitative atlas-based analysis were reviewed, such as voxel-based morphometry and tract-based spatial statistical analysis. By analyzing the current research status, the limitations in the existing methodology and the trend of future development were put forward.