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Scalable joint segmentation and registration framework for infant brain images
Dong, Pei,Wang, Li,Lin, Weili,Shen, Dinggang,Wu, Guorong Elsevier 2017 Neurocomputing Vol.229 No.-
<P><B>Abstract</B></P> <P>The first year of life is the most dynamic and perhaps the most critical phase of postnatal brain development. The ability to accurately measure structure changes is critical in early brain development study, which highly relies on the performances of image segmentation and registration techniques. However, either infant image segmentation or registration, if deployed independently, encounters much more challenges than segmentation/registration of adult brains due to dynamic appearance change with rapid brain development. In fact, image segmentation and registration of infant images can assists each other to overcome the above challenges by using the growth trajectories (i.e., temporal correspondences) learned from a large set of training subjects with complete longitudinal data. Specifically, a one-year-old image with ground-truth tissue segmentation can be first set as the reference domain. Then, to register the infant image of a new subject at earlier age, we can estimate its tissue probability maps, i.e., with sparse patch-based multi-atlas label fusion technique, where only the training images at the respective age are considered as atlases since they have similar image appearance. Next, these probability maps can be fused as a good initialization to guide the level set segmentation. Thus, image registration between the new infant image and the reference image is free of difficulty of appearance changes, by establishing correspondences upon the reasonably segmented images. Importantly, the segmentation of new infant image can be further enhanced by propagating the much more reliable label fusion heuristics at the reference domain to the corresponding location of the new infant image via the learned growth trajectories, which brings image segmentation and registration to assist each other. It is worth noting that our joint segmentation and registration framework is also flexible to handle the registration of any two infant images even with significant age gap in the first year of life, by linking their joint segmentation and registration through the reference domain. Thus, our proposed joint segmentation and registration method is scalable to various registration tasks in early brain development studies. Promising segmentation and registration results have been achieved for infant brain MR images aged from 2-week-old to 1-year-old, indicating the applicability of our method in early brain development study.</P> <P><B>Highlights</B></P> <P> <UL> <LI> We developed an efficient approach to deal with the tissue segmentation and registration for the infant brain MR images. </LI> <LI> Our proposed framework is scalable to various registration tasks in early brain development studies. </LI> <LI> Promising results have been achieved for infant brain MR images aged from 2-week-old to 1-year-old. </LI> <LI> The proposed technique can be very useful for many ongoing early brain development studies. </LI> </UL> </P>
Wen, Min,Zheng, Jin Hai,Choi, Jin Myung,Pei, Jian,Li, Chun-Hao,Li, Song-Yuan,Kim, In-Young,Lim, Sa-Hoe,Jung, Tae-Young,Moon, Kyung-Sub,Min, Jung-Joon,Jung, Shin Elsevier 2018 Cancer letters Vol.433 No.-
<P><B>Abstract</B></P> <P>Glioma is one of the most devastating and refractory cancers. The main factors underlying therapeutic failure include extremely invasive characteristics and lack of effective methods for drug delivery. Attenuated <I>Salmonella</I> strains presented a high concentration of tumor targets in various types of cancer models, suggesting a role as potential vectors for drug delivery. In this study, we genetically engineered an attenuated strain of <I>Salmonella</I> as an anti-invasive vector for the targeted delivery and expression of tissue inhibitor of metalloproteinases 2 (TIMP-2) in an orthotopic nude mouse model of glioma. The bioluminescence signals related to tumor size significantly declined in the TIMP-2-expressing <I>Salmonella</I> (SLpTIMP-2)-treated group compared with the control group. Compared with the control group with a survival rate of an average of 33 days, the SLpTIMP-2 group showed an extended survival rate by nearly 60% and lasted an average period of 53 days with TIMP-2 induction. These results indicated the promising therapeutic potential of <I>S. typhimurium</I> for targeted delivery and secretion of TIMP-2 in glioma.</P> <P><B>Highlights</B></P> <P> <UL> <LI> Intracranial injection of <I>Salmonella</I> has been demonstrated to be a more effective than tail vein injection. </LI> <LI> Treatment with TIMP-2-expressing bacteria showed down regulation of MMP-2 in orthotopic glioma. </LI> <LI> TIMP-2-expressing bacteria significantly inhibited tumor growth and elongated animal survive. </LI> </UL> </P>
Li Feifei,Wang Haidong,Shaheen Tayyab,Pei Pei,Li Menglou,Tang Guanghui 한국응용곤충학회 2021 Journal of Asia-Pacific Entomology Vol.24 No.3
Chemical pesticides often applied to effectively control the long-horned beetles to protect the forests are reported to affect the non-target organisms adversely. Dastarcus helophoroides is an active natural enemy of long-horned beetles. Studying the molecular mechanism of P450 genes will help to elucidate the metabolic mechanism of pesticides in D. helophoroides to better coordinate the use of chemical and biological controls. In this study, two novel genes, CYP6BQ21, and CYP6BQ22 were successfully cloned from D. helophoroides using the rapid ampli fication of cDNA ends technique. The sequence and homology analyses indicated that CYP6BQ21 was highly similar to CYP6BQ1 from Tribolium castaneum, while CYP6BQ22 was closely related to CYP6BQ13 from T. castaneum. Gene expression patterns showed that CYP6BQ21 and CYP6BQ22 were specifically expressed in the adult stage of D. helophoroides. In addition, CYP6BQ21 and CYP6BQ22 were significantly expressed under the treatment of a high concentration of cypermethrin. Based on these findings, we proposed that CYP6BQ21 and CYP6BQ22 played possible roles in the development and pesticide stress of D. helophoroides. Our findings are an important first step in identifying and characterizing CYP6BQ21 and CYP6BQ22 from D. helophoroides, and lay the groundwork for future research into the role of these novel CYP6s in the regulation of pesticide resistance in D. helophoroides.
Li Feifei,Li Yan,Wang Tao,Li Tianfeng,Zhu Shuying,Pei Pei,Tang Guanghui 한국곤충학회 2020 Entomological Research Vol.50 No.6
Atrijuglans hetaohei Yang (Lepidoptera: Gelechioidea), is one of the major pests that seriously damage the walnut fruits. Although the morphology and physiology of A. hetaohei have been widely studied, suitable reference genes for normalizing target gene expression have not been identified. In this study, the expressions of eight candidate reference genes including GAPDH, β-Tubulin, TATA-binding protein (TBP), Histone, Ubiquitin-conjugating enzyme 9 (UBC9), arginine kinase (AK), 28S and elongation factor 1 alpha (EF1α) in different developmental stages and various larval tissues of A. hetaohei were determined using reverse transcription-quantitative polymerase chain reaction. Moreover, the expression stability of the selected reference genes was evaluated by ΔCt method, BestKeeper, NormFinder, geNorm and ReFinder, a comprehensive software platform. These results demonstrated that the best reference genes were GAPDH and 28S at different developmental stages of A. hetaohei; and the optimum references in various larval tissues of A. hetaohei were 28S, Histone and TBP. Our study should be useful to analyze the expression profiles of target genes and form a solid foundation for future research on the understanding of the genes’ biological functions in A. hetaohei.
( Pei Pei Li ),( Dong Dong Zhang ),( Xiao Juan Wang ),( Xiao Fen Wang ),( Zong Jun Cui1 ) 한국미생물 · 생명공학회 2012 Journal of microbiology and biotechnology Vol.22 No.1
A cellulose-degrading composite microbial system containing a mixture of microbes was previously shown to demonstrate a high straw-degrading capacity. To estimate its potential utilization as an inoculant to accelerate straw biodegradation after returning straw to the field, two cellulose-degrading composite microbial systems named ADS3 and WSD5 were inoculated into wheat straw-amended soil in the laboratory. The microbial survival of the inoculant was confirmed by a denaturing gradient gel electrophoresis (DGGE) analysis, whereas the enhancement of straw degradation in soil was assessed by measuring the mineralization of the soil organic matter and the soil cellulase activity. The results indicated that most of the DGGE bands from ADS3 were detected after inoculation into straw-amended autoclaved soil, yet only certain bands from ADS3 and WSD5 were detected after inoculation into straw-amended non-autoclaved soil during five weeks of incubation; some bands were detected during the first two weeks after inoculation, and then disappeared in later stages. Organic matter mineralization was significantly higher in the soil inoculants ADS3 and WSD5 than in the uninoculated controls during the first week, yet the enhanced degradation did not persist during the subsequent incubation. Similar to the increase in soil organic matter, the cellulase activity also increased during the first week in the ADS3 and WSD5 treatments, yet decreased during the remainder of the incubation period. Thus, it was concluded that, although the survival and performance of the two inoculants did not persist in the soil, a significant enhancement of degradation was present during the early stage of incubation.
Contributed Mini Review : Isoforms, structures, and functions of versatile spectraplakin MACF1
( Li Fang Hu ),( Pei Hong Su ),( Run Zhi Li ),( Chong Yin ),( Yan Zhang ),( Peng Shang ),( Tuan Min Yang ),( Ai Rong Qian ) 생화학분자생물학회(구 한국생화학분자생물학회) 2016 BMB Reports Vol.49 No.1
Spectraplakins are crucially important communicators, linking cytoskeletal components to each other and cellular junctions. Microtubule actin crosslinking factor 1 (MACF1), also known as actin crosslinking family 7 (ACF7), is a member of the spectraplakin family. It is expressed in numerous tissues and cells as one extensively studied spectraplakin. MACF1 has several isoforms with unique structures and well-known function to be able to crosslink F-actin and microtubules. MACF1 is one versatile spectraplakin with various functions in cell processes, embryo development, tissue-specific functions, and human diseases. The importance of MACF1 has become more apparent in recent years. Here, we summarize the current knowledge on the presence and function of MACF1 and provide perspectives on future research of MACF1 based on our studies and others. [BMB Reports 2016; 49(1): 37-44]