Bioinformatic Prediction of SNPs within miRNA Binding Sites of Inflammatory Genes Associated with Gastric Cancer

Song, Chuan-Qing,Zhang, Jun-Hui,Shi, Jia-Chen,Cao, Xiao-Qin,Song, Chun-Hua,Hassan, Adil,Wang, Peng,Dai, Li-Ping,Zhang, Jian-Ying,Wang, Kai-Juan Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.2

Polymorphisms in miRNA binding sites have been shown to affect miRNA binding to target genes, resulting in differential mRNA and protein expression and susceptibility to common diseases. Our purpose was to predict SNPs (single nucleotide polymorphisms) within miRNA binding sites of inflammatory genes in relation to gastric cancer. A complete list of SNPs in the 3'UTR regions of all inflammatory genes associated with gastric cancer was obtained from Pubmed. miRNA target prediction databases (MirSNP, Targetscan Human 6.2, PolymiRTS 3.0, miRNASNP 2.0, and Patrocles) were used to predict miRNA target sites. There were 99 SNPs with MAF>0.05 within the miRNA binding sites of 41 genes among 72 inflammation-related genes associated with gastric cancer. NF-${\kappa}B$ and JAK-STAT are the two most important signaling pathways. 47 SNPs of 25 genes with 95 miRNAs were predicted. CCL2 and IL1F5 were found to be the shared target genes of hsa-miRNA-624-3p. Bioinformatic methods could identify a set of SNPs within miRNA binding sites of inflammatory genes, and provide data and direction for subsequent functional verification research.

AUTOMATIC DETECTION AND EXTRACTION ALGORITHM OF INTER-GRANULAR BRIGHT POINTS

Feng, Song,Ji, Kai-Fan,Deng, Hui,Wang, Feng,Fu, Xiao-Dong The Korean Astronomical Society 2012 Journal of The Korean Astronomical Society Vol.45 No.6

Inter-granular Bright Points (igBPs) are small-scale objects in the Solar photosphere which can be seen within dark inter-granular lanes. We present a new algorithm to automatically detect and extract igBPs. Laplacian and Morphological Dilation (LMD) technique is employed by the algorithm. It involves three basic processing steps: (1) obtaining candidate "seed" regions by Laplacian; (2) determining the boundary and size of igBPs by morphological dilation; (3) discarding brighter granules by a probability criterion. For validating our algorithm, we used the observed samples of the Dutch Open Telescope (DOT), collected on April 12, 2007. They contain 180 high-resolution images, and each has a $85{\times}68\;arcsec^2$ field of view (FOV). Two important results are obtained: first, the identified rate of igBPs reaches 95% and is higher than previous results; second, the diameter distribution is $220{\pm}25km$, which is fully consistent with previously published data. We conclude that the presented algorithm can detect and extract igBPs automatically and effectively.

Genetic Epidemiological Analysis of Esophageal Cancer in High-incidence Areas of China

Wang, Kai-Juan,Yang, Jun-Xia,Shi, Jia-Chen,Deng, Song-Yuan,Cao, Xiao-Qin,Song, Chun-Hua,Wang, Peng Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.22

Genetic epidemiological studies have shown that genetic susceptibility to esophageal cancer (EC) is an important cause of its high incidence within families in some areas of China. The purpose of this study was to obtain evidence of a genetic basis of EC in Xin-an and Xin-xiang counties in China. Familial aggregation and complex segregation analyses were performed of 79 EC families in these counties. The heritability of EC was examined using Falconer's method and complex segregation analysis was conducted with the SEGREG program in Statistical Analysis for Genetic Epidemiology (SAGE version 5.3.1). The results showed that the distribution of EC in families did not fit well into a binomial distribution. The heritability of EC among first-degree and second-degree relatives was $67.0{\pm}7.31%$ and $43.1%{\pm}9.80%$, respectively, and the summing up powered heritability was $53.2{\pm}6.74%$. The segregation ratio was 0.045. Complex segregation analysis showed that the genetic model of EC was additive. The current results provide evidence for an inherited propensity to EC in certain high-risk groups in China, and support efforts to identify the genes that confer susceptibility to this disease.

Mini-Array of Multiple Tumor-associated Antigens (TAAs) in the Immunodiagnosis of Esophageal Cancer

Qin, Jie-Jie,Wang, Xiao-Rui,Wang, Peng,Ren, Peng-Fei,Shi, Jian-Xiang,Zhang, Hong-Fei,Xia, Jun-Fen,Wang, Kai-Juan,Song, Chun-Hua,Dai, Li-Ping,Zhang, Jian-Ying Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.6

Sera of cancer patients may contain antibodies that react with a unique group of autologous cellular antigens called tumor-associated antigens (TAAs). The present study aimed to determine whether a mini-array of multiple TAAs would enhance antibody detection and be a useful approach in esophageal cancer detection and diagnosis. Our mini-array of multiple TAAs consisted of eleven antigens, p53, pl6, Impl, CyclinB1, C-myc, RalA, p62, Survivin, Koc, CyclinD1 and CyclinE full-length recombinant proteins. Enzyme-linked immunosorbent assays (ELISA) were used to detect autoantibodies against eleven selected TAAs in 174 sera from patients with esophageal cancer, as well as 242 sera from normal individuals. In addition, positive results of ELISA were confirmed by Western blotting. In a parallel screening trial, with the successive addition of antigen to a final total of eleven TAAs, there was a stepwise increase in positive antibody reactions. The eleven TAAs were the best parallel combination, and the sensitivity and specificity in diagnosing esophageal cancer was 75.3% and 81.0%, respectively. The positive and negative predictive values were 74.0% and 82.0%, respectively, indicating that the parallel assay of eleven TAAs raised the diagnostic precision significantly. In addition, the levels of antibodies to seven antigens, comprising p53, Impl, C-myc, RalA, p62, Survivin, and CyclinD1, were significantly different in various stages of esophageal cancer, which showed that autoantibodies may be involved in the pathogenesis and progression of esophageal cancer. All in all, this study further supports our previous hypothesis that a combination of antibodies might acquire higher sensitivity for the diagnosis of certain types of cancer. A customized mini-array of multiple carefully-selected TAAs is able to enhance autoantibody detection in the immunodiagnosis of esophageal cancer and autoantibodies to TAAs might be reference indicators of clinical stage.

Heteroatoms in situ-doped hierarchical porous hollow-activated carbons for high-performance supercapacitor

Yan Rui,Wang Kai,Tian Xiaodong,Li Xiao,Yang Tao,Xu Xiaotong,He Yiting,Lei Shiwen,Song Yan 한국탄소학회 2020 Carbon Letters Vol.30 No.3

Heteroatoms in situ-doped hierarchical porous hollow-activated carbons (HPHACs) have been prepared innovatively by pyrolyzation of setaria viridis combined with alkaline activation for the frst time. The micro-morphology, pore structure, chemical compositions, and electrochemical properties are researched in detail. The obtained HPHACs are served as outstand�ing electrode materials in electrochemical energy storage ascribe to the particular hierarchical porous and hollow structure, and the precursor setaria viridis is advantage of eco-friendly as well as cost-efective. Electrochemical measurement results of the HPHACs electrodes exhibit not only high specifc capacitance of 350 F g−1 at 0.2 A g−1, and impressive surface specifc capacitance (Cs) of 49.9 μF cm−2, but also substantial rate capability of 68% retention (238 F g−1 at 10 A g−1) and good cycle stability with 99% retention over 5000 cycles at 5 A g−1 in 6 M KOH. Besides, the symmetrical supercapacitor device based on the HPHACs electrodes exhibits excellent energy density of 49.5 Wh kg−1 at power density of 175 W kg−1 , but still maintains favorable energy density of 32.0 Wh kg−1 at current density of 1 A g−1 in 1-ethy-3-methylimidazolium tetrafuoroborate (EMIMBF4) ionic liquid electrolyte, and the excellent cycle stability behaviour shows the nearly 97% ratio capacitance retention of the initial capacitance after 10,000 cycles at current density of 2 A g−1. Overall, the results indicate that HPHACs derived from setaria viridis have appealing electrochemical performances thus are promising electrode materi�als for supercapacitor devices and large-scale applications.

Sequential activation of M1 and M2 phenotypes in macrophages by Mg degradation from Ti-Mg alloy for enhanced osteogenesis

Luxin Liang,Deye Song,Kai Wu,Zhengxiao Ouyang,Qianli Huang,Guanghua Lei,Kun Zhou,Jian Xiao,Hong Wu 한국생체재료학회 2022 생체재료학회지 Vol.26 No.2

Background: Even though the modulatory effects of Magnisum (Mg) and its alloys on bone-healing cells have been widely investigated during the last two decades, relatively limited attention has been paid on their inflammationmodulatory properties. Understanding the activation process of macrophages in response to the dynamic degradation process of Mg as well as the relationship between macrophage phenotypes and their osteogenic potential is critical for the design and development of advanced Mg-based or Mg-incorporated biomaterials. Methods: In this work, a Ti-0.625 Mg (wt.%) alloy fabricated by mechanical alloying (MA) and subsequent spark plasma sintering (SPS) was employed as a material model to explore the inflammatory response and osteogenic performance in vitro and in vivo by taking pure Ti as the control. The data analysis was performed following Student’s t-test. Results: The results revealed that the macrophages grown on the Ti-0.625 Mg alloy underwent sequential activation of M1 and M2 phenotypes during a culture period of 5 days. The initially increased environmental pH (~ 8.03) was responsible for the activation of M1 macrophages, while accumulated Mg2+ within cells contributed to the lateral M2 phenotype activation. Both M1 and M2 macrophages promoted osteoblast-like SaOS-2 cell maturation. In vivo experiment further showed the better anti-inflammatory response, regenerative potentiality and thinner fibrous tissue layer for the Ti-0.625 Mg alloy than pure Ti. Conclusion: The results highlighted the roles of Mg degradation in the Ti-0.625 Mg alloy on the sequential activation of macrophage phenotypes and the importance of modulating M1-to-M2 transition in macrophage phenotypes for the design and development of inflammation-modulatory biomaterials.

Utility of DNA barcoding for identification of common Vespa species (Hymenoptera: Vespidae) from Yunnan, China

Wang Ming‐Ming,Yin Peng‐Kai,Tang Ya‐Ni,Yang Zi‐Zhong,Xiao Huai,Zhang Cheng‐Gui,Yang Yin‐He,Yang Da‐Song 한국곤충학회 2022 Entomological Research Vol.52 No.3

As traditional Chinese medicine and edible insects, Ve s p a hornets have high economic value and huge market demand. Hornet breeding has become an important way to increase the income of mountain farmers in China, but the limitation of traditional identification methods has become the bottleneck of the modern development of hornet resources. In this study, a simple and reliable method for the molecular identification of typical hornets from Yunnan was successfully established. In the NCBI database, DNA sequences of hornet samples were aligned as Vespa analis, Ve s p a b a s a l i s , Vespa velutina, Vespa mandarinia, Ve s p a m a g n i f i c a , Ve s p a b i n g h a m i , Ve s p a s o r o r by BLAST search. The efficiency of the PCR amplification of mitochondrial cytochrome C oxidase I (COI) gene sequences in all samples was 100% by using the optimized program. Moreover, a reference database for DNA barcodes of Vespa materials in Yunnan was constructed. This study provided a successful example for the identification of local insects of Yunnan and will be helpful to the development of wasp resources.

Frequency Hopping CR MAC Protocol in Cognitive Radio Ad Hoc Network

Mei Bie,Zhe Wang,Wei Xiao,Kai Song 보안공학연구지원센터 2015 International Journal of Multimedia and Ubiquitous Vol.10 No.9

To insure the fairness for the Cognitive Radio (CR) nodes with various available channels, a frequency hopping CR MAC protocol based dynamic (named DCR-MAC) is proposed. In the case of uneven distribution of frequency spectrum in cognitive Ad Hoc network, based on the numbers of workable channels of each cognitive node, DCR-MAC protocol adjusts access time dynamically, ensuring the node priority access channel number, in order to improve the overall performance of the network. Meanwhile, against the problem of the multi-channel hidden terminal which appears in cognitive network of single wireless interface configuration, through introducing the "data segment" mechanism, and informing present channels occupied condition of adjacent node via receiving node, DCR-MAC protocol broadcast of channel occupation in transmission channel, and prohibit possible data transmission of adjacent node, in order to solve this problem on this account. Finally, proving that DCR-MAC protocol is obviously excelled other FH CR MAC protocols in through put capacity, packet access delay, accessing fairness which through network simulation.

Pathogenicity of Five Strains of Toxoplasma gondii from Different Animals to Chickens

Shuai Wang,Guang-Wei Zhao,Wang Wang,Zhen-Chao Zhang,Bo Shen,I. A. Hassan,Qing Xie,Ruo-Feng Yan,Xiao-Kai Song,Li-Xin Xu,Xiang-Rui Li 대한기생충학열대의학회 2015 The Korean Journal of Parasitology Vol.53 No.2