1.Bioinformatics screening of up-regulated protein kinases and their inhibitors in nasopharyngeal cancer
Shu ZHANG ; Xiaobo CUI ; Juan SUN
Journal of Regional Anatomy and Operative Surgery 2016;25(10):720-723
Objective To screening up-regulated protein kinases and their inhibitors in order to provide new targets for molecular thera-py of nasopharyngeal cancer.Methods GEO database and SAM software were employed to screen the up-regulated protein kinase gene in nasopharyngeal cancer.Based on DAVID database,the regulating functions of kinases were identified.The inhibitors of up-regulated kinase genes were identified by Selleckchem database.Literature mining was used to screen the potential anti-cancer drugs.Results Totally 2360 differentially expressed genes including 21 up-regulated protein kinases (CHEK1,CHEK2,PRKDC,AURKA,VRK2,STK17A,MELK,NU-AK1,TRPM7,MASTL,AXL,BUB1,BUB1B,CDK4,TTK,CDC7,CASK,AKT3,TBK1 and PBK)were identified in the whole genome profi-ling (Fold Change≥2,P <0.05).The results of function analysis showed the up-regulated genes were enriched in 10 function terms such as‘protein amino acid phosphorylation’‘phosphorylation’‘phosphate metabolic process’‘mitotic cell cycle’‘cell cycle phase’‘regulation of cell cycle’,and so on.The Selleckchem database analysis showed there were 9 up-regulated protein kinases equipped with 51 inhibitors which were proved already.The results of literature mining showed that 18 inhibitors of them had a few studies (less than 10 literatures)in cancer terms,and there was a potential to become new drugs to treat nasopharyngeal cancer.Conclusion A total of 21 up-regulated protein kinases were identified,and they might promote the nasopharyngeal carcinoma by regulating functions such as the cell-cycle control pathway.Their ki-nase inhibitors may have a potential role in anti-cancer treatment,which provided a new target point for molecular therapy of nasopharyngeal cancer.
2.Gene module analysis of nasopharyngeal carcinoma based on protein-protein interaction network
Shu ZHANG ; Xiaobo CUI ; Juan SUN
Journal of Regional Anatomy and Operative Surgery 2016;25(11):781-783,784
Objective Based on protein-protein interaction network,gene modules were identified to provide new targets for molecular therapy of nasopharyngeal carcinoma.Methods GEO dataset (GSE12452)and SAMsoftware were employed to screen the differentially ex-pressed gene in nasopharyngeal carcinoma.Protein-protein interaction network was established by using String database.Based on the net-work,the gene modules were identified by using bioinformatics gene module analysis method.GO analysis was used to analyze the function of gene modules.Results In this study,2 634 differentially expressed genes were identified in nasopharyngeal carcinoma.There were 4 729 protein-protein interaction pairs among the differentially expressed genes according to the String database.We established the protein-protein interaction network based on these pairs.Seven gene modules were identified by bioinformatics methods.GO analysis results showed that the function of the gene modules including regulation of cell cycle,glycosylation,cell adhesion,oxidation reduction and so on.Conclusion There are 7 gene modules in protein-protein interaction network in nasopharyngeal carcinoma.These modules may play important roles in the progression and development of nasopharyngeal carcinoma.Our finding can provide a new sight for molecular diagnose and therapy of nasopharyngeal carcinoma.
3.Clinical analysis on 45 cases of urgent tracheotomy.
Xiaobo CUI ; Yaping WANG ; Yunfei BAI
Journal of Clinical Otorhinolaryngology Head and Neck Surgery 2014;28(4):235-237
OBJECTIVE:
To investigate the clinical characteristics of urgent tracheotomy patients.
METHOD:
Forty-five cases of urgent tracheotomy patients were reviewed retrospectively. The clinical characteristics, pre-operative and post-operative clinical manifestation and complication were studied. Most patients for urgent tracheotomy were head and neck tumor, inflammation and head and neck injury.
RESULT:
Two patients died in operating and two patients died in post-operation. Finding respiratory depression in six patients of long obstruction in post-operation. Eleven patients had complication in operating or post-operation. Hemorrhage and pneumoderma and local trauma were the main complications.
CONCLUSION
Emergent tracheotomy and elective tracheotomy were different-in the short operation time and body position. Complication incidence rate were higher than normal tracheotomy. Patients of long obstruction after post-operation shouldn't breathe in pure dephlogisticated air to avoidance respiratory depression.
Adult
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Aged
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Female
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Humans
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Male
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Middle Aged
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Retrospective Studies
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Tracheotomy
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adverse effects
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Young Adult
4.Application of multi-adaptive filter based on radial basis function neural network for real-time somatosensory evoked potential monitoring
Hongyan CUI ; Xiaobo XIE ; Shengpu XU ; Chongfei SHEN ; Yong HU
International Journal of Biomedical Engineering 2012;35(3):137-141
ObjectiveTo design multi-adaptive filter based on radial basis function (MAF-RBF) for efficiently extracting somatosensory evoked potential (SEP) in real-time SEP monitoring.MethodsWith the optimization of important parameters that influence the performance of radial basis function neural network,the performance of extracting SEP was compared to that of a multi-adaptive filter (MAF),which developed from the combination of well-developed adaptive noise canceller and adaptive signal enhancer.ResultsIn this simulation study,the outputs of MAF-RBF showed a similar waveform with SEP template signals,and a smoother waveform than the.output of MAF.ConclusionWith appropriate parameter values,MAF-RBFNN is able to extract the latency and amplitude of SEP from the extremely noisy background rapidly and reliably without averaging.
5.Evaluation and analysis of efficacy of pulsed electromagnetic field stimulation for relief of osteoporosis induced pain
Xiaobo XIE ; Hongyan CUI ; Liyun PANG ; Xiaohong LI ; Yong HU
International Journal of Biomedical Engineering 2011;34(2):107-110
Objective The aim of this study was to observe the outcome and evaluate the clinical efficacy of pulsed electromagnetic fields (PEMF) on pain management in patients with osteoporosis.MethodsA total of 58 patients with osteoporosis were treated with PEMF stimulation.Pains as main indicators of their symptom were evaluated before and after treatments.The clinical outcomes were assessed by observing the visual analogue scale (VAS).Statistical analysis was carried out to support the data.Results After PEMF treatment,the patients exhibited significant pain relief from mean VAS of 6.97±1.83 to 3.36±1.69(t-test,P<0.05 ).Of the 58 patients,28 obtained significant symptom alleviation and 18 obtained moderate symptom alleviation,while 8 obtained slight alleviation,indicating the total clinical efficacy of 93%(54/58).Conclusion The current study provides the clinical outcomes indicating that PEMF may help to release the pain from primary osteoporosis and it might be an applicable supplementary treatment method for the osteoporosis related pain.
6.Time-varying source analysis of auditory-visual stimuli evoked event-related potentials
Li FENG ; Xiaobo XIE ; Hongyan CUI ; Shengpu XU ; Yong HU
International Journal of Biomedical Engineering 2014;37(4):197-200
Objective Dipole source analysis was employed to investigate the transient changes in brain mechanisms at earlier latencies.Methods Fourteen healthy volunteers were recruited in this research and evoked event-related potentials (ERPs) of unimodal and bimodal visual auditory stimuli were recorded by 64-electrodes electroencephalograph (EEG) recording system.All these earlier phases of the stimuli were divided into several subphases by specific time window for source analysis.Results The results showed that ERPs sources were mainly generated from visual and audio cortex,and there were changes in the location and strength of the dipole sources in each sub-phase.Conclusions The result of this study implies a serial processing of sensory information in human cortices in early phase of visual and auditory stimuli.
7.Expression of STIM1 gene in human hypopharyngeal carcinoma cell line FaDu and its effect on FaDu cell apoptosis
Shuai WU ; Xiaobo CUI ; Yuanhao SUN ; Jun WANG ; Boqian WANG
Journal of Regional Anatomy and Operative Surgery 2016;25(3):167-170
Objective To study the expression of STIM 1 gene in human hypopharyngeal carcinoma cell line FaDu and its effect on FaDu cell apoptosis .Methods Lentivirus infection was used to knock STIM 1 down in FaDu cells .Group STIM1-siRNA: the expression of STIM1 in FaDu cell was inhibited by STIM 1-siRNA lentivirus .Group control:FaDu cells were infected by negative control siRNA lentivirus . Real-Time PCR was applied to identify the efficacy of lenticirus infection and the expression of STIM 1 in FaDu cells.Western blot was used to identify the expression of STIM 1 protein after lenticirus infection .Flow cytometry assay was performed to detect the apoptosis of FaDu cells in the two groups.The data were statistically analyzed with SPSS 17.0 software.Results Compared with GAPDH (Ct=12.08 ±0.05),the expression of STIM1 in FaDu cells was significant expressed (Ct=22.21 ±0.05,P<0.001).Real-Time PCR analysis the relative mRNA expression of STIM1 in FaDu cells of control group and STIM 1-siRNA group were (1.00 ±0.08) and (0.12 ±0.01) respectively (P<0.001). Western blot showed that the expression of STIM 1 gene and protein in FaDu cells were inhibited significantly after STIM 1-siRNA lentiviral in-fection,which was in accordance with the results of Real-Time PCR analysis.Flow cytometry assay showed that the siRNA-mRNA group had a higher apoptosis percentage (9.81 ±0.56)% compared to the control group (4.36 ±1.32)%,with statistically significant difference (P<0.05).Conclusion STIM1 gene correlated significantly with FaDu cell apoptosis .It inhibits apoptosis of FaDu cells ,and it may be a potential diagnostic and therapeutic target for the hypopharyngeal carcinoma .
8.Co-expression network and function analysis of TP53 and NOTCH1 in head and neck squamous cell carcinoma
Yanqiu ZHENG ; Feifei ZHAO ; Xiaobo CUI ; Wenliang HU ; Xuewei SUN
Journal of Regional Anatomy and Operative Surgery 2017;26(3):170-173
Objective To find out the expression relation between TP53 and NOTCH1,and to explore their effects in head and neck squamous cell carcinoma.Methods Obtained the differentially expressed genes data of head and neck squamous cell carcinoma from 279 samples in TCGA database.Analyzed the co-expression relation between TP53 and NOTCH1 through Pearson and Spearman method.Cbioportal was used to analyze their co-expressed genes.Establish the co-expression network of TP53 and NOTCH1 with String database.The pathway and function of co-expression network was identified through KEGG and DAVID database respectively.Results Among the 279 samples,TP53 and NOTCH1 was co-expressed in head and neck squamous cell carcinoma.(Pearson score =0.45;Spearman score =0.41) There were 182 interaction pairs of TP53 and NOTCH1 related co-expressed gene according to the String database.(Pearson and Spearman score > 0.3)These genes were enriched in some pathways such as T cell receptor signaling pathway,cell cycle,cell adhesion molecules and so on.These genes were enriched in some tumor related function including immune response,regulation of transposition,regulation of apoptotic process,cell cycle,regulation of GTPase activity and so on.Conclusion TP53 and NOTCH1 was co-expressed.Through establishing co-expressed network of TP53 and NOTCH1 and bioinformatics analysis,their function and signaling pathway were explored.The data generated from this study could provide a new reference in mechanism research of head and neck squamous cell carcinoma.
9.Study of Effective Substances Screening for Panax Notoginseng Based on Spectrum-effect Relationship
Xu LIU ; Xiao LI ; Xiaobo CUI ; Mingchun LI
China Pharmacist 2016;19(2):205-209
Objective:To investigate the protective effects of Panax notoginseng on myocardial ischemia injury in dogs and study the spectrum-activity relationship of Panax notoginseng. Methods:Firstly, the HPLC fingerprint analytical method for Panax notogin-seng was established, and then the dog model of acute myocardial ischemia was established by left anterior descending coronary liga-tion. Bivariate correlation analysis and multivariate regression analysis were used to correlate the spectrum-activity relationship between the fingerprints and the anti-myocardial ischaemia activity, and the spectrum-activity relationship and efficacy material foundation of Panax notoginseng were determined. Results:The main effective components were Ginseng saponin Rg1 and Rb1 and notoginseng sapo-nins R1 etc. Notoginseng saponins R1 could significantly inhibit the increase of serum lactate, and ginseng saponin Rg1 could inhibit the increase of FFA in serum, which was the main component in Panax notoginseng for the treatment of myocardial ischemia. Conclusion:The effective substances in Panax notoginseng are obtained by investigating the relationship between the spectrum and efficiency, and a new method for the evaluation of spectrum-activity relationship for Panax notoginseng is established. It can objectively reflect the inher-ent quality of the drug and provide a new strategy for the further research of traditional Chinese medicines.
10.Application of adaptive noise canceller based on fixed-point algorithm for real-time somatosensory evoked potential monitoring
Hongyan CUI ; Xiaobo XIE ; Chongfei SHEN ; Yong HU
International Journal of Biomedical Engineering 2011;34(4):197-200,204
ObjectiveTo efficiently detect somsatosensory evoked potential (SEP) using field programmable gate array (FPGA) real-time system, fixed-point algorithm based adaptive noise canceller (ANC) was designed to improve signal to noise ratio (SNR). MethodsWith the optimization of important parameters that influence the performance of fixed-point algorithm ANC, the performance was compared to that of floating-point algorithm ANC which was isolated from the effect of quantization error. Results In the simulation study, the outputs of fixed-point-based ANC showed a little higher distortion from real SEP signals than that of floating-point algorithm ANC. In the optimal selection of μ value, fixed-point algorithm ANC could get as good results as floating-point algorithm. Conclusion With appropriate parameter values, fixed-point algorithm ANC is able to improve SNR of SEP as well as that of fixed-point algorithm ANC.