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Chen L, Xu X, Zhu J, Chen Z, Richardson T, Feigenberg S, Wang L, Price R, Ma C. SU-FF-T-313: MRI-Based Treatment Planning for Glioblastoma (GBM): Dosimetric Validation. Med Phys 2007. [DOI: 10.1118/1.2760975] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Ahmad M, Deng J, Chen Z, Lund M, Kimmett J, Moran M, Nath R. SU-FF-T-106: Clinical Implementation of Varian Enhanced Dynamic Wedges Into the Pinnacle Treatment Planning System: Monte Carlo Dosimetry and Patient-Specific Quality Assurance Techniques. Med Phys 2007. [DOI: 10.1118/1.2760762] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Chen Z, Khan S, Nath R. SU-FF-T-82: Angular Distribution of Photon Energy Spectra Emitted by Low-Energy Interstitial Brachytherapy Sources. Med Phys 2007. [DOI: 10.1118/1.2760734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Zhang N, Chen Z, Xiao G. Efficient elliptic curve scalar multiplication algorithms resistant to power analysis. Inf Sci (N Y) 2007. [DOI: 10.1016/j.ins.2006.12.016] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Zhu-Ge ZB, Zhu YY, Wu DC, Wang S, Liu LY, Hu WW, Chen Z. Unilateral low-frequency stimulation of central piriform cortex inhibits amygdaloid-kindled seizures in Sprague–Dawley rats. Neuroscience 2007; 146:901-6. [PMID: 17412517 DOI: 10.1016/j.neuroscience.2007.02.014] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2006] [Revised: 01/17/2007] [Accepted: 02/09/2007] [Indexed: 10/23/2022]
Abstract
The central piriform cortex (cPC) is considered to be critically involved in the generation and propagation of kindled seizures. Our previous study found that low-frequency stimulation (LFS) of the cPC inhibits the development process of amygdala kindling. In this study, we determined whether unilateral LFS of the cPC had an inhibitory effect on amygdaloid-kindled seizures in Sprague-Dawley rats. When fully-kindled seizures were achieved by daily amygdala electrical stimulation (2 s train of 1 ms pulses at 60 Hz and 150-300 microA), LFS (15 min train of 0.1 ms pulses at 1 Hz and 50-150 microA) was applied to the ipsilateral or contralateral cPC 1 s after cessation of kindling stimulation for 10 days. LFS of the ipsilateral cPC significantly decreased the incidence of generalized seizures and seizure stage, and shortened cumulative afterdischarge duration and cumulative generalized seizure duration. LFS of the contralateral cPC also significantly decreased the expression of seizure stage, but had no appreciable effect on the generalized seizure incidence, cumulative afterdischarge duration and cumulative generalized seizure duration. On the other hand, LFS of the ipsilateral cPC significantly increased the afterdischarge threshold and further increased the differences of current intensity between afterdischarge threshold and generalized seizure threshold. Our data suggest that LFS of the cPC may be an effective method of inhibiting kindled seizures by preventing both afterdischarge generation and propagation. It provide further evidence that brain regions like the cPC, other than the seizure focus, can serve as targets for deep brain stimulation treatment of epilepsy.
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Dong C, Gong N, Chen Z, Chen X, Xu Q, Guo H, Zeng Z, Ming C, Chen ZK. Antisense ERK1/2 oligodeoxynucleotide gene therapy attenuates graft arteriosclerosis of aortic transplant in a rat model. Transplant Proc 2007; 38:3304-6. [PMID: 17175255 DOI: 10.1016/j.transproceed.2006.10.136] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2006] [Indexed: 01/20/2023]
Abstract
UNLABELLED Chronic rejection is a major cause of transplant loss that is effected by the extracellular signal-regulated kinases (ERK) pathway. This study investigated the effects of antisense ERK1/2 oligodeoxynucleotide(ODN) gene therapy on chronic rejection. METHODS Lewis (RT1(1)) rats served as recipients of Brown-Norway (BN, RT1n) grafts. The BN rat abdominal aortas were harvested and orthotopically grafted into Lewis rats. The recipients were divided into three groups: (1) control group (n = 9), (2) random ODN transfer group (n = 10), and (3) antisense ODN transfer group (n = 10). At day 60 after transplantation, the recipients were sacrificed; the grafted aortas were evaluated histologically and immunohistochemically. ERK1/2 protein expression in the grafts was determined using Western Blot assays. Serum levels of slCAM-1 were detected by ELISA. RESULTS In the control group and random ODN transfer group, we observed a remarkable degree of intimal hyperplasia and inflammatory cell infiltration, including macrophages and T cells. Compared with the control group, antisense ERK1/2 ODN gene therapy resulted in a significant reduction in neointimal proliferation (P < .01), inhibition of ERK1/2 protein expression (P < .01), decreased graft infiltration with CD4+ T lymphocytes (P < .01), CD8+ T lymphocytes(P < .05), and ED-1 macrophages (P < .01) with decreased serum levels of sICAM-1 (P < .05). We obtained a negative correlation between ERK1/2 expression and immune cell infiltration or ICAM-1 level. CONCLUSIONS Antisense ERK1/2 gene therapy can attenuate graft arteriosclerosis so as to protect aortic allografts. The protection seemed to correlate with inhibition of inflammatory infiltration, implying that the ERK1/2 signal transduction pathway plays an important role in the process of chronic vascular rejection.
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Trojanowicz B, Brodauf L, Sekulla C, Chen Z, Bialek J, Radestock Y, Hombach-Klonisch S, Finke R, Dralle H, Hoang-Vu C. Stability of mRNA and carcinogenesis: The role of AUF1 in thyroid carcinoma progression. Exp Clin Endocrinol Diabetes 2007. [DOI: 10.1055/s-2007-972359] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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Chen Z, Erhuma M, Rabara K, Trojanowicz B, Bialek J, Gimm O, Klonisch T, Finke R, Dralle H, Hoang-Vu C. Expression of embryonic stem cell marker OCT4 in human thyroid neoplasia. Exp Clin Endocrinol Diabetes 2007. [DOI: 10.1055/s-2007-972270] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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1734
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Wiener HW, Perry RT, Chen Z, Harrell LE, Go RCP. A polymorphism in SOD2 is associated with development of Alzheimer's disease. GENES BRAIN AND BEHAVIOR 2007; 6:770-5. [PMID: 17376152 DOI: 10.1111/j.1601-183x.2007.00308.x] [Citation(s) in RCA: 49] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Genes involved in cellular mechanisms to repair oxidative damage are strong candidates as etiologic factors for Alzheimer's disease (AD). One important enzyme involved in this mechanism is superoxide dismutase 2 (SOD2). The gene for this enzyme lies within a single haplotype block at 6q25.3, a region showing evidence for linkage to AD in a genome scan. We genotyped four single nucleotide polymorphisms (SNPs) in SOD2 in families of the National Institute of Mental Health-AD Genetics Initiative (ADGI): rs2758346 in the 5' untranslated region (UTR), rs4880 in exon 2, rs2855116 in intron 3 and rs5746136 in the 3'UTR. Under a dominant model, family-based association tests showed significant evidence for association of AD with the first three loci in a candidate gene set of families with individuals having age of onset of at least 50 years and two affected and one unaffected sibling, and in a late-onset subset of families (families with all affected individuals having age of onset of at least 65 years) from the full ADGI sample. The alleles transmitted more frequently to cases than expected under the null hypothesis were T, C, G, and G. Global tests of the transmission of haplotypes indicate that the first two loci have the most consistent association with risk of AD. Because of the high linkage disequilibrium in this small (14 kb) gene, and the presence of 100 SNPs in this gene, 26 of which may have functional significance, additional genotyping and sequencing are needed to identify the functionally relevant SNP. We discuss the importance of our findings and the relevance of SOD2 to AD risk.
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Zhu X, Wang B, Zhao G, Gu J, Chen Z, Briantais P, Andres P. An investigator-masked comparison of the efficacy and safety of twice daily applications of calcitriol 3 µg/g ointment vs. calcipotriol 50 µg/g ointment in subjects with mild to moderate chronic plaque-type psoriasis. J Eur Acad Dermatol Venereol 2007; 21:466-72. [PMID: 17373972 DOI: 10.1111/j.1468-3083.2006.01913.x] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
BACKGROUND Calcitriol and calcipotriol, two vitamin D derivatives, are available for topical treatment of psoriasis and have been shown to be effective. AIM To compare the efficacy and safety of calcitriol 3 microg/g and calcipotriol 50 microg/g. METHODS This was a multicentre, randomized, investigator-masked, and parallel comparison in subjects with mild to moderate chronic plaque-type psoriasis receiving either calcitriol or calcipotriol ointment twice daily for 12 weeks. Efficacy evaluations comprised global improvement (on a 4-point scale from 0: no change or worse, to 3: clear or almost clear) assessed by the investigator and by the subject. Efficacy further included the 'dermatological sum score' at each study visit. Safety evaluations included adverse event reporting, cutaneous safety assessed by the investigator and cutaneous discomfort assessment by the subject (both on a 5-point scale from 0: none, to 4: very severe). RESULTS A total of 250 subjects of both gender were recruited. At week 12, the LSmean score of global improvement rated by the investigator was 2.27 for calcitriol and 2.22 for calcipotriol. This difference was not statistically significant, with calcitriol demonstrating to be non-inferior to calcipotriol for global improvement. This same parameter was scored by the subject, with a mean of 2.12 for calcitriol and 2.09 for calcipotriol. The percentage of patients with at least marked improvement tended to be in favour of calcitriol (95.7% vs. 85% for calcipotriol). However, differences were not statistically significant. The mean worst score for the cutaneous safety assessment was higher in the calcipotriol group (0.3 vs. 0.1 and 0.4 vs. 0.2, by the investigator and the patient, respectively). These differences were statistically significant in favour of a better safety profile for calcitriol (P=0.0035). Fourteen dermatological and treatment-related adverse events were reported with calcipotriol vs. only five with calcitriol for a total of 22 adverse events reported throughout the study. CONCLUSION Calcitriol administered twice daily over a 12-week treatment period demonstrated similar efficacy to calcipotriol, while showing a significantly better safety profile.
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Tran N, Chen Z, Rahman S. Characterizing and Modelling of Fractured Reservoirs With Object-Oriented Global Optimization. ACTA ACUST UNITED AC 2007. [DOI: 10.2118/07-03-03] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Abstract
Modeling of naturally fractured reservoirs is the first step to develop best scenarios for hydraulic fracture treatment, the design of an optimum production method and to evaluate reservoir potential. This paper reviews the state-of-the-art in current methods; hence, presents an integrated modeling methodology, utilizing object-based modeling, stochastic simulation and global optimization. Firstly, as an object-based model, each fracture is presented and treated as a discrete object. A stochastic simulation is carried out to generate an initial fracture network. An objective function is then formulated as the difference in statistics between the initial network and the target. Semi-variogram and other spatial statistical properties (cross variogram, multi-histogram mean and variogram distance) of fracture parameters are included so that the objective function is able to statistically describe representative field data. Subsequently, we use a global optimization algorithm to optimize the objective function. A case study is performed on an actual outcrop fault map to illustrate the proposed methodology's capacity. The results map the outcrop faults very closely.
Introduction
Due to geological reasons, many of the naturally fractured reservoirs (NFR) possess very low permeability, which is inadequate for economic production. Therefore, some permeability enhancement techniques are essential for these reservoirs. However, the underlying principles of such techniques, such as hydraulic fracture stimulation, are complex and progress is hindered due to lack of appropriate geo-statistical fracture description models(1,2). Thus, there are three main reasons for a detailed fracture distribution:To site best locations for production wells;To study the response of natural fractures under stimulation pressure; hence, to develop a best scenario for hydraulic fracture treatment; andTo design an optimum production method and evaluate reservoir potential.
In order to achieve the prescribed objectives, NFR need to be characterized and modeled, which would include descriptions of reservoir boundaries, major faults and medium to small-scale fracture networks(3).
Fracture Modeling Techniques:
State-of-the-Art
Mathematical and Geo-Mechanical Models
Several techniques to simulate NFR have been documented in the literature. Firstly, there are mathematical and geo-mechanical models. Earlier mathematical methods to simulate NFR and fluid flow through them include equivalent continuum(4), discrete network(5) and hybrid models(6). The usual approach relies on simplistic geometrical descriptions of fracture systems (e.g. homogeneous reservoirs, parallel plate fractures, etc.) with primary efforts spent on flow behaviours(7). Many authors use different geo-mechanical approaches for modeling NFR, such as simple curvature analysis, field stress and fracture growth mechanism, and numerical analysis by solving systems of non-linear continuum mechanics equations using finite element methods(8).
However, due to the complex nature of fracture systems, most studies so far have succeeded only in modeling unrealistic homogeneous reservoirs. Moreover, most of these techniques use only a limited source of data, such as seismic or well logs. Hence, in modeling NFR, it is necessary to utilize all data sources in an integrated manner to reach a more comprehensive model(9).
Stochastic Simulation
Stochastic simulation is one of the integrated reservoir modeling approaches. Since explicit fracture information is only
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Schelleman H, Chen Z, Kealey C, Whitehead AS, Christie J, Price M, Brensinger CM, Newcomb CW, Thorn CF, Samaha FF, Kimmel SE. Warfarin response and vitamin K epoxide reductase complex 1 in African Americans and Caucasians. Clin Pharmacol Ther 2007; 81:742-7. [PMID: 17329985 DOI: 10.1038/sj.clpt.6100144] [Citation(s) in RCA: 97] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
The objective of this study was to determine whether two vitamin K epoxide reductase complex 1 (VKORC1) polymorphisms contribute to the variability in warfarin response, particularly in African Americans. The effect of the VKORC1 1173C/T and -1639G/A polymorphisms was examined in a prospective cohort study of 338 warfarin users. Subjects carrying an 1173T allele had a lower warfarin maintenance dose compared with subjects with the CC genotype in African Americans (-12.10 mg/week+/-4.93; P=0.02) and Caucasians (-14.41 mg/week+/-3.28; P<0.001). Before reaching maintenance dose, only Caucasians with the T allele had significantly increased risk of international normalized ratio >3 (odds ratio=3.10; 95% confidence interval: 1.73-5.55) compared with Caucasians with the CC genotype. Polymorphisms in the VKORC1 gene are associated with warfarin maintenance dose requirements among both African Americans and Caucasians. However, these polymorphisms may not be as useful in predicting over-anticoagulation among African Americans.
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Kimmel SE, Christie J, Kealey C, Chen Z, Price M, Thorn CF, Brensinger CM, Newcomb CW, Whitehead AS. Apolipoprotein E genotype and warfarin dosing among Caucasians and African Americans. THE PHARMACOGENOMICS JOURNAL 2007; 8:53-60. [PMID: 17325732 DOI: 10.1038/sj.tpj.6500445] [Citation(s) in RCA: 68] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Warfarin sodium is a vitamin K antagonist that is plagued by large variability in patient response, including higher dose requirements among African Americans. Polymorphisms in the gene encoding apolipoprotein E (APOE) may partly explain this variability by altering transport of vitamin K to the liver. In a prospective cohort study of 232 individuals (52.2% Caucasian and 47.8% African American) initiating warfarin therapy, the weekly maintenance dose was significantly higher for African Americans than for Caucasians (mean 42.9 versus mean 36.9 mg, P=0.018), and the epsilon4 allele was more common among African Americans (37.8 versus 26.4% for Caucasians). In multivariable analyses, the presence of the epsilon4 allele was associated with a statistically significantly higher warfarin dose among African Americans (median 45.0 mg in epsilon4 carriers versus 35.0 mg in non-epsilon4 carriers, P=0.014) but not Caucasians (38.1 versus 35.0 mg, P=0.60). In addition, warfarin maintenance dose increased among African Americans according to genotype previously associated with differential hepatic chylomicron clearance (epsilon2/epsilon2 or epsilon2/epsilon3: 30.0 mg; epsilon3/epsilon3: 35.0 mg; epsilon3/epsilon4 or epsilon4/epsilon4: 45.0 mg; P=0.012), although the epsilon4/epsilon4 genotype was rare and not clearly associated with higher doses. The association of APOE with warfarin dosing was independent of CYP2C9 and VKORC1 polymorphisms. APOE polymorphisms thus may be important determinants of warfarin maintenance dose and could explain at least some of the observed racial differences in dose requirements.
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Chen W, Chen L, Qiang G, Chen Z, Jing J, Xiong S. Using an image-guided navigation system for localization of small pulmonary nodules before thoracoscopic surgery. Surg Endosc 2007; 21:1883-6. [PMID: 17310297 DOI: 10.1007/s00464-007-9198-8] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2006] [Accepted: 12/12/2006] [Indexed: 11/27/2022]
Abstract
BACKGROUND Video-assisted thoracic surgery (VATS) provides a minimally invasive means to resect small pulmonary nodules (SPN). However, thoracoscopy has limits in the detection of small nodules, which are invisible and/or impalpable during surgery. Methods to localize such lesions, including methylene blue injection or the introduction of a hookwire under the guidance of computed tomography (CT), have some limitations. We are developing a new technique using image-guided navigation system for localization of small pulmonary nodules before thoracoscopic surgery. METHODS Four pigs underwent spiral-computed tomography (CT) scanning after they were given percutaneously created pulmonary lesions. The CT data were transmitted to a StealthStation navigation system, and with the help of the probe the lesions were located and resected under thoracoscopy. RESULTS A total of 20 lesions were created. Nodules were located at an average distance of 15.6 mm from the pleural surface. All the lesions were successfully localized, and biopsy specimens revealed successful resection of target material. CONCLUSION This method can provide appropriate guidance to small pulmonary nodules and prove effective in immediately facilitating subsequent thoracoscopic resection.
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Tu K, Campbell NRC, Chen Z, McAlister FA. Use of beta-blockers for uncomplicated hypertension in the elderly: a cause for concern. J Hum Hypertens 2007; 21:271-5. [PMID: 17287848 DOI: 10.1038/sj.jhh.1002128] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Beta-blockers are less beneficial than other antihypertensive drugs in the elderly with hypertension. All elderly patients in Ontario, Canada (population over 3.5 million elderly) without co-morbidities who were first treated for hypertension with a beta-blocker were studied in a retrospective population-based cohort study (1994-2002) to determine the characteristics of those prescribed beta-blockers. Of the 194,761 patients in our cohort, 25 485 (13%) were prescribed a beta-blocker as their first antihypertensive agent. On multivariate analysis, factors significantly associated with being prescribed a beta-blocker as first-line therapy included male sex (adjusted odds ratio (OR) 1.06 [95% CI 1.03-1.09] vs women), younger age (adjusted OR 1.67 [95% CI 1.55-1.79] for patients aged 66-69 vs those aged 85 or older), residence in a long-term care facility (adjusted OR 1.19 [95% CI 1.04-1.35] vs living in the community) and lower socioeconomic status (adjusted OR 1.07 [95% CI 1.02-1.12], for lowest quintile vs highest quintile). Patients with diabetes were substantially less likely to be prescribed beta-blockers (adjusted OR 0.42 [95% CI 0.40-0.44]). Greater efforts are required to educate physicians to select other drugs for initial therapy in older patients with uncomplicated hypertension.
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Chen Z, Zhang S, Liu Q, Xiao P, Guo X, Lu Z. Theoretical and experimental studies on filtering tumor cells from blood cell mixtures with dam structure in microfluidic devices. CONFERENCE PROCEEDINGS : ... ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL CONFERENCE 2007; 2005:7497-500. [PMID: 17282015 DOI: 10.1109/iembs.2005.1616246] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Here, a filter with series of pools and dams structures was designed and fabricated, utilizing size difference between tumor and blood cells. The cell mixtures were successfully filtrated out by the filter, and separation efficiency was up to 99.9%. To evaluate the filter, physical models were made to describe the behaviors of different cells in microfluidic systems. As the ability of cell deformation depends on both cells' size and excess surface index (ESI), we measured the excess membrane area of different cells, and got tumor cell's ESI is 61.7% ~ 81% comparing with red blood cell (RBC) (44%) and white blood cell (WBC) (84%~137%). Then from the formulas we deduced, we get the filtering limitations of RBC, WBC, and tumor cell are respectively, around 1.8μm, 1.0-1.6μm and 3.7-4.4μm for dam structure; and 1.3μm, 0.9-1.3μm and 3-3.4μm radius for pipes, which actually show conditions for separation. The accuracy and high flux of the filter provide possibilities to isolate cancer cells directly from the blood in real-time, which could become a potential therapy to cancers.
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Xiao P, Zhang S, Chen Z, Lu Z. Post-hybridisation by Electrophoresis for Reinforcing the Hybridization Result. CONFERENCE PROCEEDINGS : ... ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL CONFERENCE 2007; 2005:7118-21. [PMID: 17281916 DOI: 10.1109/iembs.2005.1616147] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
In this paper, we developed an electrophoresis method for reinforcing hybridization efficiency, and distinguishing the perfectly matched sequences from the mismatched ones. The non-specific binding labeled targets in the hybridization were effectively removed by electrophoresis instead of the conventional washing procedure in the post-hybridisation process. During electrophoresis, the hybrids (the dual-spiral structures formed in hybridization) would be unchained when targets were continuously removed. In this case, not only the non-specific binding labeled targets, but also the targets participating in hybridization would be removed. Therefore, only the perfectly matched sequences had the distinct hybridization signals, the perfectly matched probes from the single-base mismatched ones could more easily be distinguished, and the single nucleotide polymorphisms (SNP) genotypes were also easily determined by dual-color fluorescence targets.
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Chen L, Li L, Goldgof D, George F, Chen Z, Rao A, Cragun J, Sutphen R, Lancaster J. Improving Reliability of Response Prediction to Platinum-Based Therapy by AdaBoost and Multiple Classifiers. CONFERENCE PROCEEDINGS : ... ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL CONFERENCE 2007; 2005:4822-5. [PMID: 17281321 DOI: 10.1109/iembs.2005.1615551] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
It is a challenge to construct a reliable classifier based on microarray gene expression data for prediction of chemotherapy response, because usually only a small number of samples are available and each sample has thousands of gene expressions. This paper uses boosting and bootstrap approaches to improve the reliability of prediction. Specifically, AdaBoost and multiple classifiers based methods are used, in which support vector machines (SVMs) are utilized as the classifiers due to their good generalization ability. We compare the performance of proposed methods with a single SVM classifier system using MAS gene expression dataset in prediction of the response to platinum-based therapy for advanced-stage ovarian cancers. Statistical tests show both of the proposed methods achieve better prediction performance and have good reliability in terms of mean and standard deviation of the prediction performance for different number of selected features.
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Zhang S, Guo X, Chen Z, Lu Z. A Simple Method of Fabricating Weir-type Filters with Interdigital Aligned Full-polymer Microfluidic Channels for Blood Cell Fractionation. CONFERENCE PROCEEDINGS : ... ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL CONFERENCE 2007; 2005:7122-5. [PMID: 17281917 DOI: 10.1109/iembs.2005.1616148] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
This paper describes a new method to fabricate large scale 3D weir-type filter for cell fractionation. The 3D structure is realized by a conformal bonding of two separate PDMS (poly-dimethyloxane) layers with in-situ microchannels which are formed by the conventional soft lithographic techniques. Moreover, the microfluidics channels on the two PDMS are set to cross to each other to increase weir numbers and flow throughput. The gap space of the weir filters depends on the thickness of the photoresist coated for the master formation, thereby it can be defined as required from submicron to hundreds micron scale. A white blood cells (WBCs) extraction experiments with the full polymer fabricated filters are conducted to validate the proposed method.. The experimental results show that the weir-type filter array can fractionate the WBCs well from blood samples. Due to its intrinsic advantages of rapid process, high throughput and low cost, the proposed method is very promising for being integrated into Micro Total analysis System (μTAS).
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Chen Z, Zhao WL, Shen ZX, Li JM, Chen SJ, Zhu J, Lallemand-Breittenbach V, Zhou J, Guillemin MC, Vitoux D, de Thé H. Arsenic trioxide and acute promyelocytic leukemia: clinical and biological. Curr Top Microbiol Immunol 2007; 313:129-44. [PMID: 17217042 DOI: 10.1007/978-3-540-34594-7_8] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/05/2023]
Abstract
Arsenic has recently been identified as an effective drug in the treatment of newly diagnosed and relapsed acute promyelocytic leukemia. Indeed, arsenic trioxide combined with all-trans retinoic acid shows a synergistic effect. Mechanistically, arsenic targets the key leukemogenic protein PML-RARalpha, setting up a new example of molecular target-based cancer therapy.
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Haskell RC, Williams ME, Petersen DC, Hoeling BM, Schile AJ, Pennington JD, Seetin MG, Castelaz JM, Fraser SE, Papan C, Ren H, de Boer JF, Chen Z. Visualizing early frog development with motion-sensitive 3-D optical coherence microscopy. CONFERENCE PROCEEDINGS : ... ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL CONFERENCE 2007; 2004:5296-9. [PMID: 17271536 DOI: 10.1109/iembs.2004.1404479] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
A motion-sensitive en-face-scanning 3-D optical coherence microscope (OCM) has been designed and constructed to study critical events in the early development of plants and animals. We describe the OCM instrument and present time-lapse movies of frog gastrulation, an early developmental event in which three distinct tissue layers are established that later give rise to all major organ systems. OCM images constructed with fringe-amplitude data show the mesendoderm migrating up along the blastocoel roof, thus forming the inner two tissue layers. Motion-sigma data, measuring the random motion of scatterers, is used to construct complementary images that indicate the presence of Brownian motion in the yolk cells of the endoderm. This random motion provides additional intrinsic contrast that helps to distinguish different tissue types. Depth penetration at 850 nm is sufficient for studies of the outer ectoderm layer, but is not quite adequate for detailed study of the blastocoel floor, about 500 to 800 mum deep into the embryo. However, we measure the optical attenuation of these embryos to be about 35% less at 1310 nm. 2-D OCT images at 1310 nm are presented that promise sufficient depth penetration to test current models of cell movement near the blastocoel floor during gastrulation.
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Chan T, Chen Z, Hao S, Xu S, Yuan J, Saxena A, Qureshi M, Zheng C, Xiang J. Enhanced T-cell immunity induced by dendritic cells with phagocytosis of heat shock protein 70 gene-transfected tumor cells in early phase of apoptosis. Cancer Gene Ther 2007; 14:409-20. [PMID: 17235354 DOI: 10.1038/sj.cgt.7701025] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The dual role of heat shock protein 70 (HSP70), as antigenic peptide chaperone and danger signal, makes it especially important in dendritic cell (DC)-based vaccination. In this study, we investigated the impacts of apoptotic transgenic MCA/HSP tumor cells expressing HSP70 on DC maturation, T-cell stimulation and vaccine efficacy. We found that DCs with phagocytosis of MCA/HSP in early phase of apoptosis expressed more pMHC I complexes, stimulated stronger cytotoxic T lymphocyte (CTL) responses (40% specific killing at an E:T cell ratio of 50) and induced immune protection in 90% of mice against MCA tumor cell challenge, compared with 25% specific CTL killing activity and 60% immune protection seen in mice immunized with DC with phagocytosis of MCA/HSP in late phase of apoptosis (P<0.05). Similar results were confirmed in another EG7 tumor model also expressing HSP70. Taken together, our data demonstrate that HSP70 on apoptotic tumor cells stimulate DC maturation, and DC with phagocytosis of apoptotic tumor cells expressing HSP70 in early phase of apoptosis more efficiently induced tumor-specific CTL responses and immunity than DCs with phagocytosis of apoptotic tumor cells in late phase of apoptosis. These results may have an important impact in designing DC-based antitumor vaccines.
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Kotsopoulos J, Chen Z, Vallis KA, Poll A, Ainsworth P, Narod SA. DNA repair capacity as a possible biomarker of breast cancer risk in female BRCA1 mutation carriers. Br J Cancer 2007; 96:118-25. [PMID: 17213827 PMCID: PMC2360222 DOI: 10.1038/sj.bjc.6603528] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2006] [Revised: 11/10/2006] [Accepted: 11/14/2006] [Indexed: 11/23/2022] Open
Abstract
The BRCA1 gene product helps to maintain genomic integrity through its participation in the cellular response to DNA damage: specifically, the repair of double-stranded DNA breaks. An impaired cellular response to DNA damage is a plausible mechanism whereby BRCA1 mutation carriers are at increased risk of breast cancer. Hence, an individual's capacity to repair DNA may serve as a useful biomarker of breast cancer risk. The overall aim of the current study was to identify a biomarker of DNA repair capacity that could distinguish between BRCA1 mutation carriers and non-carriers. DNA repair capacity was assessed using three validated assays: the single-cell alkaline gel electrophoresis (comet) assay, the micronucleus test, and the enumeration of gamma-H2AX nuclear foci. DNA repair capacity of peripheral blood lymphocytes from 25 cancer-free female heterozygous BRCA1 mutation carriers and 25 non-carrier controls was assessed at baseline and following cell exposure to gamma-irradiation (2 Gy). We found no significant differences in the mean tail moment, in the number of micronuclei or in the number of gamma-H2AX nuclear foci between the carriers and non-carriers at baseline, and following gamma-irradiation. These data suggest that these assays are not likely to be useful in the identification of women at a high risk for breast cancer.
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Chen Z, Suntres Z, Palmer J, Guzman J, Javed A, Xue J, Yu JG, Cooke H, Awad H, Hassanain HH, Cardounel AJ, Christofi FL. Cyclic AMP signaling contributes to neural plasticity and hyperexcitability in AH sensory neurons following intestinal Trichinella spiralis-induced inflammation. Int J Parasitol 2007; 37:743-61. [PMID: 17307183 DOI: 10.1016/j.ijpara.2006.12.018] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2006] [Revised: 12/04/2006] [Accepted: 12/06/2006] [Indexed: 12/27/2022]
Abstract
Trichinella spiralis infection causes hyperexcitability in enteric after-hyperpolarising (AH) sensory neurons that is mimicked by neural, immune or inflammatory mediators known to stimulate adenylyl cyclase (AC)/cyclic 3',5'-adenosine monophosphate (cAMP) signaling. The hypothesis was tested that ongoing modulation and sustained amplification in the AC/cAMP/phosphorylated cAMP related element binding protrein (pCREB) signaling pathway contributes to hyperexcitability and neuronal plasticity in gut sensory neurons after nematode infection. Electrophysiological, immunological, molecular biological or immunochemical studies were done in T. spiralis-infected guinea-pigs (8000 larvae or saline) after acute-inflammation (7 days) or 35 days p.i., after intestinal clearance. Acute-inflammation caused AH-cell hyperexcitability and elevated mucosal and neural tissue levels of myeloperoxidase, mast cell tryptase, prostaglandin E2, leukotrine B4, lipid peroxidation, nitric oxide and gelatinase; lower level inflammation persisted 35 days p.i. Acute exposure to blockers of AC, histamine, cyclooxygenase or leukotriene pathways suppressed AH-cell hyperexcitability in a reversible manner. Basal cAMP responses or those evoked by forskolin (FSK), Ro-20-1724, histamine or substance P in isolated myenteric ganglia were augmented after T. spiralis infection; up-regulation also occurred in AC expression and AC-immunoreactivity in calbindin (AH) neurons. The cAMP-dependent slow excitatory synaptic transmission-like responses to histamine (mast cell mediator) or substance P (neurotransmitter) acting via G-protein coupled receptors (GPCR) in AH neurons were augmented by up to 2.5-fold after T. spiralis infection. FSK, histamine, substance P or T. spiralis acute infection caused a 5- to 30-fold increase in cAMP-dependent nuclear CREB phosphorylation in isolated ganglia or calbindin (AH) neurons. AC and CREB phosphorylation remained elevated 35 days p.i.. Ongoing immune activation, AC up-regulation, enhanced phosphodiesterase IV activity and facilitation of the GPCR-AC/cAMP/pCREB signaling pathway contributes to T. spiralis-induced neuronal plasticity and AH-cell hyperexcitability. This may be relevant in gut nematode infections and inflammatory bowel diseases, and is a potential therapeutic target.
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Gu X, Xiang J, Yao Y, Chen Z. Effects of RNA interference on CD80 and CD86 expression in bone marrow-derived murine dendritic cells. Scand J Immunol 2007; 64:588-94. [PMID: 17083614 DOI: 10.1111/j.1365-3083.2006.01845.x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
To investigate whether RNA interference (RNAi) induced by small interfering RNA (siRNA) could suppress CD80 and CD86 expression in bone marrow-derived murine dendritic cells (DC). The bone marrow-derived DC of mice were separated and cultured in vitro, chemically synthesized siRNA were then transferred into the cells by LipofectAMINE 2000, and the siRNA transfection efficacy was assessed by both fluorescence microscope and flow cytometry. The mRNA expression and protein synthesis were analysed by real-time RT-PCR and flow cytometry. The cell viability of transfected DC was determined by annexin V and propidium iodine staining. Transfection of bone marrow-derived murine DC with a non-silencing FITC-labelled control siRNA demonstrated a high (71.86%) transfection efficiency without affecting cellular viability. CD80-1 siRNA was the most effective siRNA to block CD80 expression in three candidates. Similarly, CD86-3 siRNA was extraordinarily effective in repressing the expression of CD86. Cotransfection of siRNA specific to CD80 and CD86 can enhance gene silencing that is not affected by DC activation-inducing signals. CD80 and CD86 siRNA suppressed the expression of CD80 and CD86 to 31.05 +/- 2.41% and 25.43 +/- 0.85%, respectively, of the level in untreated cells (P < 0.05). siRNA is capable of triggering RNAi in bone marrow-derived DC; it can specifically and effectively knock down CD80 and CD86 gene expression. This approach is a useful tool by which costimulatory molecules of DC can be studied as well as a potential therapeutic option for allograft rejection.
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