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Search Results: 1 - 10 of 198 matches for " Shahnaz Mahdavifar "
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Pattern Recognition in Pulmonary Tuberculosis Defined by High Content Peptide Microarray Chip Analysis Representing 61 Proteins from M. tuberculosis
Simani Gaseitsiwe, Davide Valentini, Shahnaz Mahdavifar, Isabelle Magalhaes, Daniel F. Hoft, Johannes Zerweck, Mike Schutkowski, Jan Andersson, Marie Reilly, Markus J. Maeurer
PLOS ONE , 2008, DOI: 10.1371/journal.pone.0003840
Abstract: Background Serum antibody-based target identification has been used to identify tumor-associated antigens (TAAs) for development of anti-cancer vaccines. A similar approach can be helpful to identify biologically relevant and clinically meaningful targets in M.tuberculosis (MTB) infection for diagnosis or TB vaccine development in clinically well defined populations. Method We constructed a high-content peptide microarray with 61 M.tuberculosis proteins as linear 15 aa peptide stretches with 12 aa overlaps resulting in 7446 individual peptide epitopes. Antibody profiling was carried with serum from 34 individuals with active pulmonary TB and 35 healthy individuals in order to obtain an unbiased view of the MTB epitope pattern recognition pattern. Quality data extraction was performed, data sets were analyzed for significant differences and patterns predictive of TB+/?. Findings Three distinct patterns of IgG reactivity were identified: 89/7446 peptides were differentially recognized (in 34/34 TB+ patients and in 35/35 healthy individuals) and are highly predictive of the division into TB+ and TB?, other targets were exclusively recognized in all patients with TB (e.g. sigmaF) but not in any of the healthy individuals, and a third peptide set was recognized exclusively in healthy individuals (35/35) but no in TB+ patients. The segregation between TB+ and TB? does not cluster into specific recognition of distinct MTB proteins, but into specific peptide epitope ‘hotspots’ at different locations within the same protein. Antigen recognition pattern profiles in serum from TB+ patients from Armenia vs. patients recruited in Sweden showed that IgG-defined MTB epitopes are very similar in individuals with different genetic background. Conclusions A uniform target MTB IgG-epitope recognition pattern exists in pulmonary tuberculosis. Unbiased, high-content peptide microarray chip-based testing of clinically well-defined populations allows to visualize biologically relevant targets useful for development of novel TB diagnostics and vaccines.
Whole CMV Proteome Pattern Recognition Analysis after HSCT Identifies Unique Epitope Targets Associated with the CMV Status
Lena Pérez-Bercoff, Davide Valentini, Simani Gaseitsiwe, Shahnaz Mahdavifar, Mike Schutkowski, Thomas Poiret, ?sa Pérez-Bercoff, Per Ljungman, Markus J. Maeurer
PLOS ONE , 2014, DOI: 10.1371/journal.pone.0089648
Abstract: Cytomegalovirus (CMV) infection represents a vital complication after Hematopoietic Stem Cell Transplantation (HSCT). We screened the entire CMV proteome to visualize the humoral target epitope-focus profile in serum after HSCT. IgG profiling from four patient groups (donor and/or recipient +/? for CMV) was performed at 6, 12 and 24 months after HSCT using microarray slides containing 17174 of 15mer-peptides overlapping by 4 aa covering 214 proteins from CMV. Data were analyzed using maSigPro, PAM and the ‘exclusive recognition analysis (ERA)’ to identify unique CMV epitope responses for each patient group. The ‘exclusive recognition analysis’ of serum epitope patterns segregated best 12 months after HSCT for the D+/R+ group (versus D?/R?). Epitopes were derived from UL123 (IE1), UL99 (pp28), UL32 (pp150), this changed at 24 months to 2 strongly recognized peptides provided from UL123 and UL100. Strongly (IgG) recognized CMV targets elicited also robust cytokine production in T-cells from patients after HSCT defined by intracellular cytokine staining (IL-2, TNF, IFN and IL-17). High-content peptide microarrays allow epitope profiling of entire viral proteomes; this approach can be useful to map relevant targets for diagnostics and therapy in patients with well defined clinical endpoints. Peptide microarray analysis visualizes the breadth of B-cell immune reconstitution after HSCT and provides a useful tool to gauge immune reconstitution.
Scaling behavior of the energy gap of spin-1/2 AF-Heisenberg chain in both uniform and staggered fields
S. Mahdavifar
Physics , 2007, DOI: 10.1140/epjb/e2007-00068-8
Abstract: We have studied the energy gap of the 1D AF-Heisenberg model in the presence of both uniform ($H$) and staggered ($h$) magnetic fields using the exact diagonalization technique. We have found that the opening of the gap in the presence of a staggered field scales with $h^{\nu}$, where $\nu=\nu(H)$ is the critical exponent and depends on the uniform field. With respect to the range of the staggered magnetic field, we have identified two regimes through which the $H$-dependence of the real critical exponent $\nu(H)$ can be numerically calculated. Our numerical results are in good agreement with the results obtained by theoretical approaches.
Numerical study of the frustrated ferromagnetic spin-1/2 chain
S. Mahdavifar
Physics , 2008, DOI: 10.1088/0953-8984/20/33/335230
Abstract: The ground state phase diagram of the frustrated ferromagnetic spin-1/2 chain is investigated using the exact diagonalization technique. It is shown that there is a jump in the spontaneous magnetization and the ground state of the system undergos to a phase transition from a ferromagnetic phase to a phase with dimer ordering between next-nearest-neighbor spins. Near the quantum transition point, the critical behavior of the ground state energy is analyzed numerically. Using a practical finite-size scaling approach, the critical exponent of the ground state energy is computed. Our numerical results are in good agreement with the results obtained by other theoretical approaches.
Numerical study of the one-dimensional quantum compass model
Saeed Mahdavifar
Physics , 2010, DOI: 10.1140/epjb/e2010-00255-6
Abstract: The ground state magnetic phase diagram of the one-dimensional quantum compass model (QCM) is studied using the numerical Lanczos method. A detailed numerical analysis of the low energy excitation spectrum is presented. The energy gap and the spin-spin correlation functions are calculated for finite chains. Two kind of the magnetic long-range orders, the Neel and a type of the stripe-antiferromagnet, in the ground state phase diagram are identified. Based on the numerical analysis, the first and second order quantum phase transitions in the ground state phase diagram are identified.
q-Laplace Transform  [PDF]
Shahnaz Taheri, Maryam Simkhah Asil
Advances in Pure Mathematics (APM) , 2016, DOI: 10.4236/apm.2016.61003
Abstract: The Fourier transformations are used mainly with respect to the space variables. In certain circumstances, however, for reasons of expedience or necessity, it is desirable to eliminate time as a variable in the problem. This is achieved by means of the Laplace transformation. We specify the particular concepts of the q-Laplace transform. The convolution for these transforms is considered in some detail.
Purification and Characterization of New Type II Restriction Endonucleases
Shahnaz Choudhry
Pakistan Journal of Biological Sciences , 1999,
Abstract: Twelve bacterial strains were screened for the presence of new type II restriction endonucleases. Two are reported positive for the enzyme activity, and designated as BthDI, SarI, from Bacillus thuringiensis D4 (CAMB 2657) and Streptomyces aureomonopodiales (ATCC 19825). These enzymes have been purified by a combination of gel filtration, ion exchange and affinity chromatography. The DNA sequences recognized by these enzymes have been determined by analysis of the fragment patterns generated on different substrate DNAs, Lambda, T7, pUC19, pBR322, PhiX174RFI, and Adenovirus-2 (Ad-2). The cleavage sites within the recognition sequences have also been established by primed synthesis. Accordingly, the newly discovered enzymes BthDI and SarI recognize and cleave 4-6 nucleotide long stretch of DNA, CC!AGG, AGG! CCT, respectively.
Acoustic Reflex Measurements in Normal, Cochlear, and Retrocochlear Lesions -Part1
Navid Shahnaz
Audiology , 1992,
Abstract: The cut off points of 90th percentile of acoustic reflex thresholds were determined in the normal and sensory hearing loss.All subjects had measurable hearing(ANSI-1969≤110 dBHL) in three frequencies of 500,1000 and 2000Hz.While hearing loss was more than 55dB, The cut off point was higher in studies that NR responses was included.In cases that hearing loss was less than 75dB, 90th percentile can be used in diganosis of retrochochlear lesions.Since Acoustic reflexes are absent in both mentioned pathologies in greater amount of hearing loss,It would be less efficient in diffrential diganisis of cochlear and retrochochlear lesions to use acoustic reflex thresholds under the mentioned circumstances.
Acoustic Reflex Thresholds in Normal, Cochlear, and Retrocochlear Lesions
Navid Shahnaz
Audiology , 1993,
Abstract: The cut off points of 90th percentile of acoustic reflex thresholds were determined in the normal and sensory hearing loss.All subjects had measurable hearing(ANSI-1969≤110 dBHL) in three frequencies of 500,1000 and 2000Hz.While hearing loss was more than 55dB, The cut off point was higher in studies that NR responses was included.In cases that hearing loss was less than 75dB 90th percentile can be used in diganosis of retrochochlear lesions.Since Acoustic reflexes are absent in both mentioned pathologies in greater amount of hearing loss,It would be less efficient in diffrential diganisis of cochlear and retrochochlear lesions to use acoustic reflex thresholds under the mentioned circumstances.
Blood Coagulation by Egg Shell Asymmetric Fibrin
Shahnaz Ghorbanzadeh
Journal of Research in Medical Sciences , 2007,
Abstract:
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