Sharif Digital Repository

MC Simulation is considered to be one of the most accurate methods for transport of radiation in various media. Computational speed is the limiting factor to apply the MC method in clinical settings. One of the methods to increase the speed in MC simulations is the use of phase space file (PSF). PSF is generated by transporting the particles through the linear accelerator head. The characteristics of these particles crossing a reference plane are stored in the PSF file. The PSF can be used in subsequent simulations as a radiation source. The use of PSF is effective but has a drawback of having latent variance. Latent variance is a problem inherent in using phase space files. Latent variance... 

The present study is aimed at the development of a novel approach based on the magnetically improvement of DNA-directed immobilization to prepare a highly efficient sensor for prostate diagnosis. The novelty of this work is in the use of antibody conjugated magnetic nanoparticles via DDI. DNA-modified magnetic nanoparticles are added in solution to capture DNA-conjugated, fluorescently-labeled immunocomplexes formed in solution free of steric constraints. The DDI-based nanoconstructs are then concentrated and immobilized using a magnetic field. Compared to a process in which the immunocomplex directly forms on the sensing surface, the proposed approach provides higher mass transfer and lower... 

In this research, two novel optical methods have been proposed for DNA local sequence alignment. The proposed methods benefit from algorithms and methods in computer field and ability of parallelism in optical wave to achieve a low-cost process and propose an easy understanding output in DNA local sequence alignment procedure. The first method is built upon moiré matching technique which is extended by proposed HAPPOC scheme using amplitude, phase, and polarization of optical wave. For analyzing the extended moiré output, a novel 3D Artificial Neural Network is designed and developed by optical structure. The second structure, as named HAWPOD method, is based on DV-Curve method. The HAWPOD... 

In recent years, the biological evolution of molecular detection capabilities based on gene analysis has provided a reliable performance in the diagnosis of a disease before a symptom emerges. Human gene storage requires a large amount of computer memory (about 1.5 GB for each DNA) and the search for a specific pattern within it with electronic computers is time and power consuming. Optical computing uses light parallel processing capabilities to find the pattern in a digital field, which can be used to process large volumes of data in short time and low power consumption, while electronic computers process data in series with high power dissipation. According to the Optalysys report, the... 

New biological discussions in quantum mechanics that has grown considerably in the past decade. Meanwhile, considering some of interesting problems in biology and chemistry, the use of quantum approach superposition principle and tunneling effect explain some of the phenomena of life more than several. Nowadays, regarding quantum description, provided to explain how we recognize different odors, what the mechanism photosynthesis is, and how bind navigation occurs. Furthermore, the new field of quantum biology sheds light in underestanding the issue of heritance and genetics inforamtion. In this thesis, after reviewing some interesting topics of quantum biology, the data transfer from... 

DNA cyclization mechanism, has an important role in many biological processes such as gene regulation, DNA replication and recombination. In addition there are DNA-loops in Bacteria an around the Histones in Chromosomes in scale of 5-100 nm. We need to a appropriate model to study about bending and loop formationin in this important molecule which is able to describe elasticity properties of DNA.One of the most successful models, to describe the physical behaviour of a long DNA molecule, is the elastic rod model. In this model, DNA is considered as a  ixable rod that its bending energy is isotropic. Asymmetric elastic rod model is another model to describe elasticity properties of DNA.... 

Polymerase chain reaction method is a conventional method for obtaining multiple copies of a specified segment in the DNA molecule and to amplify the DNA molecule itself. Therefore, this method has been of paramount importance in different fields of research and has been applied for different applications. PCR requires thermal cycling, or repeated temperature changes between two or three discrete temperatures to amplify specific nucleic acid target sequences. To achieve such thermal cycling, conventional bench-top thermal cyclers generally use a metal heating block powered by Peltier elements or benefit from forced convection heat transfer. Although efforts have been made in order to reduce... 

The main purpose of this Ph.D. Thesis is to develop DNA-based biosensors using Label-free approaches applying simple, inexpensive and fast electrochemical techniques to measure the biological markers of cancer.In the first part, a simple protocol for detection of specific-sequence DNA is introduced. In this method carbon nanotube is used as a hybridization indicator. This label-free system provides the advantage of eliminating additional labeling procedure. As the signal enhances in the presence of MWCNT and decreases in the presence of target, the fabricated sensor is known as a signal-off device. The oxidation signal of Fe(CN)63-/4- is followed as an analytical signal to detect target... 

In the first part, preparation of different kinds of polypyrrole/carbon composites and their application for drug analysis are described. In the first work, A very sensitive electrochemical sensor constructed from a glassy carbon electrode modified with a layer-by-layer MWCNT/doped overoxidized polypyrrole (oppy/MWCNT /GCE) was used for the determination of acetaminophen (AC) in the presence of codeine and ascorbic acid (AA). In comparison to the bare glassy carbon electrode, a considerable shift in the peak potential together with an increase in the peak current was observed for AC on the surface of oppy/MWCNT/GCE, which can be related to the enlarged microscopic surface area of the... 

Deoxyribonucleic acid (DNA) extraction, as one of the most important steps in modern molecular diagnostics, is the process by which DNA is separated from intracellular materials like proteins, membranes, and other materials contained in the cell. Microfluidic technology enables sophisticated, time-consuming and costly experiments with minimal use of raw materials, time and cost and acceptable accuracy. The predominant advantages of centrifugal microfluidic systems are utilizing centrifugal force to generate propulsion without the need for a pump, and eliminating the need for experts to run the system. Various fluidic operations such as valving, mixing, metering, heating, and sample... 

It has been about a century since the introduction of the theory of quantum mechanics. This theory is a branch of physics that describes the behavior of nature in very small scales and microscopic systems . Since no quantum system is entirely isolated from its surroundings , it is necessary to study their interactions with the environment to understand them accurately. The theory of open quantum systems provides the theoretical and conceptual framework needed to consider these interactions. Then using the appropriate quantum operations , the evolution of the combined system can be investigated. Moreover , considering the environmental effects, some quantum features such as dissipation...