Sharif Digital Repository

This paper presents a scalable and ultrasensitive magnetic biosensing scheme based on on-chip LC resonance frequency-shifting. The sensor transducer gain is demonstrated as being location-dependent on the sensing surface and proportional to the local polarization magnetic field strength |B|2 generated by the sensing inductor. To improve the gain uniformity, a periodic coil is proposed as a substitution for the standard process coil. As an implementation example, the circuit is designed in a 65nm CMOS process. The spatially uniform sensor gain of the array is verified by COMSOL simulations. Overall, the presented sensor demonstrates an improvement in the uniformity of the inductor’s magnetic... 

the purpose of this research is to construct the facial image of a person from corresponding DNA. In this problem, we have a set of DNAs and facial images and we want to find the relation between the DNA and the features of facial images.using this relation we can find the facial Image of a person using the DNA. for this purpose we should first extract the features of faces that have the most variation among the population. by studying the feature extraction methods in this field, we borrow the deep neural network method that is used in face recognition fields.we found significant relations between DNA and extracted features from this network. finally using this relation we can predict the... 

Motif finding problem in biology is a search for repeated patterns to reveal information about gene expression, one of the most complex subsystems in genomics. ChIP-seq technology abled researchers to investigate location of protein-DNA interactions but analyzing downstream results of such experiments to find actual regulatory signals in genome is challenging. For many years, applications of motif finding had models based on limiting assumption as an exchange for lower computational complexity. Results: AKAGI program is build upon upgraded methods and new general models to investigate statistical and experimental evidences for accurately finding significant patterns among biological... 

Traditional techniques use invasive histology techniques to diagnose cancer. Cancer tissue is sampled directly in this method, which is very painful for the patient. In recent years, scientists have discovered that the cell world is released into the blood plasma after cell death, obtaining useful cancer information. Since methylation changes in cancer cells are very significant and the death rate of cancer cells is high, the methylation of each tissue is different from the other. Furthermore, they were diagnosing the type of cancer.On the other hand, due to the different patterns in methylated DNA with normal DNA and the use of bisulfite treatment technique to detect the degree of... 

Clustered Regularly Interspaced Short Palindromic Repeats, or in short, CRISPR is a relatively new technology that enables geneticists and medical researchers to edit parts of the genome by removing, adding, or altering parts of the DNA. Initially found in the genomes of prokaryotic organisms such as bacteria and archaea, this technology can cure many illnesses such as blindness and cancer. A significant issue for a practical application of CRISPR systems is accurately predicting the single guide RNA (sgRNA) on-target efficacy and off-target sensitivity. While some methods classify these designs, most algorithms are on separate data with different genes and cells. The lack of... 

Liquid biopsy includes information about the progress of the tumor, the effectiveness of the treatment and the possibility of tumor metastasis. This type of biopsy obtains this information by doing diagnosis and enumerating genetic variations in cells and cell-free DNA (cfDNA). Only a small fraction of cfDNA which might be free circulation tumor DNA (ctDNA) fragments, has mutations and is usually identified by epigenetic variations. On the other hand, the use of liquid biopsy has decreased, and tumors in the final stages are often untreatable due to the low accuracy in prediction of cancer. In this research, the aim is to predict cancer using cfDNA methylation patterns. We obtain these...