Sheida Nabavi

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The use of bit-patterned media is one of the approaches being investigated to extend magnetic recording densities to 1 Tbit/in 2 and beyond. In patterned media, track pitch may be small causing adjacent tracks to have significant interference on the replay waveform from the main data track. To mitigate the effect of such inter-track interference (ITI), we(More)
Chromosomal breakage followed by faulty DNA repair leads to gene amplifications and deletions in cancers. However, the mere assessment of the extent of genomic changes, amplifications and deletions may reduce the complexity of genomic data observed by array comparative genomic hybridization (array CGH). We present here a novel approach to array CGH data(More)
The identification of mRNA transcripts with expression levels associated with clinical and/or biological entities is a major goal of biomedical research. Several methods have been developed to identify genes expressed differentially between biological or clinical classes of interest. These methods use statistical approaches and are based on the assumption(More)
Whether the human tumor virus, Epstein-Barr Virus (EBV), promotes breast cancer remains controversial and a potential mechanism has remained elusive. Here we show that EBV can infect primary mammary epithelial cells (MECs) that express the receptor CD21. EBV infection leads to the expansion of early MEC progenitor cells with a stem cell phenotype, activates(More)
MOTIVATION A major goal of biomedical research is to identify molecular features associated with a biological or clinical class of interest. Differential expression analysis has long been used for this purpose; however, conventional methods perform poorly when applied to data with high within class heterogeneity. RESULTS To address this challenge, we(More)
The characterization of molecular alterations specific to cancer facilitates the discovery of predictive and prognostic biomarkers important to targeted therapeutics. Alterations critical to cancer therapeutics include copy number alterations (CNAs) such as gene amplifications and deletions as well as genomic rearrangements resulting in gene fusions. There(More)
(ITI). Read-head offset or track mis-registration (TMR) can further degrade the performance of the channel. To investigate the effects of ITI and TMR on the performance of the channel, we have developed a two-dimensional (2D) pulse response simulator for BPM. Simulation results using these pulse responses suggest that equalizers and detectors optimized for(More)
Acknowledgements Completion of this project report was certainly not possible without the help of all the valuable people around me. First I would like to thank professor Kumar for his patience and guidance throughout the course of this research effort. I would also wish to thank my colleagues in our research group, especially Lakshmi Ramamoorthy and(More)
BACKGROUND Recently copy number variation (CNV) has gained considerable interest as a type of genomic/genetic variation that plays an important role in disease susceptibility. Advances in sequencing technology have created an opportunity for detecting CNVs more accurately. Recently whole exome sequencing (WES) has become primary strategy for sequencing(More)