Computer Engineering
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Browsing Computer Engineering by Author "Ghafar-Zadeh, Ebrahim"
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Item Open Access Embedded CMOS Basecalling for Nanopore DNA Sequencing(2017-07-27) Wang, Chengjie; Magierowski, Sebastian; Ghafar-Zadeh, EbrahimDNA sequencing is undergoing a profound evolution into a mobile technology. Unfortunately the effort needed to process the data emerging from this new sequencing technology requires a compute power only available to traditional desktop or cloud-based machines. To empower the full potential of portable DNA solutions a means of efficiently carrying out their computing needs in an embedded format will certainly be required. This thesis presents the design of a custom fixed-point VLSI hardware implementation of an HMM-based multi-channel DNA sequence processor. A 4096 state (6-mer nanopore sensor) basecalling architecture is designed in a 32-nm CMOS technology with the ability to process 1 million DNA base pairs per second per channel. Over a 100 mm^2 silicon footprint the design could process the equivalent of one human genome every 30 seconds at a power consumption of around 5 W.Item Open Access Towards CMOS Nuclear Magnetic Resonance Spectroscopy: Design, Implementation and Experimental Results(2016-09-20) Pourmodheji, Hossein; Ghafar-Zadeh, EbrahimNuclear Magnetic Resonance (NMR) Spectroscopy is used intensively along with other ancillary spectroscopic and characterization techniques. The design and implementation of High Throughput NMR Spectroscopy is a key challenge to accelerate the drug discovery process. On the other hand, the current conventional NMR technologies are expensive and bulky. The development of novel handheld NMR spectroscopy is a key challenge towards NMR spectroscopy for Point-of-Care (PoC) diagnostics applications. This thesis addresses the above-mentioned challenges of High Throughput NMR Spectroscopy and Handheld NMR spectroscopy by developing new integrated circuits dedicated to NMR spectroscopy using Complementary Metal Oxide Semiconductor (CMOS) technology. Simulation and characterization results were also used to prove the functionality and applicability of the proposed techniques. We have designed two CMOS chips using 0.13-m technology, first chip includes number of new vertical microcoils and LNA with 780 pV/Hz at 300 MHz and the second one is a new dual-path NMR receiver.