asgaris
Sepide Asgari • Joined 2 years ago
Top Projects
asgaris/Low-Power-Scalable-Mixed-Signal-SoC-DNA-Sequencing
Nanopore-based DNA sequencing is a unique, scalable technology, utilized to identify nucleotides (i.e., A, C, G, T) according to the pico-ampere-sized current fluctuations induced by the passage of a DNA strand through a like-sized molecular sensor (i.e., a “nanopore”). This approach, a so-called “3rd Generation” sequencing technology, entered the market in 2014, and is, by certain key measures, at least 1000X better than incumbent methods. For example, its main components fit in the palm of one’s hand (a volumetric footprint about 1000X smaller than established machines) and it has demonstrated the ability to process contiguous DNA strands well in excess of 100,000 nucleotides in length.
Critical to the success and improvement of nanopore-based DNA sequencing machines are improvements in the semiconductor systems that process the pico-ampere-sized currents that they generate. There are at least two key parts to this, i) a multi-channel digital readout integrated circuit (DROIC), that amplifies, filters, and digitizes the current measurements from multitudes of arrayed nanopore sensors, and ii) a bioinformatics processing unit (BPU) that processes the gathered data in order to extract biologically relevant information.
In this proposal, we endeavor to produce a chip that has both a DROIC and BPU in the same substrate. The intent of this effort is to introduce a technology that, by virtue of even more aggressive miniaturization will make DNA sequencing more mobile, cheaper, and more applicable to a broader array of applications
asgaris/Mixed-Signal-SoC-for-Nanopore-Based-DNA-Sequencing
Nanopore-based DNA sequencing is a unique, scalable technology, utilized to identify nucleotides (i.e., A, C, G, T) according to the pico-ampere-sized current fluctuations induced by the passage of a DNA strand through a nanopore. The main components of this technology fit in the palm of one’s hand and it has demonstrated the ability to process contiguous DNA strands well in excess of 100,000 nucleotides in length.
There are at least two key parts to this, i) a multi-channel digital readout integrated circuit (DROIC), that amplifies, filters, and digitizes the current measurements from multitudes of arrayed nanopore sensors, and ii) a bioinformatics processing unit (BPU) that processes the gathered data in order to extract biologically relevant information.
In this proposal, we endeavor to produce a chip that has both a DROIC and BPU in the same substrate. The intent of this effort is to introduce a technology that, by virtue of even more aggressive miniaturization will make DNA sequencing more mobile, cheaper, and more applicable to a broader array of applications.
asgaris/Mixed-Signal-SoC-for-Nanopore-Based-DNA-Sequencing-2
Nanopore-based DNA sequencing is a unique, scalable technology, utilized to identify nucleotides (i.e., A, C, G, T) according to the pico-ampere-sized current fluctuations induced by the passage of a DNA strand through a like-sized molecular sensor (i.e. a “nanopore”). This approach, a so-called “3rd Generation” sequencing technology, entered the market in 2014, and is, by certain key measures, at least 1000X better than incumbent methods. For example, its main components fit in the palm of one’s hand (a volumetric footprint about 1000X smaller than established machines) and it has demonstrated the ability to process contiguous DNA strands well in excess of 100,000 nucleotides in length.
Critical to the success and improvement of nanopore-based DNA sequencing machines are improvements in the semiconductor systems that process the pico-ampere-sized currents that they generate. There are at least two key parts to this, i) a multi-channel digital readout integrated circuit (DROIC), that amplifies, filters, and digitizes the current measurements from multitudes of arrayed nanopore sensors, and ii) a bioinformatics processing unit (BPU) that processes the gathered data in order to extract biologically relevant information.
In this proposal we endeavor to produce a chip that has both a DROIC and BPU in the same substrate. The intent of this effort is to introduce a technology that, by virtue of even more aggressive miniaturization will make DNA sequencing more mobile, cheaper, and more applicable to a broader array of applications.
asgaris/Readout_Array_Design_for_Scalable_DNA_Sequencing
Our project aims to revolutionize DNA sequencing technology by developing a cutting-edge System on Chip (SoC) equipped with a high-speed, low-power mixed-signal readout array. This Digital Read-Out Integrated Circuit (DROIC) system features advanced analog front-end circuitry, including a discrete-time Transimpedance Amplifier (DT-TIA) and active Correlated-Double Sampler (CDS), designed to amplify, filter, and digitize nanopore signals with unprecedented accuracy and speed. Our innovative design also incorporates column ADCs for enhanced channel density, allowing multiple amplifiers to share a single ADC and optimizing space utilization on the chip. By implementing a parallel processing scheme and using the SKYWater 130-nm Technology, we aim to achieve efficient data transmission and analysis, ultimately contributing to the development of scalable, high-throughput DNA sequencing platforms with wide-ranging applications in genomic research and biotechnology.