Embedded CMOS Basecalling for Nanopore DNA Sequencing

DNA 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

Architecture and algorithms for the implementation of digital wireless receivers in FPGA and ASIC: ISDB-T and DVB-S2 cases

[EN] The first generation of Terrestrial Digital Television(DTV) has been in service for over a decade. In 2013, several countries have already completed the transition from Analog to Digital TV Broadcasting, most of which in Europe. In South America, after several studies and trials, Brazil adopted the Japanese standard with some innovations. Japan and Brazil started Digital Terrestrial Television Broadcasting (DTTB) services in December 2003 and December 2007 respectively, using Integrated Services Digital Broadcasting - Terrestrial (ISDB-T), also known as ARIB STD-B31. In June 2005 the Committee for the Information Technology Area (CATI) of Brazilian Ministry of Science and Technology and Innovation MCTI approved the incorporation of the IC-Brazil Program, in the National Program for Microelectronics (PNM) . The main goals of IC-Brazil are the formal qualification of IC designers, support to the creation of semiconductors companies focused on projects of ICs within Brazil, and the attraction of semiconductors companies focused on the design and development of ICs in Brazil. The work presented in this thesis originated from the unique momentum created by the combination of the birth of Digital Television in Brazil and the creation of the IC-Brazil Program by the Brazilian government. Without this combination it would not have been possible to make these kind of projects in Brazil. These projects have been a long and costly journey, albeit scientifically and technologically worthy, towards a Brazilian DTV state-of-the-art low complexity Integrated Circuit, with good economy scale perspectives, due to the fact that at the beginning of this project ISDB-T standard was not adopted by several countries like DVB-T. During the development of the ISDB-T receiver proposed in this thesis, it was realized that due to the continental dimensions of Brazil, the DTTB would not be enough to cover the entire country with open DTV signal, specially for the case of remote localizations far from the high urban density regions. Then, Eldorado Research Institute and Idea! Electronic Systems, foresaw that, in a near future, there would be an open distribution system for high definition DTV over satellite, in Brazil. Based on that, it was decided by Eldorado Research Institute, that would be necessary to create a new ASIC for broadcast satellite reception. At that time DVB-S2 standard was the strongest candidate for that, and this assumption still stands nowadays. Therefore, it was decided to apply to a new round of resources funding from the MCTI - that was granted - in order to start the new project. This thesis discusses in details the Architecture and Algorithms proposed for the implementation of a low complexity Intermediate Frequency(IF) ISDB-T Receiver on Application Specific Integrated Circuit (ASIC) CMOS. The Architecture proposed here is highly based on the COordinate Rotation Digital Computer (CORDIC) Algorithm, that is a simple and efficient algorithm suitable for VLSI implementations. The receiver copes with the impairments inherent to wireless channels transmission and the receiver crystals. The thesis also discusses the Methodology adopted and presents the implementation results. The receiver performance is presented and compared to those obtained by means of simulations. Furthermore, the thesis also presents the Architecture and Algorithms for a DVB-S2 receiver targeting its ASIC implementation. However, unlike the ISDB-T receiver, only preliminary ASIC implementation results are introduced. This was mainly done in order to have an early estimation of die area to prove that the project in ASIC is economically viable, as well as to verify possible bugs in early stage. As in the case of ISDB-T receiver, this receiver is highly based on CORDIC algorithm and it was prototyped in FPGA. The Methodology used for the second receiver is derived from that used for the ISDB-T receiver, with minor additions given the project characteristics.[ES] La primera generación de Televisión Digital Terrestre(DTV) ha estado en servicio por más de una década. En 2013, varios países completaron la transición de transmisión analógica a televisión digital, la mayoría de ellas en Europa. En América del Sur, después de varios estudios y ensayos, Brasil adoptó el estándar japonés con algunas innovaciones. Japón y Brasil comenzaron a prestar el servicio de Difusión de Televisión Digital Terrestre (DTTB) en diciembre de 2003 y diciembre de 2007 respectivamente, utilizando Radiodifusión Digital de Servicios Integrados Terrestres (ISDB-T), también conocida como ARIB STD-B31. En junio de 2005, el Comité del Área de Tecnología de la Información (CATI) del Ministerio de Ciencia, Tecnología e Innovación de Brasil - MCTI aprobó la incorporación del Programa CI-Brasil, en el Programa Nacional de Microelectrónica (PNM). Los principales objetivos de la CI-Brasil son la formación de diseñadores de CIs, apoyar la creación de empresas de semiconductores enfocadas en proyectos de circuitos integrados dentro de Brasil, y la atracción de empresas de semiconductores interesadas en el diseño y desarrollo de circuitos integrados. El trabajo presentado en esta tesis se originó en el impulso único creado por la combinación del nacimiento de la televisión digital en Brasil y la creación del Programa de CI-Brasil por el gobierno brasileño. Sin esta combinación no hubiera sido posible realizar este tipo de proyectos en Brasil. Estos proyectos han sido un trayecto largo y costoso, aunque meritorio desde el punto de vista científico y tecnológico, hacia un Circuito Integrado brasileño de punta y de baja complejidad para DTV, con buenas perspectivas de economía de escala debido al hecho que al inicio de este proyecto, el estándar ISDB-T no fue adoptado por varios países como DVB-T. Durante el desarrollo del receptor ISDB-T propuesto en esta tesis, se observó que debido a las dimensiones continentales de Brasil, la DTTB no sería suficiente para cubrir todo el país con la señal de televisión digital abierta, especialmente para el caso de localizaciones remotas, apartadas de las regiones de alta densidad urbana. En ese momento, el Instituto de Investigación Eldorado e Idea! Sistemas Electrónicos, previeron que en un futuro cercano habría un sistema de distribución abierto para DTV de alta definición por satélite en Brasil. Con base en eso, el Instituto de Investigación Eldorado decidió que sería necesario crear un nuevo ASIC para la recepción de radiodifusión por satélite, basada el estándar DVB-S2. En esta tesis se analiza en detalle la Arquitectura y algoritmos propuestos para la implementación de un receptor ISDB-T de baja complejidad y frecuencia intermedia (IF) en un Circuito Integrado de Aplicación Específica (ASIC) CMOS. La arquitectura aquí propuesta se basa fuertemente en el algoritmo Computadora Digital para Rotación de Coordenadas (CORDIC), el cual es un algoritmo simple, eficiente y adecuado para implementaciones VLSI. El receptor hace frente a las deficiencias inherentes a las transmisiones por canales inalámbricos y los cristales del receptor. La tesis también analiza la metodología adoptada y presenta los resultados de la implementación. Por otro lado, la tesis también presenta la arquitectura y los algoritmos para un receptor DVB-S2 dirigido a la implementación en ASIC. Sin embargo, a diferencia del receptor ISDB-T, se introducen sólo los resultados preliminares de implementación en ASIC. Esto se hizo principalmente con el fin de tener una estimación temprana del área del die para demostrar que el proyecto en ASIC es económicamente viable, así como para verificar posibles errores en etapa temprana. Como en el caso de receptor ISDB-T, este receptor se basa fuertemente en el algoritmo CORDIC y fue un prototipado en FPGA. La metodología utilizada para el segundo receptor se deriva de la utilizada para el re[CA] La primera generació de Televisió Digital Terrestre (TDT) ha estat en servici durant més d'una dècada. En 2013, diversos països ja van completar la transició de la radiodifusió de televisió analògica a la digital, i la majoria van ser a Europa. A Amèrica del Sud, després de diversos estudis i assajos, Brasil va adoptar l'estàndard japonés amb algunes innovacions. Japó i Brasil van començar els servicis de Radiodifusió de Televisió Terrestre Digital (DTTB) al desembre de 2003 i al desembre de 2007, respectivament, utilitzant la Radiodifusió Digital amb Servicis Integrats de (ISDB-T), coneguda com a ARIB STD-B31. Al juny de 2005, el Comité de l'Àrea de Tecnologia de la Informació (CATI) del Ministeri de Ciència i Tecnologia i Innovació del Brasil (MCTI) va aprovar la incorporació del programa CI Brasil al Programa Nacional de Microelectrònica (PNM). Els principals objectius de CI Brasil són la qualificació formal dels dissenyadors de circuits integrats, el suport a la creació d'empreses de semiconductors centrades en projectes de circuits integrats dins del Brasil i l'atracció d'empreses de semiconductors centrades en el disseny i desenvolupament de circuits integrats. El treball presentat en esta tesi es va originar en l'impuls únic creat per la combinació del naixement de la televisió digital al Brasil i la creació del programa Brasil CI pel govern brasiler. Sense esta combinació no hauria estat possible realitzar este tipus de projectes a Brasil. Estos projectes han suposat un viatge llarg i costós, tot i que digne científicament i tecnològica, cap a un circuit integrat punter de baixa complexitat per a la TDT brasilera, amb bones perspectives d'economia d'escala perquè a l'inici d'este projecte l'estàndard ISDB-T no va ser adoptat per diversos països, com el DVB-T. Durant el desenvolupament del receptor de ISDB-T proposat en esta tesi, va resultar que, a causa de les dimensions continentals de Brasil, la DTTB no seria suficient per cobrir tot el país amb el senyal de TDT oberta, especialment pel que fa a les localitzacions remotes allunyades de les regions d'alta densitat urbana.. En este moment, l'Institut de Recerca Eldorado i Idea! Sistemes Electrònics van preveure que, en un futur pròxim, no hi hauria a Brasil un sistema de distribució oberta de TDT d'alta definició a través de satèl¿lit. D'acord amb això, l'Institut de Recerca Eldorado va decidir que seria necessari crear un nou ASIC per a la recepció de radiodifusió per satèl¿lit. basat en l'estàndard DVB-S2. En esta tesi s'analitza en detall l'arquitectura i els algorismes proposats per l'execució d'un receptor ISDB-T de Freqüència Intermèdia (FI) de baixa complexitat sobre CMOS de Circuit Integrat d'Aplicacions Específiques (ASIC). L'arquitectura ací proposada es basa molt en l'algorisme de l'Ordinador Digital de Rotació de Coordenades (CORDIC), que és un algorisme simple i eficient adequat per implementacions VLSI. El receptor fa front a les deficiències inherents a la transmissió de canals sense fil i els cristalls del receptor. Esta tesi també analitza la metodologia adoptada i presenta els resultats de l'execució. Es presenta el rendiment del receptor i es compara amb els obtinguts per mitjà de simulacions. D'altra banda, esta tesi també presenta l'arquitectura i els algorismes d'un receptor de DVB-S2 de cara a la seua implementació en ASIC. No obstant això, a diferència del receptor ISDB-T, només s'introdueixen resultats preliminars d'implementació en ASIC. Això es va fer principalment amb la finalitat de tenir una estimació primerenca de la zona de dau per demostrar que el projecte en ASIC és econòmicament viable, així com per verificar possibles errors en l'etapa primerenca. Com en el cas del receptor ISDB-T, este receptor es basa molt en l'algorisme CORDIC i va ser un prototip de FPGA. La metodologia utilitzada per al segon receptor es deriva de la utilitzada per al receptor IRodrigues De Lima, E. (2016). Architecture and algorithms for the implementation of digital wireless receivers in FPGA and ASIC: ISDB-T and DVB-S2 cases [Tesis doctoral no publicada]. Universitat Politècnica de València. https://doi.org/10.4995/Thesis/10251/61967TESI

The Chameleon Architecture for Streaming DSP Applications

We focus on architectures for streaming DSP applications such as wireless baseband processing and image processing. We aim at a single generic architecture that is capable of dealing with different DSP applications. This architecture has to be energy efficient and fault tolerant. We introduce a heterogeneous tiled architecture and present the details of a domain-specific reconfigurable tile processor called Montium. This reconfigurable processor has a small footprint (1.8 mm$^2$ in a 130 nm process), is power efficient and exploits the locality of reference principle. Reconfiguring the device is very fast, for example, loading the coefficients for a 200 tap FIR filter is done within 80 clock cycles. The tiles on the tiled architecture are connected to a Network-on-Chip (NoC) via a network interface (NI). Two NoCs have been developed: a packet-switched and a circuit-switched version. Both provide two types of services: guaranteed throughput (GT) and best effort (BE). For both NoCs estimates of power consumption are presented. The NI synchronizes data transfers, configures and starts/stops the tile processor. For dynamically mapping applications onto the tiled architecture, we introduce a run-time mapping tool

VLSI Architectures for WIMAX Channel Decoders

This chapter describes the main architectures proposed in the literature to implement the channel decoders required by the WiMax standard, namely convolutional codes, turbo codes (both block and convolutional) and LDPC. Then it shows a complete design of a convolutional turbo code encoder/decoder system for WiMax.Comment: To appear in the book "WIMAX, New Developments", M. Upena, D. Dalal, Y. Kosta (Ed.), ISBN978-953-7619-53-

Ultra-Wideband Transceiver with Error Correction for Cortical Interfaces in NanometerCMOS Process

This dissertation reports a high-speed wideband wireless transmission solution for the tight power constraints of cortical interface application. The proposed system deploysImpulse Radio Ultra-wideband (IR-UWB) technique to achieve very high-rate communication. However, impulse radio signals suffer from significant attenuation within the body,and power limitations force the use of very low-power receiver circuits which introduce additional noise and jitter. Moreover, the coils’ self-resonance has to be suppressed to minimize the pulse distortion and inter-symbol interference, adding significant attenuation. To compensate these losses, an Error correction code (ECC) layer is added for functioning reliably to the system. The performance evaluation is made by modeling a pair of physically fabricated coils, and the results show that the ECC is essential to obtain the system’s reliability. Furthermore, the gm/ID methodology, which is based on the complete exploration ofall inversion regions that the transistors are biased, is studied and explored for optimizingthe system at the circuit-level. Specific focuses are on the RF blocks: the low noise am-plifier (LNA) and the injection-locked voltage controlled oscillator (IL-VCO). Through the analytical deduction of the circuit’s features as the function of the gm/ID for each transistor, it is possible to select the optimum operating region for the circuit to achieve the target specification. Other circuit blocks, including the phase shifter, frequency divider,mixer, etc. are also described and analyzed. The prototype is fabricated in a 65-nm CMOS(Complementary Metal-Oxide-Semiconductor) process

mm-Wave Data Transmission and Measurement Techniques: A Holistic Approach

The ever-increasing demand on data services places unprecedented technical requirements on networks capacity. With wireless systems having significant roles in broadband delivery, innovative approaches to their development are imperative. By leveraging new spectral resources available at millimeter-wave (mm-wave) frequencies, future systems can utilize new signal structures and new system architectures in order to achieve long-term sustainable solutions.This thesis proposes the holistic development of efficient and cost-effective techniques and systems which make high-speed data transmission at mm-wave feasible. In this paradigm, system designs, signal processing, and measurement techniques work toward a single goal; to achieve satisfactory system level key performance indicators (KPIs). Two intimately-related objectives are simultaneously addressed: the realization of efficient mm-wave data transmission and the development of measurement techniques to enable and assist the design and evaluation of mm-wave circuits.The standard approach to increase spectral efficiency is to increase the modulation order at the cost of higher transmission power. To improve upon this, a signal structure called spectrally efficient frequency division multiplexing (SEFDM) is utilized. SEFDM adds an additional dimension of continuously tunable spectral efficiency enhancement. Two new variants of SEFDM are implemented and experimentally demonstrated, where both variants are shown to outperform standard signals.A low-cost low-complexity mm-wave transmitter architecture is proposed and experimentally demonstrated. A simple phase retarder predistorter and a frequency multiplier are utilized to successfully generate spectrally efficient mm-wave signals while simultaneously mitigating various issues found in conventional mm-wave systems.A measurement technique to characterize circuits and components under antenna array mutual coupling effects is proposed and demonstrated. With minimal setup requirement, the technique effectively and conveniently maps prescribed transmission scenarios to the measurement environment and offers evaluations of the components in terms of relevant KPIs in addition to conventional metrics.Finally, a technique to estimate transmission and reflection coefficients is proposed and demonstrated. In one variant, the technique enables the coefficients to be estimated using wideband modulated signals, suitable for implementation in measurements performed under real usage scenarios. In another variant, the technique enhances the precision of noisy S-parameter measurements, suitable for characterizations of wideband mm-wave components

Trade-off analysis of modes of data handling for earth resources (ERS), volume 1

Data handling requirements are reviewed for earth observation missions along with likely technology advances. Parametric techniques for synthesizing potential systems are developed. Major tasks include: (1) review of the sensors under development and extensions of or improvements in these sensors; (2) development of mission models for missions spanning land, ocean, and atmosphere observations; (3) summary of data handling requirements including the frequency of coverage, timeliness of dissemination, and geographic relationships between points of collection and points of dissemination; (4) review of data routing to establish ways of getting data from the collection point to the user; (5) on-board data processing; (6) communications link; and (7) ground data processing. A detailed synthesis of three specific missions is included

Design Techniques for High Performance Wireline Communication and Security Systems

As the amount of data traffic grows exponentially on the internet, towards thousands of exabytes by 2020, high performance and high efficiency communication and security solutions are constantly in high demand, calling for innovative solutions. Within server communication dominates todays network data transfer, outweighing between-server and server-to-user data transfer by an order of magnitude. Solutions for within-server communication tend to be very wideband, i.e. on the order of tens of gigahertz, equalizers are widely deployed to provide extended bandwidth at reasonable cost. However, using equalizers typically costs the available signal-to-noise ratio (SNR) at the receiver side. What is worse is that the SNR available at the channel becomes worse as data rate increases, making it harder to meet the tight constraint on error rate, delay, and power consumption. In this thesis, two equalization solutions that address optimal equalizer implementations are discussed. One is a low-power high-speed maximum likelihood sequence detection (MLSD) that achieves record energy efficiency, below 10 pico-Joule per bit. The other one is a phase-shaping equalizer design that suppresses inter-symbol interference at almost zero cost of SNR. The growing amount of communication use also challenges the design of security subsystems, and the emerging need for post-quantum security adds to the difficulties. Most of currently deployed cryptographic primitives rely on the hardness of discrete logarithms that could potentially be solved efficiently with a powerful enough quantum computer. Efficient post-quantum encryption solutions have become of substantial value. In this thesis a fast and efficient lattice encryption application-specific integrated circuit is presented that surpasses the energy efficiency of embedded processors by 4 orders of magnitude.PHDElectrical EngineeringUniversity of Michigan, Horace H. Rackham School of Graduate Studieshttps://deepblue.lib.umich.edu/bitstream/2027.42/146092/1/shisong_1.pd

The Fifth NASA Symposium on VLSI Design

The fifth annual NASA Symposium on VLSI Design had 13 sessions including Radiation Effects, Architectures, Mixed Signal, Design Techniques, Fault Testing, Synthesis, Signal Processing, and other Featured Presentations. The symposium provides insights into developments in VLSI and digital systems which can be used to increase data systems performance. The presentations share insights into next generation advances that will serve as a basis for future VLSI design