Published Works

2022
____________________________________________________________________________

High-Rate Machine Learning for Forecasting Time-Series Signals

publication:	Proc. 30th IEEE International Conference on Field Programmable Custom Computing Machines (FCCM 2022).
authors:	Atiyehsadat Panahi, Ehsan Kabir, Austin Downey, David Andrews, Miaoqing Huang, Jason D. Bakos
document:	[ View the PDF ]

High-Rate Machine Learning for Forecasting Time-Series Signals

publication:	MDPI Electronics, 11(9), 2022, doi:10.3390/electronics11091417.
authors:	Hung-Tien Huang, Austin R.J. Downey, and Jason D. Bakos
document:	[ View the PDF ]

High-Rate Machine Learning for Forecasting Time-Series Signals

publication:	Sensors and Smart Structures Technologies for Civil, Mechanical, and Aerospace Systems 2022. SPIE, Apr 2022. doi:10.1117/12.2613208.
authors:	Emmanuel Ogunniyi, Austin R. J. Downey, Jason Bakos
document:	[ View the PDF ]

Deterministic and low-latency time-series forecasting of nonstationary signals
publication:	Active and Passive Smart Structures and Integrated Systems XVI. SPIE, apr 2022. doi:10.1117/12.2629025.
authors:	Puja Chowdhury, Vahid Barzegar, Joud Satme, Austin Downey, Simon Laflamme, Jason D. Bakos, Chao Hu
document:	[ View the PDF ]

Compensation technique for accurate acceleration measurements using a UAV deployable and retrievable sensor package
publication:	Sensors and Smart Structures Technologies for Civil, Mechanical, and Aerospace Systems 2022. SPIE, apr 2022. doi:10.1117/12.2612945.
authors:	Joud Satme, Corinne Smith, Austin R. J. Downey, Jason D. Bakos, Nikolaos Vitzilaios, Dimitris Rizos
document:	[ View the PDF ]

Synthesizing Dynamic Time-series Data for Structures Under Shock Using Generative Adversarial Networks
publication:	Data Science in Engineering, Volume 10, 2022.
authors:	Zhymir Thompson, Austin Downey, Jason Bakos, Jie Wei
document:	[ View the PDF ]

2021 ___________________________________________________________________
Real-time Forecasting of Vibrations with Nonstationarities
publication:	Proceedings of the 39th IMAC, A Conference and Exposition on Structural Dynamics 2021, Springer International Publishing, p. 21-29, Oct 2021. Feb 2021, doi:10.1007/978-3-030-76004-5_4.
authors:	Ishrat Singh, Philip Conrad, Puja Chowdhury, Jason D. Bakos, Austin Downey
document:	[ View the PDF ]

Time Series Forecasting for Structures Subjected to Nonstationary Inputs
publication:	Proceedings of the ASME 2021 Conference on Smart Materials, Adaptive Structures and Intelligent Systems (SMASIS 2021), doi:10.1115/SMASIS2021-68338.
authors:	Puja Chowdhury, Philip Conrad, Jason D. Bakos, Austin Downey
document:	[ View the PDF ]

2019 _____________________________________________________________________
An Overlay Architecture for Pattern Matching
publication:	Proc. 30th IEEE International Conference on Application-specific Systems, Architectures and Processors (ASAP 2019).
authors:	Rasha Karakchi, Charles A. Daniels, Jason D. Bakos
document:	[ View the PDF ]

OpenVX Graph Optimization for Visual Processor Units
publication:	Proc. 30th IEEE International Conference on Application-specific Systems, Architectures and Processors (ASAP 2019).
authors:	Madushan Abeysinghe, Jesse Villarreal, Lucas Weaver, Jason D. Bakos
document:	[ View the PDF ]

2018 _________________________________________________________________
Fast Coordination of Power Electronic Converters for Energy Routing in Shipboard Power Systems
publication:	Proc. 2018 International Ship Control Systems Symposium (iSCSS 2018).
authors:	H. L. Ginn III, J. D. Bakos, A. Benigni
document:	[ View the PDF ]

2017 ____________________________________________________________________
A Dynamically Reconfigurable Automata Processor Overlay
publication:	Proc. International Conference on Reconfigurable Computing and FPGAs 2017 (ReConFig 2017).
authors:	Rasha Karakchi, Lothrop O. Richards, and Jason D. Bakos
document:	[ View the PDF ]

Control System Communication Architecture for Power Electronic Building Blocks
publication:	Proc. IEEE Electric Ship Technologies Symposium 2017 (ESTS 2017).
authors:	Ivan Panchenko, Jason D. Bakos, Herbert L. Ginn
document:	[ View the PDF ]

System-Level, FPGA-Based, Real-Time Simulation of Ship Power Systems
publication:	IEEE Trans. on Energy Conversion Systems, Vol. 32, No. 2.
authors:	Matthew Milton, Andrea Benigni, Jason Bakos
document:	[ View the PDF ]

2016 ________________________________________________________________________
High-Level Synthesis of a Genomic Database Search Engine
publication:	Proc. 2016 International Conference on Reconfigurable Computing and FPGAs (ReConFig 2016).
authors:	Rasha Karakchi, Jordan Bradshaw, Jason D. Bakos
document:	[ View the PDF ]

Two-Hit Filter Synthesis for Genomic Database Search
publication:	Proc. 24th IEEE International Symposium on Field-Programmable Custom Computing Machines.
authors:	Jordan Bradshaw, Rasha Karakchi, Jason D. Bakos
document:	[ View the PDF ]

2015 ______________________________________________________________________
Embedded Systems: ARM Programming and Optimization
publication:	Elsevier, 2015 (textbook).
authors:	Jason D. Bakos

Memory Interface Design for 3D Stencil Kernels on a Massively Parallel Memory System
publication:	ACM Transactions on Reconfigurable Technology and Systems (TRETS), Vol. 8, Issue 4, 2015.
authors:	Zheming Jin, Jason D. Bakos
document:	[ View the PDF ]

2014 ________________________________________________________________________
Lucas-Kanade Optical Flow Estimation on the TI C66x Digital Signal Processor
publication:	Proc. 18th Annual IEEE High Performance Extreme Computing Conference (HPEC 2014), Sept. 2014.
authors:	Fan Zhang, Yang Gao, Jason D. Bakos
document:	[ View the PDF ]

Sparse Matrix-Vector Multiply on the Keystone II Digital Signal Processor
publication:	Proc. 18th Annual IEEE High Performance Extreme Computing Conference (HPEC 2014), Sept. 2014.
authors:	Yang Gao, Fan Zhang, Jason D. Bakos
document:	[ View the PDF ]

Large-scale Pairwise Sequence Alignments on a Large-scale GPU Cluster
publication:	IEEE Design and Test, January/February 2014.
authors:	Ibrahim Savran, Yang Gao, Jason D. Bakos
document:	[ View the PDF ]

2013 _________________________________________________________________________
Accuracy, Cost, and Performance Tradeoffs for Floating-Point Accumulation
publication:	Proc. 2013 International Conference on Reconfigurable Computing and FPGAs (ReConFig 2013).
authors:	Krishna Nagar, Jason D. Bakos
document:	[ View the PDF ]

Sparse Matrix-Vector Multiply on the Texas Instruments C6678 Digital Signal Processor
publication:	Proc. The 24th IEEE International Conference on Application-specific Systems, Architectures and Processors (ASAP 2013), Washington D.C., June 5-7, 2013.
authors:	Yang Gao, Jason D. Bakos
document:	[ View the PDF ]

Memory Access Scheduling on the Convey HC-1
publication:	Proc. The 21st IEEE International Symposium on Field-Programmable Custom Computing Machines (FCCM'13), Seattle, Washington, April 28-30, 2013.
authors:	Zheming Jin, Jason D. Bakos
document:	[ View the PDF ]

Accelerating Frequent Itemset Mining on Graphics Processing Units
publication:	Journal of Supercomputing, February 2013, DOI 10.1007/s11227-013-0887-x.
authors:	Fan Zhang, Yan Zhang, Jason D. Bakos
document:	[ View the PDF ]

A Heuristic Scheduler for Port-Constrained Floating-Point Pipelines
publication:	International Journal of Reconfigurable Computing, Vol. 2013, Article ID 849545, 9 pages, 2013. doi:10.1155/2013/849545.
authors:	Zheming Jin, Jason D. Bakos
document:	[ View the PDF ]

Extending the BEAGLE Library to a Multi-FPGA Platform
publication:	BMC Bioinformatics, BMC Bioinformatics 2013, 14:25.
authors:	Zheming Jin, Jason D. Bakos
document:	[ View the PDF ]

An FPGA-Based Accelerator for Frequent Itemset Mining
publication:	ACM Trans. Reconfigurable Technology and Systems (TRETS), Vol. 6, Issue 1, May 2013.
authors:	Yan Zhang, Fan Zhang, Zheming Jin, Jason D. Bakos
document:	[ View the PDF ]

2012 ____________________________________________________________________
GPU Acceleration of Pyrosequencing Noise Removal
publication:	Proc. 2012 Symposium on Application Accelerators in High Performance Computing (SAAHPC 2012), Argonne National Laboratory, July 10-11, 2012.
authors:	Yang Gao, Jason D. Bakos
document:	[ View the PDF ]

A Cluster-on-a-Chip Architecture for High-Throughout Phylogeny Search
publication:	IEEE Trans. on Parallel and Distributed Systems, Vol. 23, No. 4, April 2012.
authors:	Tiffany M. Mintz, Jason D. Bakos
document:	[ View the PDF ]

2011 ________________________________________________________________________
Frequent Itemset Mining on Large-Scale Shared Memory Machines
publication:	Proc. IEEE International Conference on Cluster Computing (CLUSTER 2011), Sept. 26-30, 2011.
authors:	Yan Zhang, Fan Zhang, Jason D. Bakos
document:	[ View the PDF ]

GPApriori: GPU-Accelerated Frequent Itemset Mining
publication:	Proc. IEEE International Conference on Cluster Computing (CLUSTER 2011), Sept. 26-30, 2011.
authors:	Fan Zhang, Yan Zhang, Jason D. Bakos
document:	[ View the PDF ]

A Sparse Matrix Personality for the Convey HC-1
publication:	Proc. 19th Annual IEEE International Symposium on Field Programmable Custom Computing Machines (FCCM'11), May 1-3, 2011.
authors:	Krishna K. Nagar, Jason D. Bakos
document:	[ View the PDF ]

2010 _________________________________________________________________________
High-Performance Heterogeneous Computing with the Convey HC-1
publication:	Computing in Science and Engineering, Vol. 12, No. 6, November/December 2010.
authors:	Jason D. Bakos
document:	[ View the PDF ]

Integrated Circuit Implementation for a GaN HFET Driver Circuit
publication:	IEEE Transactions on Industry Applications, Vol. 46, No. 5, Sept/Oct. 2010.
authors:	Bo Wang, Marco Riva, Jason D. Bakos, Antonello Monti
document:	[ View the PDF ]

GPU Acceleration of Near-Minimal Logic Minimization
publication:	Proc. 2010 Symposium on Application Accelerators in High Performance Computing (SAAHPC'10), July 13-15, 2010.
authors:	Ibrahim Savran, Jason D. Bakos
document:	[ View the PDF ]

FPGA acceleration of the phylogenetic likelihood function for Bayesian MCMC inference methods
publication:	BMC Bioinformatics 2010, 11:184.
authors:	Stephanie Zierke, Jason D. Bakos
document:	[ View the PDF ]

2009 _________________________________________________________________________
A High-Performance Double Precision Accumulator
publication:	Proc. IEEE International Conference on Field-Programmable Technology (IC-FPT'09), Dec. 9-11, 2009.
authors:	Krishna. K. Nagar, Jason D. Bakos
document:	[ View the PDF ]

FPGA vs. GPU for Sparse Matrix Vector Multiply
publication:	Proc. IEEE International Conference on Field-Programmable Technology (IC-FPT'09), Dec. 9-11, 2009.
authors:	Yan Zhang, Yasser Shalabi, Rishabh Jain, Krishna K. Nagar, Jason D. Bakos
document:	[ View the PDF ]

An Integrated Reduction Technique for a Double Precision Accumulator
publication:	Proc. Third International Workshop on High-Performance Reconfigurable Computing Technology and Applications (HPRCTA'09), held in conjunction with Supercomputing 2009 (SC'09), Nov. 15, 2009.
authors:	Krishna K. Nagar, Jason D. Bakos
document:	[ View the PDF ]

Exploiting Matrix Symmetry to Improve FPGA-Accelerated Conjugate Gradient
publication:	Proc. 17th Annual IEEE International Symposium on Field Programmable Custom Computing Machines (FCCM'09), April 5-8, 2009.
authors:	Jason D. Bakos, Krishna K. Nagar
document:	[ View the PDF ]

2008 ___________________________________________________________________
A Special-Purpose Architecture for Solving the Breakpoint Median Problem
publication:	Proc. IEEE Transactions on Very Large Scale Integration (VLSI) Systems, Vol. 16, No. 12, Dec. 2008.
authors:	Jason D. Bakos, Panormitis E. Elenis
document:	[ View the PDF ]

Integrated Circuit Implementation for a GaN HFETs Driver Circuit
publication:	Proc. IEEE Applied Power Electronics Conference and Exposition (APEC'08), Austin, TX, Feb. 24-28, 2008.
authors:	B. Wang, M. Riva, J. Bakos, A. Monti
document:	[ View the PDF ]

2007 ________________________________________________________________________
FPGA Acceleration of Phylogeny Reconstruction for Whole Genome Data
publication:	Proc. 7th IEEE International Symposium on Bioinformatics & Bioengineering (BIBE'07), Boston, MA, 14-17 Oct. 2007.
authors:	Jason D. Bakos, Panormitis E. Elenis, Jijun Tang
document:	[ View the PDF ]

FPGA Acceleration of Gene Rearrangement Analysis
publication:	Proc. 15th Annual IEEE Symposium on Field-Programmable Custom Computing Machines (FCCM'07), April 23-25, 2007.
authors:	Jason D. Bakos
document:	[ View the PDF ]

Lightweight Error Correction Coding for System-Level Interconnects
publication:	IEEE Transactions on Computers, Vol. 56, No. 3, March 2007.
authors:	Jason D. Bakos, Donald M. Chiarulli, Steven P. Levitan
document:	[ View the PDF ]

2006 _______________________________________________________________________
Predictive Load Balancing for Interconnected FPGAs
publication:	Proc. 16th International Conference on Field Programmable Logic and Applications (FPL'06), Madrid, Spain, August 28-30, 2006.
authors:	Jason D. Bakos, Charles L. Cathey, E. Allen Michalski
document:	[ View the PDF ]

A Reconfigurable Distributed Computing Fabric Exploiting Multilevel Parallelism
publication:	Proc. 14th Annual IEEE Symposium on Field-Programmable Custom Computing Machines (FCCM'06), April 24-26, 2006.
authors:	Charles L. Cathey, Jason D. Bakos, Duncan A. Buell
document:	[ View the PDF ]

Efficient Optical Communications Using Multibit Differential Signaling
publication:	Proc. SPIE Symposium on Optoelectronics, Photonics West: Photonics Packaging and Integration VIII, Paper No. 6126-16, San Jose, CA, 21-26 January 2006.
authors:	Donald M. Chiarulli, Sam Dickerson, Jason D. Bakos, Joel R. Martin, Steven P. Levitan
document:	[ View the PDF ]

2005 ________________________________________________________________________
Area, Power, and Pin Efficient Bus Transceiver Using Multi-Bit-Differential Signaling
publication:	Proc. IEEE International Symposium on Circuits and Systems (ISCAS'05), pp. 1662 - 1665 Vol. 2, Kobe, Japan, May 23-26, 2005.
authors:	Donald M. Chiarulli, Jason D. Bakos, Joel R. Martin, Steven P. Levitan
document:	[ View the PDF ]

Area, power, and pin efficient bus structures using multi-bit-differential signaling
publication:	Proc. SPIE Symposium on Microtechnologies for the New Millennium 2005, pp. 5837-04, VLSI Circuits and Systems II, 5837-4, Sevilla, Spain, May 9-11, 2005.
authors:	Donald M. Chiarulli, Jason D. Bakos, Joel R. Martin, Steven P. Levitan
document:	[ View the PDF ]

Power Efficient Communication Using Multi-Bit-Differential Signaling
publication:	Proc. IEEE/LEOS 16th Annual Workshop on Interconnections within High-Speed Digital Systems, Santa Fe, NM, May 8-11, 2005.
authors:	Steven P. Levitan, Donald M. Chiarulli, Sam Dickerson, Jason Bakos, Joel Martin

2004 __________________________________________________________________________
Active Substrates for Optoelectronic Interconnect
publication:	Proc. IEEE International Symposium on Circuits and Systems (ISCAS'04), Volume 5, pp. V-592 - V-595, Vancouver, Canada, May 23-26, 2004.
authors:	Donald M. Chiarulli, Steven P. Levitan, Jason Bakos, Charles Kuznia
document:	[ View the PDF ]

Photonic Packaging for Mixed-Technology Sensor Systems
publication:	Topical Meeting on Optics in Computing, European Optical Society (OC'04), Integrated Photonics Research and Optics in Computing (IPR-OiC’2004), pp. 113-114, Engelberg, Switzerland, April 21-23, 2004.
authors:	Donald Chiarulli, Jason Bakos, Leo Selavo, Steven Levitan, John Hansson, Michael Weisser
document:	[ View the PDF ]

Modeling and Simulation of Fiber Image Guide Multi-Chip Modules for MOEMS Applications
publication:	Proc. SPIE Photonics West: Micromachining and Microfabrication/MOEMS and Miniaturized Systems IV, Vol. 5346-18, pp. 141-150, San Jose, CA, 25-30 January 2004.
authors:	Steven P. Levitan, Timothy P. Kurzweg, Jose A. Martinez, Mark Kahrs, Jason Bakos, Craig Windish, Jason Boles, John Hansson, Michael Weisser, Charles Kuznia, Donald M. Chiarulli
document:	[ View the PDF ]

2003 ______________________________________________________________________
Optoelectronic Multi-Chip Module Demonstrator System
publication:	in Optics in Computing, OSA Technical Digest, (Optical Society of America, Washington DC, 2003) pp 117-119.
authors:	Jason Bakos, Donald Chiarulli, and Steven Levitan
document:	[ View the PDF ]

Optoelectronic Multi-Chip Modules
publication:	Proc. 10th Annual Conference of Mixed Design of Integrated Circuits and Systems (MIXDES'03), Lodz, Poland, June 26-28, 2003.
authors:	D. Chiarulli, S. Levitan, J. Bakos
document:	[ View the PDF ]

Encoding Benefits for Fast Optical Transceivers
publication:	Proc. 14th IEEE-LEOS Annual Workshop on Interconnections within High-Speed Digital Systems, Santa Fe, New Mexico, 4 – 7 May 2003.
authors:	Leo Selavo, Jason Bakos, Donald M. Chiarulli, Steven P. Levitan

2002 _________________________________________________________________________
Optoelectronic Multi-Chip-Module Implementation of a 64 Channel Crossbar Switch
publication:	Proc. International Conference of Optics in Computing (OC'02) pp. 161-163, Taipei, Taiwan, April 8 - 11, 2002.
authors:	J. D. Bakos, D. M. Chiarulli, and S. P. Levitan
document:	[ View the PDF ]

Published Works

2022 ____________________________________________________________________________

High-Rate Machine Learning for Forecasting Time-Series Signals

High-Rate Machine Learning for Forecasting Time-Series Signals

High-Rate Machine Learning for Forecasting Time-Series Signals

Deterministic and low-latency time-series forecasting of nonstationary signals

Compensation technique for accurate acceleration measurements using a UAV deployable and retrievable sensor package

Synthesizing Dynamic Time-series Data for Structures Under Shock Using Generative Adversarial Networks

2021 ___________________________________________________________________

Real-time Forecasting of Vibrations with Nonstationarities

Time Series Forecasting for Structures Subjected to Nonstationary Inputs

2019 _____________________________________________________________________

An Overlay Architecture for Pattern Matching

OpenVX Graph Optimization for Visual Processor Units

2018 _________________________________________________________________

Fast Coordination of Power Electronic Converters for Energy Routing in Shipboard Power Systems

2017 ____________________________________________________________________

A Dynamically Reconfigurable Automata Processor Overlay

Control System Communication Architecture for Power Electronic Building Blocks

System-Level, FPGA-Based, Real-Time Simulation of Ship Power Systems

2016 ________________________________________________________________________

High-Level Synthesis of a Genomic Database Search Engine

Two-Hit Filter Synthesis for Genomic Database Search

2015 ______________________________________________________________________

Embedded Systems: ARM Programming and Optimization

Memory Interface Design for 3D Stencil Kernels on a Massively Parallel Memory System

2014 ________________________________________________________________________

Lucas-Kanade Optical Flow Estimation on the TI C66x Digital Signal Processor

Sparse Matrix-Vector Multiply on the Keystone II Digital Signal Processor

Large-scale Pairwise Sequence Alignments on a Large-scale GPU Cluster

2013 _________________________________________________________________________

Accuracy, Cost, and Performance Tradeoffs for Floating-Point Accumulation

Sparse Matrix-Vector Multiply on the Texas Instruments C6678 Digital Signal Processor

Memory Access Scheduling on the Convey HC-1

Accelerating Frequent Itemset Mining on Graphics Processing Units

A Heuristic Scheduler for Port-Constrained Floating-Point Pipelines

Extending the BEAGLE Library to a Multi-FPGA Platform

An FPGA-Based Accelerator for Frequent Itemset Mining

2012 ____________________________________________________________________

GPU Acceleration of Pyrosequencing Noise Removal

A Cluster-on-a-Chip Architecture for High-Throughout Phylogeny Search

2011 ________________________________________________________________________

Frequent Itemset Mining on Large-Scale Shared Memory Machines

GPApriori: GPU-Accelerated Frequent Itemset Mining

A Sparse Matrix Personality for the Convey HC-1

2010 _________________________________________________________________________

High-Performance Heterogeneous Computing with the Convey HC-1

Integrated Circuit Implementation for a GaN HFET Driver Circuit

GPU Acceleration of Near-Minimal Logic Minimization

FPGA acceleration of the phylogenetic likelihood function for Bayesian MCMC inference methods

2009 _________________________________________________________________________

A High-Performance Double Precision Accumulator

FPGA vs. GPU for Sparse Matrix Vector Multiply

An Integrated Reduction Technique for a Double Precision Accumulator

Exploiting Matrix Symmetry to Improve FPGA-Accelerated Conjugate Gradient

2008 ___________________________________________________________________

A Special-Purpose Architecture for Solving the Breakpoint Median Problem

Integrated Circuit Implementation for a GaN HFETs Driver Circuit

2007 ________________________________________________________________________

FPGA Acceleration of Phylogeny Reconstruction for Whole Genome Data

FPGA Acceleration of Gene Rearrangement Analysis

Lightweight Error Correction Coding for System-Level Interconnects

2006 _______________________________________________________________________

Predictive Load Balancing for Interconnected FPGAs

A Reconfigurable Distributed Computing Fabric Exploiting Multilevel Parallelism

Efficient Optical Communications Using Multibit Differential Signaling

2005 ________________________________________________________________________

Area, Power, and Pin Efficient Bus Transceiver Using Multi-Bit-Differential Signaling

Area, power, and pin efficient bus structures using multi-bit-differential signaling

Power Efficient Communication Using Multi-Bit-Differential Signaling

2004 __________________________________________________________________________

Active Substrates for Optoelectronic Interconnect

Photonic Packaging for Mixed-Technology Sensor Systems

Modeling and Simulation of Fiber Image Guide Multi-Chip Modules for MOEMS Applications

2003 ______________________________________________________________________

Optoelectronic Multi-Chip Module Demonstrator System

Optoelectronic Multi-Chip Modules

Encoding Benefits for Fast Optical Transceivers

2002 _________________________________________________________________________

Contact Jason D. Bakos

2022
____________________________________________________________________________

2021
___________________________________________________________________

2019
_____________________________________________________________________

2018
_________________________________________________________________

2017
____________________________________________________________________

2016
________________________________________________________________________

2015
______________________________________________________________________

2014
________________________________________________________________________

2013
_________________________________________________________________________

2012
____________________________________________________________________

2011
________________________________________________________________________

2010
_________________________________________________________________________

2009
_________________________________________________________________________

2008
___________________________________________________________________

2007
________________________________________________________________________

2006
_______________________________________________________________________

2005
________________________________________________________________________

2004
__________________________________________________________________________

2003
______________________________________________________________________

2002
_________________________________________________________________________