Thursday, December 10, 2020

[DMANET] Open Ph.D. position in Probabilistic Verification Methodologies for Synthetic Biology and Nanotechnology

A PhD position is available (fully paid for 3 years with the possibility of
extension) at the Electrical and Computer Engineering Department of Utah
State University in the US.

The expected starting date is late August, 2021. GRE requirement is
temporarily suspended until further notice. Graduate application deadline
closes in early January, 2021.

Abstract:
Synthetic biology and nanotechnology place increasing demands on design
methodologies to ensure dependable and robust operation. Consisting of
noisy and unreliable components, these complex systems have large and often
infinite state spaces that include extremely rare error states.
Probabilistic model checking techniques have demonstrated significant
potential in quantitatively analyzing such system models under extremely
low probability. Unfortunately, they generally require enumerating the
model's state space, which is computationally intractable or impossible.
Therefore, addressing these design challenges in emerging technologies
requires enhancing the applicability of probabilistic model checking.
Motivated by this problem, this project investigates an automated
probabilistic verification framework that integrates approximate
probabilistic model checking and counterexample-guided rare-event
simulation to improve the analysis accuracy and efficiency.
This multi-institution collaborative project focuses on verifying
infinite-state continuous-time Markov chain (CTMC) models with rare-event
properties. It addresses the scalability problem by first applying
property-guided and on-the-fly state truncation techniques to prune
unlikely states to obtain finite state representations that are amenable to
probabilistic model checking. In the case of false or indeterminate
verification results, probabilistic counterexamples are generated and
utilized to improve the accuracy of the state reductions. Furthermore, it
mines these critical counterexamples as automated guidance to improve the
quality and efficiency for rare-event probabilistic simulations. This
verification framework will be integrated within existing state-of-the-art
probabilistic model checking tools (e.g., the PRISM model checking tool),
and benchmarked on a wide range of real-world case studies in synthetic
biology and nanotechnology.
========================================

Project description:
This position at Utah State University will be advancing and developing
efficient model abstraction and state space truncation techniques for the
infinite-state CTMC models. In particular, we are interested in
investigating:
- Algorithms for state space truncation and abstraction with improved
accuracy for infinite-state systems
- Prototype implementation of the developed algorithms in Java
- Evaluation of the prototype on case studies in synthetic biology and
stochastic computing circuits
- Predicate abstraction techniques for CTMC models
========================================

Qualifications:
Applicants must have a bachelor's degree in Electrical/Computer
Engineering, Computer Science, or a related field. The successful candidate
is expected to demonstrate strong background and interest in formal methods
and algorithms, and preferably basic knowledge of probability and random
process. SHe/He should be confident in independently developing academic
software tools. Good writing and presentation skills in English are
important as well. Knowledge of synthetic biology is preferred, but not
required.
========================================

Salary:
This is a fully paid position. The successful PhD candidate receives $1,600
per month. The pay is negotiable. The candidate is expected to work on
average 20 hours per week during fall and spring semesters, and up to 40
hours per week during the summer. As a graduate student, you will receive a
full tuition waiver. Additionally, you will receive student insurance
coverage. Depending on funding situation, tuition differential and fees may
also be covered.
========================================

ECE Department at USU:
The place of employment is the Electrical and Computer Engineering
Department at Utah State University. The university is located in Logan,
Utah, 88 miles (about 142 km) north of Salt Lake City. The mission of the
Department of Electrical and Computer Engineering is to serve society
through excellence in learning, discovery, and outreach. We provide
undergraduate and graduate students an education in electrical and computer
engineering, and we aspire to instill in them attitudes, values, and
visions that will prepare them for lifetimes of continued learning and
leadership in their chosen careers. Through research, the department
strives to generate and disseminate new knowledge and technology for the
benefit of the State of Utah, the nation, and beyond. The detailed graduate
program description can be found at:
https://engineering.usu.edu/ece/students/graduate/index.
Graduate application information is available at:
https://engineering.usu.edu/ece/files/pdfs/ece-graduate-program-application-info.pdf
.
========================================

Additional Information about Logan:
Logan is a valley community of about 125,000 people nestled in between the
Wellsville Mountains and Bear River Range in northeastern Utah. The many
ski resorts, lakes, rivers, and mountains in the region make it one of the
finest outdoor recreation environments in the nation. The campus is 90
miles north of Salt Lake City. With views of a natural area reserve from
campus, the pristine natural environment of the area makes Logan one of
America's most attractive and affordable university towns (
https://www.explorelogan.com/).

========================================
Contact:
For questions about this position, please contact:
Dr. Zhen Zhang (zhen.zhang@usu.edu) and Dr. Chris Winstead (
chris.winstead@usu.edu)

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