The BioHPC team, led by Liqiang Wang, supports all of the computing and storage hardware, software and web services that make up BioHPC. With a variety of backgrounds we have expertise that spans various aspects of computing and biological research, allowing us to recognize the needs of our users.
LOCATIONS: The BioHPC team is housed in the new facilities for the Lyda Hill Department of Bioinformatics, on South Campus, Room E4.350 (please enter from Library internal staircase or South elevators; there is no entry into Bioinformatics from the Faculty Club). The main office phone is x51731.
For in-person consultation, a help desk is also staffed on North Campus, Monday thru Friday, 10am to 5pm in room NL5.120P.
NOTE - Please email BioHPC inquiries to email@example.com as all staff monitor this address.
Liqiang Wang, M.S., received his master’s degree in computer science from University of New Orleans in 2009 and a bachelor’s degree in computer science from Huazhong Normal University, China. For the past 9 years Liqiang has been working in High Performance Computing (HPC) from IBM SP, P5 and P5+ supercomputing systems to large-scale beowulf clusters, and providing scientific computing consultation to researchers in science and engineering. He has received certifications from 15 industrial companies, including Cisco Certified Internetwork Expert, Microsoft Certified Systems Engineer, Linux Professional Institute and Oracle Certified professional. While working for the Louisiana Optical Network Initiative (LONI), a state-wide supercomputing infrastructure for academic research, he provided scientific computing and applications support, supercomputing system deployment and administration of over 300 TFlops total computing capacity. He participated in multiple LONI projects, including Cybertools and HPCOPS. Wang developed an MPI-MapReduce cloud platform for the digital forensics research funded by the FBI in New Orleans.
Since its inception, the UT Southwestern Biomedical High Performance Computing infrastructure has thrived under Liqiang's leadership. As Director, he designed and built BioHPC Cloud, the first cloud HPC resource at UT Southwestern, designed with long-term scalability of storage and compute power, incorporating cloud storage, computing and apps. He works closely with the BioHPC user advisory council and steering committee and is responsible for the day-to-day activity, operation and management of the HPC team and leads the development of proposals to expand or extend the HPC system based on needs articulated by BioHPC member entities.
Email: Liqiang.Wang@UTSouthwestern.edu Phone: 214-645-1638
Yi DU joined BioHPC team as a Computational Scientist in 2014. Her research interests include parallel scientific computing, algorithm design, data integration and large-scale data analysis. Prior to joining UT Southwestern, she spent 9 years developing and maintaining large-scale ocean general circulation models to investigate the marine system.
Ross Bateman recieved his bachelor's degree from Texas Christian University, and has been at UT Southwestern for three years. He joined the BioHPC team in 2015 to provide system administration and technical support. Ross has had experience in various IT roles, including higher education support, for 10 years.
Wei Guo graduated from the University of Tennessee, Knoxville in May 2015. His research focused on computer simulations of radiation behaviors of metals and glasses designed for the 4th generation nuclear reactors. His work was highly collaborative, bringing together researchers from materials science, nuclear engineering and physics. In addition, Wei studied the structure of matter using advanced characterization techniques, including synchrotron X-ray diffraction and neutron scattering. He joined the BioHPC team in January 2016, and enjoys working with researchers at UT Southwestern to facilitate scientific discovery through high performance computing.
Long Lu received his bachelor's degree in biology in 2013 from University of Texas Rio Grande Valley (formerly UT Pan-America), and his masters degree in computer science in 2016. During his years as a undergraduate, he was involved in biology and chemistry research, namely gene sequencing and materials science. During his graduate study, he joined a mobile application developement team within the university and spent about two years developing small scale mobile applications. Long joined the BioHPC team in the summer of 2016, and is enthusiastic about applying his computer science skills to support the biomedical research community at UT Southwestern.
Yingfei Chen received her PhD degree in Chemical and Biological Engineering from Iowa State University. She is interested in solving biological problems using computational methods, and thus her research focused on bioinformatics, mentored by distinguised professor Dr. Peter Reilly . She studied protein sequences and tertiary structures for caborxyl ester hydrolases and enzymes in fatty acid and polyketide synthesis, classified them, and created the enzyme databases CASTLE and ThYme for these proteins. For those projects she wrote scripts to automate steps and analyze data. She also has data mining experience through a project that worked to to reveal insights on conditions under which protein crystallization occurs and has published 8 research papers .
Yingfei joined the BioHPC team in November 2016, and looks forward to providing UT Southwestern researchers with great computational services.
Murat Atis received his PhD in Physics, Turkey in 2005. In his research, Murat investigated structural, thermodynamic, magnetic, spectral properties (FT-IR, Raman, NMR, UV) and hydrogen storage capabilities of nano structures by computational methods like Molecular Dynamics, Quantum Mechanical Calculations, Stochastic Search Algorithm, Monte Carlo and Genetic Algorithm. He not only used these methods but also is interested in developing and parallelization of programs using these methods. He joined UT Austin in 2016 as visitor scientist for one year to investigate HIV Reverse Transcriptase by using Milestoning Algorithm. He published more than 20 journal papers, joined six research projects, advised one PhD and five MS thesis. He joined the BioHPC team in 2017.
Li Tan received his PhD degree in Computer Science from University of California, Riverside in Fall 2015, with the research focus on improving resilience and energy/power efficiency for scientific algorithms and applications on High Performance Computing (HPC) environments, from real HPC systems to virtualized/simulated HPC platforms. Li's research efforts led to more than 20 first-author publications in HPC areas, including prestigious venues such as SC, IPDPS, and TACO.
After a two-year stint as a Postdoctoral Research Scientist at Los Alamos National Laboratory since his graduation, Li joined the BioHPC team in January 2018, moving from the primary HPC research role to the practitioner of operating large-scale HPC resources and providing prompt HPC services for daily-growing computational needs from biomedical researchers at UT Southwestern Medical Center.
Daniel Moser graduated from Indiana State University in the spring of 2012 with a B.S. in Physics. Afterwards, he began his graduate studies in Atmospheric Sciences at Purdue University before transferring to the University of Illinois in Urbana-Champaign where he was awarded his Ph.D. For his dissertation, Daniel participated in the Convective Precipitation Experiment in the United Kingdom, an airborne field campaign that observed convective cloud development in situ. Daniel recreated these clouds in extensive high-resolution simulations on the Yellowstone and Blue Waters HPC systems, focusing on the turbulent exchanges between clouds and their surrounding environment, an important factor in determining how much rain may fall from a cloud. His research involved modifying and writing new parallelized algorithms in numerical weather models, culminating in three published papers with two more in review.
Outside of academia Daniel is a certified private pilot and contributes to the growing flight simulation scene by developing and maintaining one of the largest 3-D global terrain datasets for Lockheed Martin and Microsoft line of flight simulators. He is also an avid ice hockey fan, loves to monitor severe weather, and loves to chat about early 20th century history.
I’m a 3rd-year Biomedical Engineering graduate student, in the Biomedical and Molecular Imaging track, with a specialty in Computational and Systems Biology. I received my B.S. in Biomedical Engineering- Imaging and Instrumentation from UT Austin in 2015. My research primarily focuses on the use of multispectral imaging methods for the assessment of tumor hypoxia and hemodynamics.
Zhiguo Shang graduated from the Graduate University for Advanced Studies (Japan) in 2010 and obtained his PhD degree in biochemistry. After that, he transited into the field of structural biology and have expanded his skills to cryo-electron microscopy in Prof. Fred Sigworth’s and Prof. Charles Sindelar's lab at Yale University. Where he programmed the algorithms required for the image processing in single particle cryo-electron microscopy and studied the structure and function of kinesin motor proteins. He is currently working as a senior research scientist in Prof. Daniela Nicastro’s lab at UT Southwestern Medical Center. His research focuses on the development of a method, named TYGRESS (TomographY-Guided 3D Reconstruction of Subcellular Structures), to generate a high-resolution structure of doublet microtubule in axoneme.