Conference Paper
HPC Systems Professionals Workshop (HPCSYSPROS) at SC26
Introduces WfTune, an open-source framework for benchmarking workflow configurations, deployment strategies, and their interactions with local HPC schedulers. MIT-licensed and available on PyPI, it is extensible and portable across workflow managers, pipelines, and HPC sites. Across four Nextflow deployment strategies on two ASU clusters, the tuned pipeline cut completion time by over 50% while reducing scheduler stress.
Conference Paper
US Research Software Engineer Association (US-RSE)
Ten practices for refactoring legacy scientific pipelines to nf-core DSL2 on shared Slurm clusters, drawn from rebuilding the make_lastz_chains whole-genome alignment pipeline in Nextflow. Recorded requirements, human review of every AI-generated change, and comparisons against reference outputs checked correctness, and exposed a pre-existing silent failure that lost about 23% of alignment coverage in one sample. On a shared cluster, the refactor finished each workload in 2.7–5.6 hours, the shortest full-pipeline walltime in every comparison.
Mentorship
Cyberinfrastructure Community-wide Mentorship Network (CCMNet)
Mentor in the CCMNet mentorship program, leading a project on tuning workflow-management systems on HPC (2026).
Project
NASA OSDR Microbiome Analysis Working Group
Develops a large-scale Nextflow pipeline for virus detection and discovery with the NASA Open Science Data Repository (OSDR) Microbiome Analysis Working Group.
Project
Third-largest contributor, by commits, to the Hiller Lab's pipeline for whole-genome alignment chains. Authored the nf-core DSL2 refactor merged upstream in May 2026, which rebuilt the pipeline as modular Nextflow workflows. Other merged changes added Nextflow job arrays and run reports, fixed alignment of genomes larger than 4 GB, and capped task retries. Also helps users debug runs in the issue tracker.
Project
Committee member on the Earth BioGenome Project's Scientific Subcommittee on IT and Informatics. Supports the project's genome-analysis workflows on HPC, including refactoring comparative-genomics pipelines such as make_lastz_chains to nf-core standards and running them on ASU supercomputers.
Presentation
RMACC HPC Symposium
Presentation on tuning workflow-management systems and their scheduling behavior for shared, multi-tenant HPC resources.
Conference Paper
US Research Software Engineer Association (US-RSE)
Practical lessons from supporting the make_lastz_chains genome-alignment pipeline on ASU supercomputers, where Nextflow submits many small Slurm jobs that erode a user's Fairshare score and stretch queue waits. Covers scheduling tactics, Fairshare impact, and reliably capturing Slurm errors, aimed at researchers, RSEs, and HPC support teams.
Birds of a Feather
International Conference for High Performance Computing, Networking, Storage, and Analysis (SC26)
Birds of a Feather session on operational data analytics (ODA) for HPC facilities, centered on agentic AI and how it can put the telemetry and operational data that sites collect to work. Co-organized with the ODA planning committee.
Project
ASU Research Computing
Benchmarking and testing tools for ASU's supercomputers. HPL runs on Sol's A100 GPUs back ASU's Top500 and Green500 rankings, with HPCG and HPL-MxP runs alongside. After each maintenance window, a ReFrame suite runs node-level and MPI checks across ASU's clusters, including the OSU Micro-Benchmarks, and flags the nodes that need fixing before the systems return to production.
Conference Paper
Practice and Experience in Advanced Research Computing (PEARC)
A case study on provisioning and operating a large-scale AI platform composed of Intel Gaudi2 accelerators for research computing at Arizona State University, presented at PEARC 2026.
Presentation
RMACC HPC Symposium
Presentation on running HPL (Linpack) and other popular benchmarks across heterogeneous HPC clusters, and interpreting the results for capacity and performance planning.
Project
Predicts protein structures and uses the predicted structures for phylogenetic analysis.
Project
CIREN, Arizona State University
Cyberinfrastructure facilitator on a CIREN project with Michael Lynch that simulates how early RNA-like organisms evolve under mutation, natural selection, and genetic drift. The work translates the original C++ research code into Python, accelerates large-population simulations with PyTorch on GPUs, and validates results against the original models.
Journal Article
mSystems, American Society for Microbiology
Followed the nasopharyngeal microbiome of Kenyan mothers and their children before, during, and after SARS-CoV-2 Omicron infection in a longitudinal cohort that included women living with HIV. Genomic epidemiology showed mother and child pairs carried the same rapidly spreading Omicron strain, and the cohort design separates how infection and HIV exposure each shape the airway microbiome.
Journal Article
mBio, American Society for Microbiology
Baseline genomic surveillance that tracked SARS-CoV-2 across public clinical testing, hospitals, and community wastewater in Arizona, capturing the rapid takeover by the Omicron variant of concern. Pairing the three sampling streams shows how quickly a new variant can rise to dominance in a community.
Poster
5th Annual Mayo Clinic–ASU BMI/BMD Student Poster and Employer Networking Event
Poster proposing a Clinical Decision Support System (CDSS) built on Prescription Drug Monitoring Programs (PDMPs) to support patient pain management, developed during a research affiliation at Mayo Clinic.
Journal Article
Journal of Biological Chemistry
Showed that cellular prion protein is required for TNFα-triggered NF-κB signaling and cytokine production: deleting PRNP in melanoma and pancreatic cancer cell lines silenced the response, and reintroducing it restored signaling. Mechanistically, prion protein keeps RIP1 and TRAF2 ubiquitinated by restraining the deubiquitinase CYLD. Selected as a JBC Recommended Read (Oct 2017).
Poster & Slides
International Genetically Engineered Machine (iGEM) 2015 Jamboree
Slides and poster presentation for Team WHU-China's synthetic-biology project — a DNA criticality-detector circuit in E. coli designed as an automatic medicine-dosage threshold for addressing human dental caries. Awarded a Silver Medal.
