Ph.D. Presentations

Centromeres ensure proper chromosome segregation during cell division, yet the organization and regulation of centromeric chromatin within satellite DNA arrays remain incompletely understood. Here, we leverage the complete diploid human genome benchmark (T2T-HG002) to provide a detailed study of centromeric sequence and chromatin architecture on individual haplotypes. Using adaptive-sampling-enriched, ultra-long-read DiMeLo-seq, we achieve single-molecule chromatin […]

As quantum computing transitions from theory to practice, understanding which algorithms suit near-term devices becomes critical. Current quantum computers are severely constrained by limited qubit counts, short coherence times, and […]

Many genetics pipelines start by aligning sequencing reads to a reference genome. Aligners attempt to find the position in the reference sequence which best matches the read sequence, but this […]

Self-reflection holds significant potential for learning, behavior change, and emotional processing, yet designing technologies that effectively support it remains challenging, particularly when reflection involves difficult experiences such as failure. Most […]

The growing complexity of high-performance computing (HPC) systems poses a fundamental challenge for domain scientists, whose primary objective is to obtain scientifically valid results rather than to optimize resource utilization. […]

Modern software increasingly relies on distributed systems to provide accessible, scalable, and reliable services. Choreographic programming brings a global perspective to distributed system development: programmers write a single program that […]

Edge computing and distributed AI systems increasingly operate under heterogeneous resources, dynamic workloads, and frequent failures, requiring both adaptivity and fault tolerance for efficient execution. In heterogeneous edge clusters, nodes […]

Real-time monitoring of infectious disease outbreaks calls for statistical models that recover interpretable quantities such as the time-varying reproduction number from noisy count data, track posterior uncertainty, and run on […]

Due to their increasing complexity, autonomous decision-making agents rely on increasingly advanced algorithms, from classical control theory to reinforcement learning (RL) and, more recently, large vision-language models. While these algorithms […]

Graphics Processing Units (GPUs) have become essential platforms for parallel computing, supporting applications far beyond graphics. Central to GPU programming models is its memory consistency specification (MCS), which defines the semantics of concurrent shared-memory operations and interacts with other language features to determine security guarantees such as memory safety. Understanding whether implementations conform to an […]

While the human brain learns continually, mastering new tasks without forgetting the old and adapting to unfamiliar ones from context alone, modern neural networks still lack both. To bridge the gap between biological adaptivity and modern AI, we have established foundational work on sparsity as a computational principle at three levels of neural computation, through […]

Alternative splicing, the process generating different RNA isoforms from a single gene, is considered one of the main factors driving increased organism complexity in eukaryotes. Variations in isoform and gene expression produce the functional differences that give rise to different cell types and, in some cases, result in disease. Long-read RNA sequencing has transformed our […]