Anshu Gupta

Anshu Gupta

PhD Candidate, Computer Science & Engineering
University of California San Diego

I am a 4th-year PhD candidate in Computer Science and Engineering at the University of California San Diego, advised by Prof. Yatish Turakhia.

My research bridges computer architecture, machine learning systems, and computational biology, with the broader goal of making large-scale genomic analysis fast, scalable, and accessible. I build hardware/software co-designed systems - that go from algorithm design down to RTL and silicon — spanning FPGA-based accelerators for dynamic programming-based sequence alignment to a fully automated, GPU/CPU-parallelized workflow for phylogenomic tree inference. These tools are open-sourced and being used by research groups worldwide, with publications at leading venues (PNAS, HPCA).

I collaborate with the Vertebrate Genomes Project (VGP) consortium, researchers at the Scripps Institution of Oceanography, UCSD, and the AMD Omics Group on accelerating bioinformatics workloads at scale.

Beyond research, I serve the community as a member of the Artifact Evaluation Committee for ISCA 2025 and ISCA 2024, as a reviewer for Bioinformatics (Oxford Academic), and as co-organizer of the BioSys Workshop at ASPLOS 2024.

I received my M.S. in Computer Engineering from UC San Diego and my B.Tech. from IIEST Shibpur, India. Before my PhD, I spent 3+ years as a Digital Design Engineer at Analog Devices. During my PhD, I interned at AMD Research. I was also a DAAD WISE Scholar at the University of Bremen, Germany.

Press & Media Coverage Full coverage →
UCSD Today PNAS Cover Jacobs School of Engineering SciEnMag EurekAlert!
Service
Artifact Evaluation Committee, ISCA 2025, ISCA 2024.
Reviewer, Bioinformatics (Oxford Academic), RECOMB 2026.
Workshop Co-organizer, BioSys Workshop @ ASPLOS 2024 — San Diego, CA.
Collaborations and Affiliations
Vertebrate Genomes Project (VGP) Scripps Institution of Oceanography, UCSD Turakhia Lab, UCSD Mirarab Lab, UCSD AMD Omics Group
News All news →
Apr 2026 Defended my Ph.D. thesis proposal and advanced to candidacy. Committee: Prof. Siavash Mirarab, Prof. Melissa Gymrek, and Prof. Rob Knight.
Apr 2026 Presented DP-HLS poster at UC San Diego Research Expo 2026.
Mar 2026 Delivered a guest lecture for ECE 218 at UC San Diego.
Feb 2026 Presented and published DP-HLS at IEEE HPCA 2026, Sydney, Australia.
Jun 2025 Started research internship at AMD Research & Advanced Development (RAD), San Jose, CA.
May 2025 ROADIES published in PNAS and selected as the journal cover (Vol. 122, No. 19). Featured in UCSD Today.
Mar 2025 Served on Artifact Evaluation Committee for ISCA 2025.
Jul 2024 Presented talk on ROADIES at ISMB 2024, Montreal, Canada.
Apr 2024 Awarded ASPLOS 2024 Travel Grant. Co-organized the 1st BioSys workshop at ASPLOS 2024, San Diego.
Apr 2024 Presented poster on ROADIES at UC San Diego Research Expo 2024.
Mar 2024 Served on Artifact Evaluation Committee for ISCA 2024.
Sep 2023 Completed 3-month summer internship at Analog Devices, Inc., Wilmington, MA.
Nov 2022 Joined Turakhia Lab as a PhD student at UC San Diego.