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Systems Biology of Single Cells 2025 will tackle some of the most challenging questions in single-cell biology today. How do we develop conceptual theories of cell state dynamics? How do we integrated and scale multi-omic and spatial data to the atlas scale? How do we control and engineer cells for therapeutics? By bringing together this breadth of systems biology — from algorithms to synthetic cells — we will forge paths forward to new discovery.

The scientific organizing committee consists of Adam MacLean (Quantitative and Computational Biology, USC), Zixuan Cang (Mathematics, NCSU) and Katie Galloway (Chemical Engineering, MIT). 

Details

Date: Thursday, May 8 – Friday. May 9, 2025

Venue: Beckman Center of the National Academies of Sciences & Engineering

Registration Deadline: April 28, 2025

Due to current funding climate uncertainty, we have been able to reduce the registration fee to $30USD. Registration includes 1) full access to all conference sessions, 2) breakfast, lunch, and refreshments for both days, 3) conference reception and dinner

Full List of Speakers

Keynote talks

Lacra Bintu (Stanford), Distilling the Rules of Transcriptional Activators and Repressors Using High-throughput And Single-cell Methods

Raphael Gottardo (Lausanne U), From Transcripts to Cells: Dissecting Sensitivity, Diffusion, and Signal Purity in Xenium Spatial Transcriptomics 

Christina Kendziorski (U Wisconsin-Madison), CASSIA: A multi-agent Large Language Model for Cell Annotation of Single-cell RNA-Sequencing Data

Arjun Raj (Penn), Building Cellular Memories as a Mechanism of Therapy Resistance in Melanoma

Zemin Zhang (Peking U), Cross-tissue Multicellular Coordination and Its Rewiring in Cancer

Contributed talks

Adam Beitz (MIT), Cells Transit Through a Quiescent-like State to Convert to Neurons at High Rates

Kai Hao (UCLA), Genetic Recording and In Situ Readout of Single Cell Signaling Histories

Jack Leary (UF), Identifying Variable Genes in Single Cell and Spatial Transcriptomics Data via Bayesian Inference

Rong Lu (USC), Intrinsic and Extrinsic Mechanisms Regulating Heterogeneous Hematopoietic Stem Cell Fate

Aaron Meyer (UCLA), Generating Predictive Models of Patient-level Phenotypes from Scrna-seq With Unaligned Low-rank Tensor Regression with Attention (Ultra)

Lingxia Qiao (UCSD), Logic-based Ode Modeling of Integrated Signaling and Gene Regulation Networks

Joseph Rufo (UCSB), Mapping the Morphospace of Human Gastrulation: An Integrated Framework for Identifying Developmental Constraints and Understanding Cell Fate Decisions

Manu Setty (Fred Hutch), Desynchronization Between Gene Expression and Chromatin States Reveals Mechanisms Driving Cell State Change (Fred Hutch)

Xiaoqiang Sun (Sun Yat-Sen), Multilayer Reconstruction and Multiscale Modeling of Tumor-microenvironment Interaction Networks

Yodai Takei (Caltech), Spatial Multi-omics Captures Gene Expression and Nuclear Architecture in Single Cells

Yaqi Wu (GWU), Supervised Gromov Wasserstein Optimal Transport with Its Application in Single Cell Biology

Keynote Speakers

Lacramioara Bintu

Stanford University

Raphaël Gottardo

Lausanne University

Christina Kendziorski

University of Wisconsin—Madison

Arjun Raj

University of Pennsylvania

Zemin Zhang

Peking University

Organizing Committee

Travel

John Wayne Airport (SNA)
John Wayne Airport is located just 4 miles from UC Irvine. Most major carriers service this airport.
 
Long Beach Airport (LGB)
Long Beach Regional Airport is located approximately 25 miles from UC Irvine. Jet Blue Airlines and Southwest Airlines are the primary carriers who service LGB.
 
Los Angeles International Airport (LAX)
Los Angeles International Airport is So. California’s major hub which serves as the international airport of choice. LAX is located approx. 40 miles from UC Irvine. All major carriers service this airport.
 
Accommodations

Ayres Hotel and Suites – Costa Mesa/Newport Beach

325 Bristol, Costa Mesa, CA 92626

Rates starting at $134 for Deluxe Guestroom (single/double occupancy). Higher rates over the summer may apply. Reservations can be made online.

  • Complimentary wireless Internet access in guestroom & public areas
  • Complimentary self-parking
  • Complimentary shuttle to/from John Wayne Airport and UCI (subject to availability)

Sonesta Irvine

17941 Von Karman Ave, Irvine, CA 92614

Rates starting at $175. Use Corporate/Promo code: UC8

Rate includes the following:

  • Complimentary daily breakfast for one per day (valid only on Monday-Friday mornings)
  • Complimentary shuttle to and from the John Wayne Airport
  • Complimentary shuttle to and from the UCI campus (subject to availability, please contact the front desk to confirm availability).
  • Complimentary wireless Internet
  • Complimentary self-parking for one vehicle
  • Distance from UCI – 3 miles