Description

Understanding how the genome is organized within the nucleus and how this organization relates to biological function remains a central challenge in modern genomics. Advances in high-throughput technologies, including chromosome conformation capture (Hi-C), chromatin accessibility assays (ATAC-seq, DNase-seq), and transcriptomics (RNA-seq), have enabled unprecedented insights into genome structure and activity across diverse cellular contexts. In parallel, recent advances in computational methods and artificial intelligence have significantly enhanced our ability to model, analyze, and interpret these complex and high-dimensional datasets.

Despite these advances, key questions remain regarding how to integrate these heterogeneous data sources, reconstruct genome organization across scales, and connect structural features to gene regulation and cellular behavior. Computational and AI-driven approaches play a critical role in addressing these challenges by enabling modeling, reconstruction, and interpretation of complex genomic systems.

This workshop aims to bring together researchers developing and applying computational, statistical, and AI-based methods to study genome organization and function. It will highlight recent advances in genome structure reconstruction, multi-omics integration, and single-cell analysis, while fostering discussions on emerging challenges and future directions in the field.

Topics of Interest

We invite investigators to submit original research articles focused on the design, application, and evaluation of computational and AI-driven methods for analyzing genome organization and function, including single-cell and spatial omics data. Contributions introducing novel algorithms, integrative frameworks, benchmarking studies, and innovative computational approaches are especially encouraged. Topics include, but are not limited to, the following:

A. Genome Organization and Structure

• Chromosome conformation capture (Hi-C) data analysis

• Genome structure reconstruction (bulk and single-cell)

• Hi-C data enhancement and resolution improvement

• Chromatin loops, TADs, chromatin jets, and higher-order genome organization

• Structural variation and genome folding dynamics

B. Multi-Omics Integration

• Integration of RNA-seq, ATAC-seq, DNase-seq, and Hi-C

• Single-cell and multiome data analysis

• Spatial transcriptomics and chromatin accessibility

• Linking genome structure to gene expression

C. Computational and Statistical Methods

• Graph-based and network-based models for genomics

• Machine learning and data-driven modeling approaches

• Statistical inference for high-dimensional genomic data

• Super-resolution and enhancement methods for genomic data

• Data integration and representation learning

D. Emerging Directions

• Cross-cell-type and cross-condition generalization

• Comparative genomics and pangenome analysis

• Functional interpretation of genome organization

• Benchmarking and evaluation of computational methods

• Foundation models for predicting genome organization and regulatory function from sequence

• Temporal dynamics of genome organization across development and conditions

• Variant effect prediction in the context of 3D genome organization

Workshop Style

Fully Onsite

Important Dates

• Sept. 27, 2026 – Due date for workshop paper submissions

• Oct. 18, 2026 – Notification of paper acceptance to authors

• Nov. 8, 2026 – Camera-ready deadline for accepted papers

• Dec. 1–4, 2026 – Workshop dates (IEEE BIBM 2026)

Program Chair

Oluwatosin Oluwadare, PhD, Department of Computer Science and Engineering, University of North Texas

Program Committee Members

• Jianlin Cheng, PhD, Department of Electrical Engineering and Computer Science, University of Missouri, Columbia

• Jianrong Wang, PhD, Department of Computational Mathematics, Science and Engineering, Michigan State University

• Minji Kim, PhD, Gilbert S. Omenn Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor

• Ming Hu, PhD, Department of Quantitative Health Sciences, Lerner Research Institute, Cleveland Clinic Foundation

• Zheng Wang, PhD, Department of Computer Science, University of Miami

• Wenxiu Ma, PhD, Department of Statistics, University of California, Riverside

Keynote Speaker

William Stafford Noble, Ph.D.

Department of Genome Sciences; Department of Computer Science and Engineering
University of Washington, Seattle, United States

Workshop  Submission Requirement

Please submit a full-length paper (up to 8 page IEEE 2-column format) through the online submission system (you can download the format instruction here: http://www.ieee.org/conferences_events/conferences/publishing/templates.html). The paper submission is double blind. Please don’t include any authors and/or affiliations in the paper.

Electronic submissions (in PDF or Postscript format) are required. Selected participants will be asked to submit their revised papers in a format to be specified at the time of acceptance.

Online Submission: Submit Here

Registration

At least one author of an accepted paper must register as a full registration for the paper to be included in the conference proceedings.