5 papers
MultiPASE: Shape-Aware Comparative 3D Genome Analysis
N. Nipu, G. Johnson, C. Roth +4
3D genome structures reconstructed from Hi-C data provide valuable insights into chromatin organization, but comparing them across conditions and time points remains challenging be…
Loom: Multi-Region Analysis of Spatial Transcriptomics with Local Neighborhoods and Global Trajectories
Siyuan Zhao, Nafiul Nipu, Hossein Fathollahian +4
We present Loom, a spatial transcriptomics (ST) visual computing system to support the analysis of pseudo-temporal trajectories, comparative investigation across samples and region…
Attention-based ROI Discovery in 3D Tissue Images
Hossein Fathollahian, Siyuan Zhao, Nafiul Nipu +1
High-dimensional tissue imaging generates highly complex 3D data containing multiple biomarkers, making it challenging to identify biologically relevant regions without an expert u…
Visual Analysis and Detection of Contrails in Aircraft Engine Simulations
Nafiul Nipu, Carla Floricel, Negar Naghashzadeh +2
Contrails are condensation trails generated from emitted particles by aircraft engines, which perturb Earth's radiation budget. Simulation modeling is used to interpret the formati…
THALIS: Human-Machine Analysis of Longitudinal Symptoms in Cancer Therapy
Carla Floricel, Nafiul Nipu, Mikayla Biggs +6
Although cancer patients survive years after oncologic therapy, they are plagued with long-lasting or permanent residual symptoms, whose severity, rate of development, and resoluti…