Michael W. Halter, Peter Bajcsy, K. Bhadriraju, A. Plant, Joe Chalfoun

Direct imaging of individual cells in the temporal domain provides critical information about events such as gene expression in the context of cell-cell contacts, cell cycle position, migration, etc, and allows the determination of direct relationships between cell fate and multiple cellular parameters. We have demonstrated that time-lapse imaging data from individual cells can provide knowledge of stochastic fluctuations in reporter activity that lead to prediction of the time-dependent fate of cell populations. Two-dimensional microscopy imaging in time over a statistically relevant sampling of cells can generate extremely large datasets not only in terms of number of bytes but also in terms of number of pixels. The number of bytes in these large datasets poses a challenge for data transfer, while the number of pixels presents a problem for interactive viewing of local and global details in space and time. Such a large dataset is encountered when stem cell colonies are being imaged over time to track the expression of fluorescent reporters of pluripotency. We have adapted a combination of a pyramid-based visualization tools to enable visual exploration of terapixel images.


Halter, M., Bhadriraju, K., Chalfoun, J., Bajcsy, P. and Plant, A., Fall Conference entitled “Turning Images to Knowledge: Large-Scale 3D Image Annotation, Management, and Visualization”, Janelia Research Farm, October 29-31, 2012