Publications [#144963] of Jarad B. Niemi
Papers Submitted
- Wang, Quanli and Niemi, Jarad and Tan, Cheemeng and You, Lingchong and West, Mike. "Image segmentation and dynamic lineage analysis in single-cell fluorescent microscopy." (2008). [html]
(last updated on 2008/04/09)Abstract:
We describe novel methods for automating key steps in analysis of single-cell, fluorescent dynamic images � segmentation and lineage reconstruction � to recognize and track individual cells over time. The automated method iteratively combines a set of novel extended morphological operators and filters for segmentation, and uses a novel neighborhood-based scoring method for frame-to-frame lineage linking. Our studies with both bacteria and human cells show the method effectively solves a number of problems with existing methods, including over/under segmentation, defining cell spatial mappings and lineage tracing through multiple mitoses. The automated method is freely available as an open-source software tool.