Spatial Gene Expression Patterns in Drosophila
summary
A reproducible pipeline decomposes spatial Drosophila embryo expression (about 1 TB, 405 genes sampled into 405 superpixels) with stability-driven non-negative matrix factorization, running on Spark and Fiji across three teams. The method repeatedly initializes NMF, measures pattern agreement, and selects a stable model that yields 21 principal patterns that map to known fate-map regions, recover canonical gap-gene repression, and guide local covariance networks; preliminary knockdown experiments show morphological effects but full perturbation validation is still in progress.
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chapters (10)
- 0:00Research background
- 1:31Project overview
- 3:29Biological context
- 6:36Spatial gene networks
- 9:14Methodological framework
- 12:10Stability and constraints
- 16:02Optimization and validation
- 22:11Gene functional analysis
- 25:03Experimental results
- 27:35Discussion and comparison
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