Johannes Köster
2016
Fluorescence in-situ hybridization:
Problem:
needs 1 color per transcript
...
Problem with raw counts:
20% loss and misidentification
Known error probabilities:
1→0 error: 10%
0→1 error: 4%
Goal:
Pr(0→1) Pr(1→0)
simulated
hybridization
Published dataset:
Question:
Are expression profiles influenced by batch effects?
cell size
cell position
batch
controlled FDR at 5% with Benjamini-Yekuteli
Bayesian model for gene expression analysis on MERFISH data:
Simulation:
can correct for biases in MERFISH data
Application:
applied to characterize batch effects
Shirley Liu
Myles Brown
Bo Li
Peng Jiang
Eric Severson
By Johannes Köster