Automated annotation of gene expression image sequences via non-parametric factor analysis and conditional random fields

A microfluidic device and computational platform for high-throughput live imaging of gene expression

(2012) Wolfgang Busch et al.   NATURE METHODS

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

Sparse Bayesian infinite factor models

(2011) A. Bhattacharya et al.   BIOMETRIKA

Automatic Annotation of Spatial Expression Patterns via Sparse Bayesian Factor Models

(2011) Iulian Pruteanu-Malinici et al.   PLoS Computational Biology

SPEX2: automated concise extraction of spatial gene expression patterns from Fly embryo ISH images

(2010) Kriti Puniyani et al.   BIOINFORMATICS

Systematic image-driven analysis of the spatial Drosophila embryonic expression landscape

(2010) Erwin Frise et al.   Molecular Systems Biology

Visualization of image data from cells to organisms

(2010) Thomas Walter et al.   NATURE METHODS

Extraction and comparison of gene expression patterns from 2D RNA in situ hybridization images

(2009) Daniel L. Mace et al.   BIOINFORMATICS

A bag-of-words approach for Drosophila gene expression pattern annotation

(2009) Shuiwang Ji et al.   BMC BIOINFORMATICS

Introduction to the Quantitative Analysis of Two-Dimensional Fluorescence Microscopy Images for Cell-Based Screening

(2009) Vebjorn Ljosa et al.   PLoS Computational Biology

Automated annotation of Drosophila gene expression patterns using a controlled vocabulary

(2008) Shuiwang Ji et al.   BIOINFORMATICS

A Quantitative Spatiotemporal Atlas of Gene Expression in the Drosophila Blastoderm

(2008) Charless C. Fowlkes et al.   CELL