Deep Representation Learning FOR Morphological Profiling
Morphological Profiling
CellProfiler extracts ~ 100 - 1000 cell level features
We perform feature / dimensional reduction and calculate the mean for each perturbation
Example Use Case: Classifying Mechanism of ACTIONS
Deep learning can learn Meaningful Representations
Word2Vec
DCGANs
maybe for Profiles ?
+
=
Cells treated with A
Cells treated with B
Cells treated with A and B ?
or not?
Deep Profiles
Can we learn a robust representation from unlabeled data ?
1000-dim CP feature vector
https://swarbrickjones.files.wordpress.com
cropped cell images
1000-dim CP feature vector
cropped cell images
latent space
LEarning A Meaningful Latent Space
subpopulation Profiles
unsupervised clustering in latent space
(semi) supervised training using hand-labeled data
NOISY LABELS: From Cell level to whole image level
Classifying and Segmenting Microscopy Images Using Convolutional Multiple Instance Learning, Arxiv 2015, O Kraus, LJ Ba, B Frey
Unguided SUBPOPULATION DETECTION USING ATTENTION?
Spatial Transformer Networks NIPS 2015 Max Jaderberg, Karen Simonyan, Andrew Zisserman, Koray Kavukcuoglu
Learning Representations for Cell Profiling
By David Dao
