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Fast PCA for processing calcium-imaging data from the brain of Drosophila melanogaster
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Fast PCA for processing calcium-imaging data from the brain of Drosophila melanogaster
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Fast PCA for processing calcium-imaging data from the brain of Drosophila melanogaster
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Journal Article
Fast PCA for processing calcium-imaging data from the brain of Drosophila melanogaster
2012
Overview
Background
The calcium-imaging technique allows us to record movies of brain activity in the antennal lobe of the fruitfly
Drosophila melanogaster
, a brain compartment dedicated to information about odors. Signal processing, e.g. with source separation techniques, can be slow on the large movie datasets.
Method
We have developed an approximate Principal Component Analysis (PCA) for fast dimensionality reduction. The method samples relevant pixels from the movies, such that PCA can be performed on a smaller matrix. Utilising
a priori
knowledge about the nature of the data, we minimise the risk of missing important pixels.
Results
Our method allows for fast approximate computation of PCA with adaptive resolution and running time. Utilising
a priori
knowledge about the data enables us to concentrate more biological signals in a small pixel sample than a general sampling method based on vector norms.
Conclusions
Fast dimensionality reduction with approximate PCA removes a computational bottleneck and leads to running time improvements for subsequent algorithms. Once in PCA space, we can efficiently perform source separation, e.g to detect biological signals in the movies or to remove artifacts.
Publisher
BioMed Central,Springer Nature B.V,BMC
Subject
/ Animals
/ Calcium
/ Drosophila melanogaster - ultrastructure
/ Image Processing, Computer-Assisted
/ Information Systems and Communication Service
/ Management of Computing and Information Systems
/ Medicine
/ Odors
/ Olfactory Receptor Neurons - diagnostic imaging
/ Pattern Recognition, Automated
/ Principal Component Analysis
/ Principal components analysis
/ Staining and Labeling - methods
/ Studies
