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Network analysis and hidden phenotypes in large biological datasets


Lasser,  Jana
Max Planck Research Group Physics of Biological Organization, Max Planck Institute for Dynamics and Self-Organization, Max Planck Society;

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Lasser, J. (2015). Network analysis and hidden phenotypes in large biological datasets. Master Thesis, Georg-August-Universität, Göttingen.

Cite as: https://hdl.handle.net/11858/00-001M-0000-002A-C409-0
We develop a methodology for automated extraction of network information from a
large dataset containing images of Drosophila terminal cells. The dataset contains
images of larvae grown with different mutations prohibiting the expression of one
of four genes: Rab8, Myospheroid, Crumbs and Rhea. Larvae are also distinguished
based on their genetic background and growing temperature. The dataset is composed
of over 500 images which is a novelty for this field of research. This enables
us to find statistically highly significant results. We apply a supervised learning
approach to quantify the effect on discernability of each of the three growing conditions.
Using an unsupervised learning approach we find hidden phenotypes spanning
several of the already known phenotypes induced by the larva’s genotype. We find
that most of the information contained in network growth patterns is strongly tied
to network size. By analyzing deviations from the size dependence of network realization
we establish four main growth characteristics we call phenotypic trends.
We are also able to find very simple models describing cell branching behaviour and
distributions of tube lengths and tube radii.