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REAL-TIME TRACKING AND ANALYSIS OF
DROSOPHILA BEHAVIOR AND GENE EXPRESSION
by
Dhruv Grover
A Dissertation Presented to the
FACULTY OF THE GRADUATE SCHOOL
UNIVERSITY OF SOUTHERN CALIFORNIA
In Partial Ful llment of the
Requirements for the Degree
DOCTOR OF PHILOSOPHY
(COMPUTATIONAL BIOLOGY AND BIOINFORMATICS)
May 2009
Copyright 2009 Dhruv Grover
Object Description
| Title | Real-time tracking and analysis of Drosophila behavior and gene expression |
| Author | Grover, Dhruv |
| Author email | dhruvgro@usc.edu; dhruv.grover@gmail.com |
| Degree | Doctor of Philosophy |
| Document type | Dissertation |
| Degree program | Computational Biology & Bioinformatics |
| School | College of Letters, Arts and Sciences |
| Date defended/completed | 2009-03-24 |
| Date submitted | 2009 |
| Restricted until | Unrestricted |
| Date published | 2009-04-27 |
| Advisor (committee chair) | Tavaré, Simon |
| Advisor (committee member) |
Tower, John James, Gareth |
| Abstract | This thesis describes new methods that make it possible to screen efficiently complex behavioral phenotypes in the fruit fly, Drosophila melanogaster. The behaviors of interest include those related to higher-order processing or "choice"; (e.g. social interactions), which are difficult to screen and quantify by conventional methods. We developed an electronic "fly world"; -- a modular system of hardware and software capable of reliably tracking the motion of flies for different behavioral assays within controlled sensory environments.; We developed an approach for real time tracking of multiple flies using an array of calibrated and synchronized cameras. The system constructs 3D visual hull models of multiple flies simultaneously from detected image silhouettes. The reconstructed fly visual hulls are then used by an extended Kalman filter to generate tracks of all the flies at real time rates of 60 frames/sec. We also developed pattern classification and recognition methods to describe and classify 3D fly visual hull shapes into a set of predefined states, and recognize behaviors made up by these states. Additionally, in order to correlate specific temporal patterns of gene expression with temporal patterns of animal activity and behavior, we developed algorithms to allow tissue-specific Green Fluorescent Protein and Discosoma sp. Red Fluorescent Protein reporter expression to be quantified and correlated with 3D fly movement and behavior in real time. In addition to time series data modeling approaches, we developed methods for the analysis and comparison of movement trajectories, and for the correlation of trajectories with specific complex behaviors like courtship. |
| Keyword | behavior recognition; Drosophila activity monitoring; fluorescent reporter tracking; trajectory matching |
| Language | English |
| Part of collection | University of Southern California dissertations and theses |
| Publisher (of the original version) | University of Southern California |
| Place of publication (of the original version) | Los Angeles, California |
| Publisher (of the digital version) | University of Southern California. Libraries |
| Provenance | Electronically uploaded by the author |
| Type | texts |
| Legacy record ID | usctheses-m2122 |
| Rights | Grover, Dhruv |
| Repository name | Libraries, University of Southern California |
| Repository address | Los Angeles, California |
| Repository email | http://www.usc.edu/isd/libraries/services/ask_a_librarian/email/ |
| Filename | etd-Grover-2759 |
| Archival file | uscthesesreloadpub_Volume17/etd-Grover-2759.pdf |
Description
| Title | Page 1 |
| Full text | REAL-TIME TRACKING AND ANALYSIS OF DROSOPHILA BEHAVIOR AND GENE EXPRESSION by Dhruv Grover A Dissertation Presented to the FACULTY OF THE GRADUATE SCHOOL UNIVERSITY OF SOUTHERN CALIFORNIA In Partial Ful llment of the Requirements for the Degree DOCTOR OF PHILOSOPHY (COMPUTATIONAL BIOLOGY AND BIOINFORMATICS) May 2009 Copyright 2009 Dhruv Grover |
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