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Articles 1 - 3 of 3
Full-Text Articles in Bioinformatics
Genome Analysis Of Multiple Mycobacteriophage, Emily Kerstiens, Kari Clase, Yi Li, Gillian Smith, Sarah Bell
Genome Analysis Of Multiple Mycobacteriophage, Emily Kerstiens, Kari Clase, Yi Li, Gillian Smith, Sarah Bell
The Summer Undergraduate Research Fellowship (SURF) Symposium
Bacteriophage are viruses that infect and kill bacteria. They can be used as treatments for antibiotic resistant bacterial infections, but more knowledge is needed about phage and how they interact with bacteria in order to develop safe and effective phage therapy treatments. This study examines the genomes of eighteen mycobacteriophage that were isolated from the environment on and surrounding Purdue University. Phage genomes were annotated using several bioinformatics software, including DNA Master, GeneMark, and PECAAN. Evidence was examined to determine the correct location within the genome and the potential function. Approximately two thousand genes were annotated in this study. A …
Graphical User Interface On Analysis Of Mechanics And Dynamics Of Biopolymers In Living Cells, Peter D. Russel, Shubham Agrawal, Taeyoon Kim, Abdel-Rahman Hassan
Graphical User Interface On Analysis Of Mechanics And Dynamics Of Biopolymers In Living Cells, Peter D. Russel, Shubham Agrawal, Taeyoon Kim, Abdel-Rahman Hassan
The Summer Undergraduate Research Fellowship (SURF) Symposium
The mechanical properties of cells depend on the qualities of filamentous-actin (f-actin for short), among other cytoskeletal polymers. The ability to quickly determine f-actin qualities in a sample will help cellular biologists with cytoskeletal protein research. The goal of this project is to create a Matlab program which would allow researchers to determine, with limited manual input, the average filament length and persistence lengths of selected filaments. Through the graphical user interface, the user loads the image stack and can optimize the tracking result by altering several expectations of the program such as the expected contrast between the filament and …
Analysis Of Mechanics And Dynamics Of Biopolymers In Living Cells, Shubham Agrawal, Peter D. Russel, Abdel-Rahman Hassan, Taeyoon Kim
Analysis Of Mechanics And Dynamics Of Biopolymers In Living Cells, Shubham Agrawal, Peter D. Russel, Abdel-Rahman Hassan, Taeyoon Kim
The Summer Undergraduate Research Fellowship (SURF) Symposium
F-actin polymers in the cytoskeleton provide mechanical strength and deformability to cells. Thus, understanding their dynamic responses to intracellular and extracellular cues is of critical importance for studying the biological and mechanical behaviors of cells. Unfortunately, to date, no computer software can provide researchers with adequate means to measure these responses since in vivo F-actin cytoskeleton is quite dynamic and complex unlike in vitro actin networks. We aim at developing a tool which would allow researchers to semi-automatically analyze time-lapse microscope images of these F-actin polymers and thus evaluate the length and stochastic dynamics of F-actins (filament elongation, shrinkage and …