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    University of the Sciences in Philadelphia
  Sep 24, 2017
2017-2018 University Catalog

Bioinformatics – Master of Science

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Bioinformatics is the study of how information is stored, transformed, and utilized by living things. It is a very broad and diverse discipline. Classically, bioinformatics has encompassed all activities having to do with the analysis of biological sequence data, including sequence assembly, and identification of genes, analysis of gene structure, prediction of expressed proteins, identification of functionally important sequences in both nucleotides and proteins. Now it has broadened to include prediction of three-dimensional structures of proteins and nucleotides, pharmacogenomics (the study of how hereditary factors influence our response to drugs), proteomics (the study of the array of proteins that are actually expressed in each cell), microarray data analysis, and the modeling of metabolic pathways. In every discipline of the life sciences, bioinformatics assumes a role of increasing importance. It is not an understatement to say that bioinformatics is what biology is evolving to become in the 21st century.

Students in the bioinformatics graduate program will:

  • Attain an understanding of the fundamentals of molecular biology, genetics, and biotechnology necessary to comprehend and critically evaluate the contemporary scientific literature for Bioinformatics and closely related disciplines.
  • Attain a solid understanding of the theoretical and computational concepts that underlie current Bioinformatics practice, especially as they concern sequence analysis, computational genomics, and data mining methods.
  • Attain proficiency in software development in a variety of computer languages important to bioinformatics and be competent in web-centered application development.
  • Be able to communicate effectively to their colleagues, both in writing and oral presentation.

The master of science in bioinformatics degree necessitates a total of 30 credit hours to complete the program’s academic requirements, although most students will complete 31–33 credits depending on their background. There are two different tracks students can specialize in, a biotechnology track or a computational track.

The requirements for the MS are designed with a balanced emphasis on both basic science (biology and biochemistry) and on computing, with special focus on the special programming skills most needed in today’s pharmaceutical and biotechnology industries. Most students acquire a basic foundation in bioinformatics by completing the two-semester senior “capstone” sequence, BI 450/BI 451, which together provide an introduction to genomics and to the development of bioinformatics software applications. (Six credits of senior-level coursework may be applied to the graduate degree.) This is followed by more advanced preparation in both biotechnology and software engineering for bioinformatics. A wide range of electives is available to round out the program, including CH 748 - Computer-Aided Drug Design and CH 863 - Special Topics in Analytical Chemistry.

A key feature of our program is a two-semester independent project, which takes the place of a traditional master’s thesis. The project is ideally completed in collaboration with an industry or academic partner of the MS bioinformatics program, providing the student with invaluable real-world experience.

Graduate Program Requirements

Biotechnology Track Required Courses

Computational Track Required Courses


ST 760 - Special Topics in Statistics  may be substituted for BI 755 - Advanced Probability for Bioinformatics  with the approval of the program director in advance.

Sample Curricula for each of the Bioinformatics Tracks

Biotechnology Track

Credits/Semester: 15–17

Credits/Semester: 15–16

Total Minimum Credits: 30

Computational Track

Total Minimum Credits: 30


Zhijun Li
BS, MS (Tsinghua University, China); PhD (Vanderbilt University)
Professor of Chemistry and Biochemistry
Director, Graduate Program in Bioinformatics
Phone: 215.596.7539
Research: Research: focuses on generation and analysis of 3D structures and proteins using computational and bioinformatics tools. His group relies on a broad range of techniques to tackle complex biological problems in multiple dimensions

Preston B. Moore
BS (Bates College); PhD (Boston University)
Professor of Chemistry
Director, West Center for Computational Chemistry and Drug Design
Phone: 215.596.7537
Research: molecular interactions within biological systems; computational chemistry; molecular dynamics simulations

Randy J. Zauhar
BS/BA (Eastern Washington University); MS, PhD (Pennsylvania State University)
Professor of Chemistry & Biochemistry
Phone: 215.596.8691
Research: development of cheminformatic algorithms for computer-aided drug design, including large-scale in silico screening of virtual chemical libraries, with applications to drug design projects involving a number of targets (ranging from antibiotics to estrogen antagonists); techniques for computing solvation effects in large macromolecules; molecular visualization

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