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| 10 Leidy Laboratories | |
| MW 3:30-5 | |
| BIOL 536 Syllabus + Schedule | |
| BIOL 536 Blackboard site |
This course is designed to provide a rigorous hands-on introduction to the biological side of computational biology. Classroom lectures focus on the algorithms used for solving applied problems such as the assembly of contigs from molecular sequence data, similarity searching, gene finding and annotation, multiple sequence alignments and phylogenetics. Lectures are also supplemented with demonstrations and computer laboratory assignments.
BIOL 536 is designed for computer science and engineering students who require a better grasp of molecular biology and bioinformatics and for biology students interested in becoming skilled users of molecular genetic analysis applications.
| Warren
Ewens 221 Leidy Laboratories email: wewens@sas.upenn.edu +1 215 898.7109 |
Jessica
Kissinger 212 Goddard Laboratories email: jkissing@sas.upenn.edu +1 215 898.1205 office hours: Fridays 1-2 PM |
| Elisabetta
Manduchi email: manduchi@pcbi.upenn.edu |
teaching
assistants
Li
Li
100 Goddard Laboratories
email: lili4@sas.upenn.edu
office hours: TBA
computer access
100 Goddard Laboratories is accessed via keypad combination (weekend access will require activation of your PennCard to allow entry into the Goddard Laboratories building).
Information on access and software can be found at:
Alex Reynolds is the system administrator for this lab and can be reached at bio-computing@sas.upenn.edu. However, please contact the TA, Li Li for ALL computer/software problems except account set-up and the physical functioning of the machines/printer.
textbook
The following reading is available at the University of Pennsylvania bookstore:
In the case of students with a poor biology background, and those registered for CIS 535, the book Genomes is required. Please download and read the BIOL 536 syllabus for a list of additional recommended background reading.
grading and exams
Grading is as follows:
The "Practice" assignments are designed to fill in any missing background knowledge in Molecular Biology, Taxonomy and Basic Perl programming . The goal of these assignments is for you to learn as much as possible, by any means necessary. You may work in groups, collaborate, share, teach each other etc. These exercises MUST be turned in to pass the course, but they will not be graded. They are for your benefit and are crucial for your growth as a bioinformaticist and for completing the remaining "Homework" assignments.
Homework assignments and paper summaries
are not "group" activities, however. While
I encourage you, when stuck, to discuss "issues",
"concepts" and "themes" with whomever, especially
when it concerns the location or usage of a particular piece
of software, this discussion is not to include particulars relevant
to the "intellectual" portion of the exercise. All
work is to be done independently.
lecture schedule
Please refer to the BIOL 536 PDF syllabus for more information on this course.
academic integrity
All relevant University policies regarding Academic Integrity must be followed. This includes no cheating, no plagiarism and reporting any knowledge thereof. Please consult the Student Handbook or the appropriate web-page: http://www.college.upenn.edu/responsibilities/integrity.html
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01/10/2001
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Courses
Department of Biology
School of Arts and Sciences
University of Pennsylvania
last updated September 28, 2001
