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Computer Science Course Information
|Course No.||BIOL 601||Sections||101|
|Title||Foundation of Computational Biology|
|Prerequisite(s)||a knowledge of basic ideas in genetics and molecular biology and an elementary knowledge of programming, data structures and algorithms is required, and some programming will be expected.|
|Instructor|| Qun Ma
|Instructor Office Hours||
|Description||This course assumes that someone coming from a background in computer science has a knowledge of basic ideas in genetics and molecular biology. We will discuss the biological and technological motivation of problems.
For those with a background in biology, an elementary knowledge of programming, data structures and algorithms is required, and some programming will be expected.
|Topics||Course Outline (15 week schedule)
1 Sequence databases
2 Mapping databases
3 Information retrieval from biodatabases
4 Genomic databases
5, 6 DNA sequence analysis: predicting functional elements
7 RNA secondary structure prediction
9 Identifying microRNAs
10 Sequence polymorphisms
11 Haplotype mapping
12, 13 Protein structure prediction
14 Protein structure and function analysis
The final will be take-home.
Two classes will be devoted to presentations of projects.
1. Andreas D. Baxevanis and B.F. Francis Ouellette, Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, Third Edition, 2005 (required)
2. Arthur Lesk, Introduction to Bioinformatics, Oxford University Press (Recommended)
|Time & Place||Tuesday 6:00 pm - 9:05 pm FAC 206|
|Other Info||Texts will be supplemented by scientific papers.
Some of the assignments will be hands on use of programming (using perl or python), use of databases and bioinformatics toolkits or tools on the web.
Grades will be based on letters: a, b, c, d, f.
Academic Honor Code
The NJIT academic honor code
(http://www.njit.edu/academics/honorcode.php)applies in full to this
class. Note in particular that copying programs, in full or in part, is
forbidden. You may discuss ideas and concepts with your fellow
students, but you may NOT copy any code.