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BIOL 5005.007 MATH 6710.001 CSCE 5933.002 A course on biological sequences & their analysis
Instructor: Rajeev Azad (Rajeev.Azad@unt.edu) Tuesday & Thursday 11:00 AM 12:20 PM at GAB 461 Office hours: 12:30 2:00 PM Tuesday & Thursday (GAB 434) or by appointment
Biology
Swapan Bhuiyan Mehul Jani Khem Lal Kadel Huaiying Lin Charles Immanual Rinerson Deena Lynn Rinerson Garima Girish Saxena Danyang Shao Lei Wang Abdelrahman Obaid
CSE
Prudhvi Venkata Sai Velupucharla
Course objectives
To help you understand interdisciplinary approaches to solving problems in biology To help you understand the essence of computational and mathematical methods in biology and medicine To familiarize you with principles and models underlying standard bioinformatics methods/algorithms To help you get practical experience of using bioinformatics tools for sequence analysis
Recommended Textbooks
Bioinformatics and Functional Genomics Author: Jonathan Pevsner Publisher: Wiley-Blackwell Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids Authors: Richard Durbin, Sean Eddy, Anders Krogh, Graeme Mitchison Publisher: Cambridge University Press Statistical Methods in Bioinformatics Authors: Warren Ewens, Gregory Grant Publisher: Springer
Grading
25% 10% 35% 30% class participation (15% attendance, 10% discussions) in-class presentation homework assignments final project (25% work + written report +peer review, 5% presentation)
J. Pevesner, www.bioinfbook.org
www.bioinfbook.org
DNA
RNA
protein
phenotype
www.bioinfbook.org
DNA molecule
DNA
RNA
protein
genome
transcriptome
proteome
www.bioinfbook.org
DNA
RNA
protein
phenotype
www.bioinfbook.org
Proteomics
Sequences (Protein) and structures Mass spectrometry, X-ray crystallography Databanks, knowledge bases, visualization Metabolites and interacting systems (interactomics) Graphs, visualization, modeling, networks of entities
Joyce Mitchell, http://uuhsc.utah.edu/medinfo
http://genomesonline.org/
3 billion bases
Brian Rybarczyk, UNC
30,000 genes
http://www.genome.gov/
birg.cs.wright.edu/text/Ch2.ppt
Time of development