Advanced Bioinformatics (BIO 511)

2014 Fall
Faculty of Engineering and Natural Sciences
Mol.Bio.Genetic&Bioengin.(BIO)
3
10
Uğur Osman Sezerman ugur@sabanciuniv.edu,
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English
Doctoral, Master
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Programs\Type Required Core Elective Area Elective
Computer Science and Engineering - With Bachelor's Degree *
Computer Science and Engineering - With Master's Degree *
Computer Science and Engineering - With Thesis *
Cyber Security - With Bachelor's Degree *
Cyber Security - With Master's Degree *
Cyber Security - With Thesis *
Electronics Engineering and Computer Science - With Bachelor's Degree *
Electronics Engineering and Computer Science - With Master's Degree *
Electronics Engineering and Computer Science - With Thesis *
Electronics Engineering - With Bachelor's Degree *
Electronics Engineering - With Master's Degree *
Electronics Engineering - With Thesis *
Energy Technologies and Management-With Thesis *
Industrial Engineering - With Bachelor's Degree *
Industrial Engineering - With Master's Degree *
Industrial Engineering - With Thesis *
Leaders for Industry Biological Sciences and Bioengineering - Non Thesis *
Leaders for Industry Computer Science and Engineering - Non Thesis *
Leaders for Industry Electronics Engineering and Computer Science - Non Thesis *
Leaders for Industry Electronics Engineering - Non Thesis *
Leaders for Industry Industrial Engineering - Non Thesis *
Leaders for Industry Materials Science and Engineering - Non Thesis *
Leaders for Industry Mechatronics Engineering - Non Thesis *
Manufacturing Engineering - Non Thesis *
Manufacturing Engineering - With Bachelor's Degree *
Manufacturing Engineering - With Master's Degree *
Manufacturing Engineering - With Thesis *
Materials Science and Nano Engineering-(Pre:Materials Science and Engineering) *
Materials Science and Nano Engineering-(Pre:Materials Science and Engineering) *
Materials Science and Nano Engineering - With Thesis (Pre.Name: Materials Science and Engineering) *
Mechatronics Engineering - With Bachelor's Degree *
Mechatronics Engineering - With Master's Degree *
Mechatronics Engineering - With Thesis *
Molecular Biology, Genetics and Bioengineering (Prev. Name: Biological Sciences and Bioengineering) *
Molecular Biology, Genetics and Bioengineering-(Prev. Name: Biological Sciences and Bioengineering) *
Molecular Biology,Genetics and Bioengineering-With Thesis (Pre.Name:Biological Sciences and Bioeng.) *
Physics - Non Thesis *
Physics - With Bachelor's Degree
Physics - With Master's Degree

CONTENT

Local and global sequence alignment using dynamic programming, scoring matrices (Pam, Blossum), multiple sequence alignment algorithms, database search algorithms (Blast, Fasta), distance matrices and construction of phylogenetic trees, motif determination.

OBJECTIVE

To teach the major issues concerning the representation and analysis of genomes, sequences and proteins, to critically describe various existing methods and their strengths and limitations in bioinformatics.

LEARNING OUTCOMES

  • Upon taking this course, the students are expected to: Effectively search the biomedical literature
  • Compare various protein databases in NCBI, Swiss-Prot and PDB
  • Search for domains in a protein sequence using various tools
  • Align two protein sequences using global and local alignment algorithms with different gap penalties
  • Delineate exon/intron boundaries in a genomic region using gene finding tools
  • Construct a phylogenetic tree of related sequences
  • Construct a Receiver-Operator Characteristic Curve
  • Perform multiple sequence alignment of related sequences
  • Perform a sequence similarity search using the tools available on the web
  • Distinguish between the biological and statistical significance of patterns found in a sequence
  • Critically and constructively analyze one of the areas presented in the course