Repository

Repository is empty

Poll

No polls currently selected on this page!

Genomics and bioinformatics

Code: 128620
ECTS: 5.0
Lecturers in charge:
Take exam: Studomat
Load:

1. komponenta

Lecture typeTotal
Lectures 30
Seminar 15
* Load is given in academic hour (1 academic hour = 45 minutes)
Description:
Computational biology of genome projects: Sequencing strategies and algorithms for sequence assembly; genome annotation and gene ontology. Visualization of genome content. Hypothesis generation from genomics data.
Genome browsers. UCSC Genome Browser and Ensembl Genome Browser. Locating genes, functional elements and annotations.
Structure and composition of genomes. Genomes of Bacteria and Archaea. Genomes of eukaryotes and the C-value paradox. Human genome, genome variation and genetic diseases.
Introduction to computational methods in biology. Basic data types and algorithms (sorting, searching, string algorithms). Comparison of two or more biological sequences (dynamic programming algorithms). Phylogenetic reconstruction. Algorithms applicable to genome-wide analyses.
Detection and discovery of functional elements in genomes: Use of comparative genomics for functional element detection. Predictive models for detection of regulatory elements and modules in genomes. Fundamental principles of design and validation of predictive models in computational biology.
Gene finding: An applied introduction to machine learning methods (Hidden Markov Models, Neural Networks, Support Vector Machines)
Expression profiles and microarrays: Statistical approaches to analysis of large data sets and hypothesis generation. Rational design of microarray experiments.
Networks and systems biology: The concept of networks: grapg representation, structure and properties. Scale-free networks. Construction and analysis of interactome and transcriptional regulatory networks. Network dynamics. Metabolic networks.
A lecture (delivered by instructor) on the topic chosen by students. Final exam. Course evaluations.

Learning outcomes:
Name and describe commonly used databases in the field of bioinformatics.
Find the sequence for the protein of interest and all related information.
Find the homologues of desired protein and evaluate the reliability of the search results.
Align the sequences of homologous proteins, analyze the quality and reliability of the alignment and construct the phylogenetic tree.
Describe the next generation DNA sequencing methods, and compare them to each other and to Sanger method of DNA sequencing.
List and explain the strategies used in the sequencing and assembly of compact microbial genomes and complex eukaryotic genomes
Describe the procedures used in genome annotation.
Compare the gene expression analysis by DNA microarrays and next generation sequencing
Literature:
1. semester Not active
Izborni predmeti izvan odabranih grana - Mandatory smjer - Analytical and inorganic chemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Analytical and organic chemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Analytical and physical chemistry
Izborni predmeti biokemija - Mandatory smjer - Analytical chemistry and biochemistry
Izborni predmeti biokemija - Mandatory smjer - Biochemistry and organic chemistry
Izborni predmeti biokemija - Mandatory smjer - Biochemistry and physical chemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Inorganic and organic chemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Inorganic and physical chemistry
Izborni predmeti biokemija - Mandatory smjer - Inorganic chemistry and biochemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Physical and organic chemistry

3. semester Not active
Izborni predmeti izvan odabranih grana - Mandatory smjer - Analytical and inorganic chemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Analytical and organic chemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Analytical and physical chemistry
Izborni predmeti biokemija - Mandatory smjer - Analytical chemistry and biochemistry
Izborni predmeti biokemija - Mandatory smjer - Biochemistry and organic chemistry
Izborni predmeti biokemija - Mandatory smjer - Biochemistry and physical chemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Inorganic and organic chemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Inorganic and physical chemistry
Izborni predmeti biokemija - Mandatory smjer - Inorganic chemistry and biochemistry
Izborni predmeti izvan odabranih grana - Mandatory smjer - Physical and organic chemistry
Consultations schedule: