Title Details: | |
The first "words." Analysis of the composition of biological sequences |
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Authors: |
Nikolaou, Christoforos Chouvardas, Panagiotis |
Reviewer: |
Bagkos, Panteleimon |
Description: | |
Abstract: |
This chapter focuses on the analysis of the composition of biological sequences. It focuses on the relationship between nucleic acid composition and the origin and functionality of genomic sequences. In this context, the actual biological problem that arises relates to the analysis of the guanine/cytosine content (GC content) in order to distinguish sequences of different origins in a bacterial genome as products of horizontal transfer of genomic material. In the context of this problem, the biological concepts of genomic composition and the organization of genomes of higher eukaryotic organisms into isochoric regions of constant GC content are presented in detail. The second part of the chapter examines an interesting property of all known genomes known as Chargaff's second rule of equivalence and presents genomic characteristics related to it. At the level of mathematical and computational concepts, the concepts of probability and distributions are introduced. The main methodology presented is the testing of simple statistical hypotheses using normalized distributions, which are presented after an extensive reference to the Central Limit Theorem (CLT). By the end of this chapter, you should be able to: 1. Calculate the frequencies of oligonucleotides in genomic sequences and their relative over- and under-representations. 2. Identify regions with different compositions in complete genomes. 3. Examine the extent to which one or more values from a sample differ from the whole. 4. Identify the starting point of DNA replication in bacterial genomes.
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Type: |
Chapter |
Creation Date: | 2015 |
Item Details: | |
License: |
http://creativecommons.org/licenses/by-nc-nd/3.0/gr |
Handle | http://hdl.handle.net/11419/1579 |
Bibliographic Reference: | Nikolaou, C., & Chouvardas, P. (2015). The first "words." Analysis of the composition of biological sequences [Chapter]. In Nikolaou, C., & Chouvardas, P. 2015. Computational Biology [Undergraduate textbook]. Kallipos, Open Academic Editions. https://hdl.handle.net/11419/1579 |
Language: |
Greek |
Is Part of: |
Computational Biology |
Number of pages |
33 |
Publication Origin: |
Kallipos, Open Academic Editions |