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Introduction Methods Contributions Discussion Global genome alignment Raluca Uricaru LIRMM, MAB team 18 mai 2009 1 / 41 Global genome alignment

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  • introduction methods

  • henri vial

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  • phd subject


Publié le : vendredi 1 mai 2009
Lecture(s) : 23
Source : lirmm.fr
Nombre de pages : 43
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Introduction
Methods
Contributions
Global genome alignment
Raluca Uricaru
LIRMM, MAB team
18 mai 2009
Discussion
Global genome alignment
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Introduction
1
2
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Introduction
Methods
Methods
Contributions
Discussion
Contributions
Summary
Discussion
Global genome alignment
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3rdyear PHD student in computer science Méthodes etAlgorithmes pour laBioinformatique (MAB) team, LIRMM, Montpellier
supervisors : ERICRIVALS & HENRIVIAL
main research field :oinformaticsib
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About me
Global genome alignment
for further details on my research interests see : www.lirmm.fr/˜uricaru/
PHD subject :Algorithms for the comparison of complete genomes
ItntcoiorudsscunioontiissDtnoCubirteMnsdoh
Introduction
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2
3
4
Introduction
Methods
Methods
Contributions
Discussion
Contributions
Summary
Discussion
Global genome alignment
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Introduction
Methods
The
molecular
Contributions
machine
[U.S. National
Library
of
Discussion
Medicine]
Global genome alignment
5
/
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Introduction
DNA
molecules
Methods
Contributions
Chromosome structure
are packaged into structures called
chromosomes.
Discussion
Global genome alignment
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Introduction
Methods Contributions
DNA structure
Discussion
The information in DNA is stored as a codeamade up of 4 chemical bases : ADENINEA,THYMINET,ENAUINGG,NESITOCYCNUCLEOTIDES
a
DNA sequence
Global genome alignment
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htdoCsnortbituoinsDiscussionodtrInMeontiuc
a
A short DNA sequenceamight look like this :
Global genome alignment
Genome sequencing
the order of As, Cs, Gs, and Ts that make up an organism’s DNA
i.e.figuring out the sequence of DNA bases in the genomea.
translated from life’s chemical alphabet into our alphabet of letters
a
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htdoCsnortbituoiIntroductionMeDinsussconsi14/9
Genome sizeavaries widely between species.
Organism type Organism Genome size VirusBacteriophage MS23,569 BacteriaEscherichia coli4,600,000 PlantFritillaria assyrica130,000,000,000 MammalHomo sapiens3,200,000,000
a
i.e.the completeDNA sequenceon a full set of chromosomes.
Global genome alignment
Genome of an organism
the number of nucleotides/chemical bases
Introduction
Global
Methods
Genome
Contributions
Sequence
Alignment
Discussion
(GA)
[Martin C. Frith]
Global genome alignment
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Introduction
Methods
Contributions
Two Kinds of Sequence Alignment
Local alignment i.e.find and align similar sub-sequences
Global alignment i.e.align the whole sequences
Discussion
Global genome alignment
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