Graph Algorithms in Genome Sequencing
list 3 sequencias
assignment Nível: Intermediário
chat_bubble_outline Idioma: Inglês
card_giftcard 240 pontos
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Informações principais

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timer 24 total de horas

Sobre o conteúdo

In this course, part of the Algorithms and Data Structures MicroMasters program, you will learn how graph algorithms are used in two fundamental problems in modern biology:

  • How do we sequence a genome?
  • How do we construct an evolutionary “Tree of Life?"

In the first part of the course, you will learn how genome sequencing relies on using a graph to assemble millions of tiny DNA fragments into a contiguous genome. We will then shift gears and learn how to construct an evolutionary tree of life from genome data.

  • Graph algorithms
  • Algorithms for genome assembly
  • Phylogenetics

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Pré-requisito

Basic knowledge of:

  • at least one programming language: loops, arrays, stacks, recursion.
  • mathematics: proof by induction, proof by contradiction.

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Programa de estudos

Week 1: Introduction to Genome Sequencing and Graphs
Introduction to the basics of genome sequencing, and first attempts to model this problem using graphs.

Weeks 2 and 3: Assembling Genomes from Tiny Fragments
Applying an Eulerian path approach to assemble a genome from small pieces of DNA, and adapting this theoretical solution to practical considerations.

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Instrutores

Pavel Pevzner
Ronald R. Taylor Professor of Computer Science
The University of California, San Diego

Phillip Compeau
Assistant Teaching Professor
Carnegie Mellon University

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Criador do conteúdo

The University of California, San Diego
The University of California, San Diego
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Plataforma

Edx

EdX est une plateforme d'apprentissage en ligne (dite FLOT ou MOOC). Elle héberge et met gratuitement à disposition des cours en ligne de niveau universitaire à travers le monde entier. Elle mène également des recherches sur l'apprentissage en ligne et la façon dont les utilisateurs utilisent celle-ci. Elle est à but non lucratif et la plateforme utilise un logiciel open source.

EdX a été fondée par le Massachusetts Institute of Technology et par l'université Harvard en mai 2012. En 2014, environ 50 écoles, associations et organisations internationales offrent ou projettent d'offrir des cours sur EdX. En juillet 2014, elle avait plus de 2,5 millions d'utilisateurs suivant plus de 200 cours en ligne.

Les deux universités américaines qui financent la plateforme ont investi 60 millions USD dans son développement. La plateforme France Université Numérique utilise la technologie openedX, supportée par Google.

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