In this course, you will learn how to use the BaseSpace cloud platform developed by Illumina (our industry partner) to apply several standard bioinformatics software approaches to real biological data. In particular, in a series of Application Challenges will see how genome assembly can be used to track the source of a food poisoning outbreak, how RNA-Sequencing can help us analyze gene expression data on the tissue level, and compare the pros and cons of whole genome vs. whole exome sequencing for finding potentially harmful mutations in a human sample. Plus, hacker track students will have the option to build their own genome assembler and apply it to real data!
Ce cours fait partie de la Spécialisation Bioinformatique
Bioinformatics Capstone: Big Data in Biology
proposé par
Programme du cours : ce que vous apprendrez dans ce cours
Semaine
15 heures pour terminer
Week 1: Identifying the Culprit in a Food Poisoning Outbreak
This week, we will apply genome sequencing algorithms to identify the bacterium causing a deadly food poisoning outbreak.
4 lectures, 1 quiz
4 lectures
Welcome to Class!10 min
Special Thanks2 min
Introduction15 min
Databases and Tools5 min
Semaine
24 heures pour terminer
Week 2: Comparing Gene Expression in Tissue Samples with RNA-Seq
In this week's Application Challenge, we will learn how RNA-Sequencing can be applied to perform tissue-level gene expression analysis. In particular, which is more similar on a gene expression level: different tissues from the same organism, or analogous tissues from related species? This question was the subject of recent debate and a Twitter controversy -- read more to find out!
2 lectures, 1 quiz
2 lectures
Introduction15 min
Databases and Tools5 min
Semaine
35 heures pour terminer
Week 3: Weighing the Pros and Cons of Whole Genome and Whole Exome Sequencing on a Human Sample
Comparing the differences between sequencing an entire human genome and sequencing only the exome, or the DNA that is eventually translated into protein. Can we obtain a complete picture of someone's genetic disease predispositions from only the exome, or is there information lurking in introns that can provide doctors with vital information? How do we weigh the trade-offs when considering genome and exome sequencing?
4 lectures, 1 quiz
4 lectures
Introduction15 min
Databases and Tools10 min
Walkthroughs15 min
Reading: Part 3 FAQs
4.6
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Principaux examens pour Bioinformatics Capstone: Big Data in Biology
I hope that the links to access data in the peer graded assignments gets fixed soon!
Enseignants
Phillip Compeau
Visiting ResearcherDepartment of Computer Science & Engineering
Pavel Pevzner
ProfessorDepartment of Computer Science and Engineering
À propos de Université de Californie à San Diego
UC San Diego is an academic powerhouse and economic engine, recognized as one of the top 10 public universities by U.S. News and World Report. Innovation is central to who we are and what we do. Here, students learn that knowledge isn't just acquired in the classroom—life is their laboratory.
À propos du Spécialisation Bioinformatique
Join Us in a Top 50 MOOC of All Time!
How do we sequence and compare genomes? How do we identify the genetic basis for disease? How do we construct an evolutionary Tree of Life for all species on Earth?
When you complete this Specialization, you will learn how to answer many questions in modern biology that have become inseparable from the computational approaches used to solve them. You will also obtain a toolkit of existing software resources built on these computational approaches and that are used by thousands of biologists every day in one of the fastest growing fields in science.
Although this Specialization centers on computational topics, you do not need to know how to program in order to complete it. If you are interested in programming, we feature an "Honors Track" (called "hacker track" in previous runs of the course). The Honors Track allows you to implement the bioinformatics algorithms that you will encounter along the way in dozens of automatically graded coding challenges. By completing the Honors Track, you will be a bioinformatics software professional!
Learn more about the Bioinformatics Specialization (including why we are wearing these crazy outfits) by watching our introductory video.
You can purchase the Specialization's print companion, Bioinformatics Algorithms: An Active Learning Approach, from the textbook website.
Our first course, "Finding Hidden Messages in DNA", was named a top-50 MOOC of all time by Class Central!
Foire Aux Questions
Quand aurai-je accès aux vidéos de cours et aux devoirs ?
Une fois que vous êtes inscrit(e) pour un Certificat, vous pouvez accéder à toutes les vidéos de cours, et à tous les quiz et exercices de programmation (le cas échéant). Vous pouvez soumettre des devoirs à examiner par vos pairs et en examiner vous-même uniquement après le début de votre session. Si vous préférez explorer le cours sans l'acheter, vous ne serez peut-être pas en mesure d'accéder à certains devoirs.
À quoi ai-je droit si je m'abonne à cette Spécialisation ?
Lorsque vous vous inscrivez au cours, vous bénéficiez d'un accès à tous les cours de la Spécialisation, et vous obtenez un Certificat lorsque vous avez réussi. Votre Certificat électronique est alors ajouté à votre page Accomplissements. À partir de cette page, vous pouvez imprimer votre Certificat ou l'ajouter à votre profil LinkedIn. Si vous souhaitez seulement lire et visualiser le contenu du cours, vous pouvez accéder gratuitement au cours en tant qu'auditeur libre.
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D'autres questions ? Visitez le Centre d'Aide pour les Etudiants.