In previous courses in the Specialization, we have discussed how to sequence and compare genomes. This course will cover advanced topics in finding mutations lurking within DNA and proteins. In the first half of the course, we would like to ask how an individual's genome differs from the "reference genome" of the species. Our goal is to take small fragments of DNA from the individual and "map" them to the reference genome. We will see that the combinatorial pattern matching algorithms solving this problem are elegant and extremely efficient, requiring a surprisingly small amount of runtime and memory. In the second half of the course, we will learn how to identify the function of a protein even if it has been bombarded by so many mutations compared to similar proteins with known functions that it has become barely recognizable. This is the case, for example, in HIV studies, since the virus often mutates so quickly that researchers can struggle to study it. The approach we will use is based on a powerful machine learning tool called a hidden Markov model. Finally, you will learn how to apply popular bioinformatics software tools applying hidden Markov models to compare a protein against a related family of proteins.
提供方
课程信息
100% 在线
第 6 门课程（共 7 门）
可灵活调整截止日期
初级
完成时间大约为20 小时
英语（English）
教学大纲 - 您将从这门课程中学到什么
Week 1: Introduction to Read Mapping
<p>Welcome to our class! We are glad that you decided to join us.</p><p>In this class, we will consider the following two central biological questions (the computational approaches needed to solve them are shown in parentheses):</p><ol><li>How Do We Locate Disease-Causing Mutations? (<em>Combinatorial Pattern Matching</em>)</li><li>Why Have Biologists Still Not Developed an HIV Vaccine? (<em>Hidden Markov Models</em>)</li></ol><p>As in previous courses, each of these two chapters is accompanied by a Bioinformatics Cartoon created by talented artist Randall Christopher and serving as a chapter header in the Specialization's bestselling <a href="http://bioinformaticsalgorithms.com" target="_blank">print companion</a>. You can find the first chapter's cartoon at the bottom of this message. </p><p><img src="https://stepic.org/media/attachments/lessons/292/chapter7_cropped.jpg" title="Image: https://stepic.org/media/attachments/lessons/292/chapter7_cropped.jpg" width="528"></p>
Week 2: The Burrows-Wheeler Transform
<p>Welcome to week 2 of the class!</p> <p>This week, we will introduce a paradigm called the Burrows-Wheeler transform; after seeing how it can be used in string compression, we will demonstrate that it is also the foundation of modern read-mapping algorithms.</p>
Week 3: Speeding Up Burrows-Wheeler Read Mapping
<p>Welcome to week 3 of class!</p> <p>Last week, we saw how the Burrows-Wheeler transform could be applied to multiple pattern matching. This week, we will speed up our algorithm and generalize it to the case that patterns have errors, which models the biological problem of mapping reads with errors to a reference genome.</p>
Week 4: Introduction to Hidden Markov Models
<p>Welcome to week 4 of class!</p> <p>This week, we will start examining the case of aligning sequences with many mutations -- such as related genes from different HIV strains -- and see that our problem formulation for sequence alignment is not adequate for highly diverged sequences.</p> <p>To improve our algorithms, we will introduce a machine-learning paradigm called a hidden Markov model and see how dynamic programming helps us answer questions about these models.</p>
来自发现 DNA 和蛋白质的突变（生物信息学 VI）的热门评论
One of the best specialization on Coursera. Highly recommended for anyone who wants to apply his/her programming skills to fascinating real-world problems.
Really enjoyed this course. It was great to get to build on work from previous courses.
关于 加州大学圣地亚哥分校
关于 生物信息学 专项课程
常见问题
我什么时候能够访问课程视频和作业？
注册以便获得证书后，您将有权访问所有视频、测验和编程作业（如果适用）。只有在您的班次开课之后，才可以提交和审阅同学互评作业。如果您选择在不购买的情况下浏览课程，可能无法访问某些作业。
我订阅此专项课程后会得到什么？
您注册课程后，将有权访问专项课程中的所有课程，并且会在完成课程后获得证书。您的电子课程证书将添加到您的成就页中，您可以通过该页打印您的课程证书或将其添加到您的领英档案中。如果您只想阅读和查看课程内容，可以免费旁听课程。
退款政策是如何规定的？
有助学金吗？
还有其他问题吗？请访问 学生帮助中心。
