課程信息
4.5
30 個評分
5 個審閱
專項課程

第 6 門課程(共 7 門),位於

100% 在線

100% 在線

立即開始,按照自己的計劃學習。
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可靈活調整截止日期

根據您的日程表重置截止日期。
初級

初級

完成時間(小時)

完成時間大約為18 小時

建議:3 hours/week...
可選語言

英語(English)

字幕:英語(English)...
專項課程

第 6 門課程(共 7 門),位於

100% 在線

100% 在線

立即開始,按照自己的計劃學習。
可靈活調整截止日期

可靈活調整截止日期

根據您的日程表重置截止日期。
初級

初級

完成時間(小時)

完成時間大約為18 小時

建議:3 hours/week...
可選語言

英語(English)

字幕:英語(English)...

教學大綱 - 您將從這門課程中學到什麼

1
完成時間(小時)
完成時間為 4 小時

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&nbsp;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?&nbsp;(<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>...
Reading
4 個視頻(共 33 分鐘), 2 個閱讀材料, 3 個測驗
Video4 個視頻
Why Do We Map Reads? 7分鐘
Using the Trie 10分鐘
From a Trie to a Suffix Tree 11分鐘
Reading2 個閱讀材料
Course Details10分鐘
Week 1 FAQs (Optional)分鐘
Quiz1 個練習
How Do We Find Disease-Causing Mutations? (Week 1)15分鐘
2
完成時間(小時)
完成時間為 4 小時

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>...
Reading
3 個視頻(共 21 分鐘), 1 個閱讀材料, 2 個測驗
Video3 個視頻
Inverting Burrows-Wheeler 13分鐘
Using Burrows-Wheeler for Pattern Matching 2分鐘
Reading1 個閱讀材料
Week 2 FAQs (Optional)分鐘
3
完成時間(小時)
完成時間為 4 小時

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>...
Reading
4 個視頻(共 22 分鐘), 1 個閱讀材料, 3 個測驗
Video4 個視頻
Setting Up Checkpoints 8分鐘
Inexact Matching 6分鐘
Further Applications of Read Mapping 2分鐘
Reading1 個閱讀材料
Week 3 FAQs (Optional)分鐘
Quiz1 個練習
How Do We Find Disease-Causing Mutations? (Weeks 2-3)20分鐘
4
完成時間(小時)
完成時間為 1 小時

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>...
Reading
5 個視頻(共 42 分鐘), 1 個閱讀材料, 1 個測驗
Video5 個視頻
Gambling with Yakuza 12分鐘
From a Crooked Casino to a Hidden Markov Model 9分鐘
The Decoding Problem 5分鐘
The Viterbi Algorithm 7分鐘
Reading1 個閱讀材料
Note on This Week's Content10分鐘
4.5

熱門審閱

創建者 TKJun 29th 2016

One of the best specialization on Coursera. Highly recommended for anyone who wants to apply his/her programming skills to fascinating real-world problems.

創建者 DCSep 16th 2018

Really enjoyed this course. It was great to get to build on work from previous courses.

講師

Avatar

Pavel Pevzner

Professor
Department of Computer Science and Engineering
Avatar

Phillip Compeau

Visiting Researcher
Department of Computer Science & Engineering

關於 University of California 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....

關於 Bioinformatics 專項課程

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!...
Bioinformatics

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