序列比较

gap open罚分小gap extend罚分大，gap分散出现，因为gap extend的代价更大

gap open罚分大gap extend罚分小，gap出现集中，因为gap open的代价更大

第三章：序列比较（第一部分）
课时
3.1 认识序列
3.2 序列相似性
3.3 替换记分矩阵
3.4 序列两两比较：打点法
3.5 序列两两比较：序列比对法
3.6 一致度和相似度
05
第三章：序列比较（第二部分）
课时
3.7 在线双序列比对工具
3.8 BLAST搜索
06
第三章：序列比较（第三部分）
课时
3.9 多序列比对介绍
3.10 在线多序列比对工具
3.11 多序列比对的编辑和发布
3.12 寻找保守区域

1 Introduction and History of Bioinformatics

03 Bioinformatics in Mainland China

04 About This Course

01 What is Bioinformatics

02 History of Bioinformatics

1 Introduction and History of Bioinformatics

2 Sequence Alignment

05 Interview with M. S. Waterman Waterman

06 Supplement on Homology & Similarity, Similarity Matrix and Dot Matrix (English Subtitles)

03 From Global to Local

02 Global Alignment by Dynamic Programming

07 Student Presentation (English Subtitles)

04 Alignment with Affine Gap Penalty and Calculation of Time Complexity of The Needleman-Wunsch Algorithm

01 Essential Concepts

2 Sequence Alignment

3 Sequence Database Search

03 Student Presentation (English Subtitles)

02 BLAST Algorithm A Primer

01 Sequence Databases

3 Sequence Database Search

4 Markov Model

03 Predict with Hidden Markov Model

04 Student Presentation

01 From States to Markov Chain

02 Hidden Markov Model

4 Markov Model

5 Next Generation Sequencing (NGS) Mapping of Reads From Resequencing and Calling of Genetic Variants

08 Student presentation (English Subtitles)

03 Computer Lab Reads mapping and variant calling (English Subtitles)

07 A quick tour to sequencer 2 - 3730 Sanger sequencing (English Subtitles)

06 A quick tour to sequencer 1 - Ion Torrent PGM (English Subtitles)

05 Supplement on genotyping (English Subtitles)

02 Reads Mapping and Variants Calling

01 From Sequencing to NGS

04 Supplement on reads mapping and variant calling (English Subtitles)

5 Next Generation Sequencing (NGS) Mapping of Reads From Resequencing and Calling of Genetic Variants

6 Functional Prediction of Genetic Variants

02 Variant Databases

04 Classifier-Based Methods-SAPRED

01 Overview of the Problem

06 Student presentation (English Subtitles)

05 Introduction to Support Vector Machine(SVM) (English Subtitles)

03 Conservation-Based and Rule-Based Methods-SIFT & PolyPhen

6 Functional Prediction of Genetic Variants

7 Next Generation Sequencing Transcriptome Analysis, and RNA-Seq

03 Computer Lab-RNA-seq Data Analysis RNA-seq (English Subtitles)

02 RNA-Seq-Mapping & Assembling

04 Dr. Maynard Olson Talk

05 Student presentation (English Subtitles)

01 Transcriptome-An Overview

7 Next Generation Sequencing Transcriptome Analysis, and RNA-Seq

8 Prediction and Analysis of Noncoding RNA

05 A quick tour to sequencer - illumina HiSeq & MiSeq (English Subtitles)

03 Data Mining-Differential Expression and Clustering

04 Feature selection and Clustering (English Subtitles)

02 Data Mining-Identify long ncRNAs

01 From Information to Knowledge

06 Student Presentation (English Subtitles)

8 Prediction and Analysis of Noncoding RNA

9 Ontology and Identification of Molecular Pathways

05 An Application-Common Molecular Pathways Underlying Addiction

03 Annotations in Gene Ontology

01 Ontology and Gene Ontology

07 KOBAS Demo (English Subtitles)

08 Student presentation on KOBAS (English Subtitles)

04 Pathway Identification

06 Brief Introduction to Database (English Subtitles)

02 KEGG Pathway Database

9 Ontology and Identification of Molecular Pathways

10 Bioinformatics Database and Software Resources

01 Overview of Resources

04 UCSC Genome Browser

03 European Bioinformatics Institute

02 National Center for Biotechnology Information

06 CBI Resources Review (English Subtitles)

05 Individual Resources

10 Bioinformatics Database and Software Resources

11 Origination of New Genes

05 Student Presentation (English Subtitles)

03 A Human-Specific de novo Gene Associated with Addiction

01 New Gene Evolution Detected by Genomic Computation-Basic Concepts and Examples

04 Origination of de novo Genes from Noncoding RNAs

02 New Gene Evolution Detected by Genomic Computation-A Driver for Human Brain Evolution

11 Origination of New Genes

12 Evolution function analysis of DNA methyltransferase

04 Talk with Dr. Gang Pei (English Subtitles)

05 Student Presentation (English Subtitles)

03 From Dry to Wet, an Evolutionary Story Part 2

02 Project background introduction by Dr. Gang Pei

01 From Dry to Wet, an Evolutionary Story Part 1

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