Über diesen Kurs

11,653 kürzliche Aufrufe

A big welcome to “Bioinformatics: Introduction and Methods” from Peking University! In this MOOC you will become familiar with the concepts and computational methods in the exciting interdisciplinary field of bioinformatics and their applications in biology, the knowledge and skills in bioinformatics you acquired will help you in your future study and research.

Course materials are available under the CC BY-NC-SA License.

100 % online

Beginnen Sie sofort und lernen Sie in Ihrem eigenen Tempo.

Flexible Fristen

Setzen Sie Fristen gemäß Ihrem Zeitplan zurück.

Ca. 21 Stunden zum Abschließen

Englisch

Untertitel: Englisch

100 % online

Beginnen Sie sofort und lernen Sie in Ihrem eigenen Tempo.

Flexible Fristen

Setzen Sie Fristen gemäß Ihrem Zeitplan zurück.

Ca. 21 Stunden zum Abschließen

Englisch

Untertitel: Englisch

Lehrplan - Was Sie in diesem Kurs lernen werden

Woche

1

2 Stunden zum Abschließen

Introduction and History of Bioinformatics

Welcome to “Bioinformatics: Introduction and Methods! Upon completion of this module you will be able to: become familiar with the essential concepts of bioinformatics; explore the history of this young area; experience how rapidly bioinformatics is growing. Our supplementary materials will give you a better understanding of the course lectures through they are not required in quizzes or exams

4 Videos (Gesamt 69 min), 2 Lektüren, 1 Quiz

4 Videos

What is Bioinformatics19m

History of Bioinformatics30m

Bioinformatics in Mainland China8m

About This Course9m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Introduction and History of Bioinformatics20m

Woche

2

2 Stunden zum Abschließen

Sequence Alignment

Upon completion of this module, you will be able to: describe dynamic programming based sequence alignment algorithms; differentiate between the Needleman-Wunsch algorithm for global alignment and the Smith-Waterman algorithm for local alignment; examine the principles behind gap penalty and time complexity calculation which is crucial for you to apply current bioinformatic tools in your research; experience the discovery of Smith-Waterman algorithm with Dr. Michael Waterman himself.

7 Videos (Gesamt 99 min), 2 Lektüren, 1 Quiz

7 Videos

Essential Concepts13m

Global Alignment by Dynamic Programming14m

From Global to Local6m

Alignment with Affine Gap Penalty and Calculation of Time Complexity of The Needleman-Wunsch Algorithm6m

Interview with M. S. Waterman Waterman29m

Supplement on Homology & Similarity, Similarity Matrix and Dot Matrix (English Subtitles)10m

Student Presentation (English Subtitles)18m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Sequence Alignment18m

Woche

3

1 Stunde zum Abschließen

Sequence Database Search

Upon completion of this module, you will be able to: become familiar with sequence databse search and most common databases; explore the algoritm behind BLAST and the evaluation of BLAST results; ajdust BLAST parameters base on your own research project.

3 Videos (Gesamt 41 min), 2 Lektüren, 1 Quiz

3 Videos

Sequence Databases12m

BLAST Algorithm: A Primer13m

Student Presentation (English Subtitles)15m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Sequence Database Search10m

Woche

4

1 Stunde zum Abschließen

Markov Model

Upon completion of this module, you will be able to: recognize state transitions, Markov chain and Markov models; create a hidden Markov model by yourself; make predictuions in a real biological problem with hidden Markov model.

4 Videos (Gesamt 47 min), 2 Lektüren, 1 Quiz

4 Videos

From States to Markov Chain8m

Hidden Markov Model11m

Predict with Hidden Markov Model10m

Student Presentation16m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Markov Model 14m

Woche

5

2 Stunden zum Abschließen

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

Upon completion of this module, you will be able to: describe the features of NGS; associate NGS results you get with the methods for reads mapping and models for variant calling; examine pipelines in NGS data analysis; experience how real NGS data were analyzed using bioinformatic tools. This module is required before entering Module 8.

8 Videos (Gesamt 85 min), 2 Lektüren, 1 Quiz

8 Videos

From Sequencing to NGS10m

Reads Mapping and Variants Calling14m

Computer Lab: Reads mapping and variant calling (English Subtitles)7m

Supplement on reads mapping and variant calling (English Subtitles)9m

Supplement on genotyping (English Subtitles)18m

A quick tour to sequencer 1 - Ion Torrent PGM (English Subtitles)10m

A quick tour to sequencer 2 - 3730 Sanger sequencing (English Subtitles)3m

Student presentation (English Subtitles)9m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Next Generation Sequencing (NGS)10m

Woche

6

2 Stunden zum Abschließen

Functional Prediction of Genetic Variants

Upon completion of this module you will able to: describe what is variant prediction and how to carry out variant predictions; associate variant databases with your own research projects after you get a list of variants; recognize different principles behind prediction tools and know how to use tools such as SIFT, Polyphen and SAPRED according to your won scientific problem.

6 Videos (Gesamt 92 min), 2 Lektüren, 1 Quiz

6 Videos

Overview of the Problem 17m

Variant Databases 10m

Conservation-Based and Rule-Based Methods: SIFT & PolyPhen17m

Classifier-Based Methods: SAPRED13m

Introduction to Support Vector Machine(SVM) (English Subtitles)18m

Student presentation (English Subtitles)14m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Functional Prediction of Genetic Variants14m

Woche

7

2 Stunden zum Abschließen

Mid-term Exam

The description goes here

1 Quiz

1 praktische Übung

Mid-term Review1h 40m

Woche

8

2 Stunden zum Abschließen

Next Generation Sequencing: Transcriptome Analysis, and RNA-Seq

Upon completion of this module, you will be able to: describe how transcriptome data were generated; master the algorithm used in transcriptome analysis; explore how the RNA-seq data were analyzed. This module is required before entering Module 9.

5 Videos (Gesamt 67 min), 2 Lektüren, 1 Quiz

5 Videos

Transcriptome: An Overview12m

RNA-Seq: Mapping & Assembling11m

Computer Lab: RNA-seq Data Analysis RNA-seq (English Subtitles)22m

Dr. Maynard Olson Talk9m

Student presentation (English Subtitles)11m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Next Generation Sequencing: Transcriptome Analysis, and RNA-Seq16m

Woche

9

2 Stunden zum Abschließen

Prediction and Analysis of Noncoding RNA

Upon completion of this module, you will be able to: Analyze non-coding RNAs from transcriptome data; identify long noncoding RNA (lncRNA) from NGS data and predict their functions.

6 Videos (Gesamt 74 min), 2 Lektüren, 1 Quiz

6 Videos

From Information to Knowledge10m

Data Mining: Identify long ncRNAs10m

Data Mining: Differential Expression and Clustering12m

Feature selection and Clustering (English Subtitles)14m

A quick tour to sequencer - illumina HiSeq & MiSeq (English Subtitles)13m

Student Presentation (English Subtitles)10m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Prediction and Analysis of Noncoding RNA14m

Woche

10

2 Stunden zum Abschließen

Ontology and Identification of Molecular Pathways

Upon completion of this module, you will be able to: define ontology and gene ontology, explore KEGG pathway databses; examine annotations in Gene Ontology; identify pathways with KOBAS and apply the pipeline to drug addition study.

8 Videos (Gesamt 95 min), 2 Lektüren, 1 Quiz

8 Videos

Ontology and Gene Ontology20m

KEGG Pathway Database 10m

Annotations in Gene Ontology 10m

Pathway Identification 22m

An Application: Common Molecular Pathways Underlying Addiction7m

Brief Introduction to Database (English Subtitles)5m

KOBAS Demo (English Subtitles)7m

Student presentation on KOBAS (English Subtitles)9m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Ontology and Identification of Molecular Pathways12m

Woche

11

2 Stunden zum Abschließen

Bioinformatics Database and Software Resources

Upon completion of this module, you will be able to describe the most important bioinformatic resources including databases and software tools; explore both centralized resources such as NCBI, EBI, UCSC genome browser and lots of individual resources; associate all your bioinformatic problems with certain resources to refer to.

6 Videos (Gesamt 71 min), 1 Lektüre, 1 Quiz

6 Videos

Overview of Resources19m

National Center for Biotechnology Information13m

European Bioinformatics Institute 9m

UCSC Genome Browser7m

Individual Resources12m

CBI Resources Review (English Subtitles)8m

1 Lektüre

Slides10m

1 praktische Übung

Bioinformatics Database and Software Resources10m

Woche

12

2 Stunden zum Abschließen

Origination of New Genes

Upon completion of this case study module, you will be able to: experience how to apply bioinformatic data, methods and analyses to study an important problem in evolutionary biology; examine how to detect and study the origination, evolution and function of species-specific new genes; create phylogenetic trees with your own data (not required) with Dr. Manyuan Long, a world-renowned pioneer and expert on new genes from University of Chicago.

5 Videos (Gesamt 60 min), 2 Lektüren, 1 Quiz

5 Videos

New Gene Evolution Detected by Genomic Computation: Basic Concepts and Examples20m

New Gene Evolution Detected by Genomic Computation: A Driver for Human Brain Evolution7m

A Human-Specific de novo Gene Associated with Addiction8m

Origination of de novo Genes from Noncoding RNAs11m

Student Presentation (English Subtitles)12m

2 Lektüren

Readings10m

Slides10m

1 praktische Übung

Origination of New Genes10m

Woche

13

1 Stunde zum Abschließen

Evolution function analysis of DNA methyltransferase

Upon completion of this case study module, you will be able to: experience how to use bioinformatic methods to study the function and evolution of DNA methylases; share with Dr. Gang Pei, president of Tongji University and member of the Chinese Academy of Science, the experiences in scientific research and thought about MOOC.

5 Videos (Gesamt 71 min), 1 Lektüre

5 Videos

From Dry to Wet, an Evolutionary Story Part 16m

Project background introduction by Dr. Gang Pei25m

From Dry to Wet, an Evolutionary Story Part 28m

Talk with Dr. Gang Pei (English Subtitles)20m

Student Presentation (English Subtitles)10m

1 Lektüre

Slides10m

Woche

14

1 Stunde zum Abschließen

Final Exam

The description goes here

1 Quiz

1 praktische Übung

Final Exam1h 20m

Dozenten

Ge Gao 高歌, Ph.D.

Assistant Professor, Principle Investigator

Center for Bioinformatics, School of Life Science

Liping Wei 魏丽萍, Ph.D.

Professor, Director

Center for Bioinformatics, School of Life Sciences

Häufig gestellte Fragen

Wann erhalte ich Zugang zu den Vorträgen und Aufgaben?
Sobald Sie sich für ein Zertifikat angemeldet haben, haben Sie Zugriff auf alle Videos, Quizspiele und Programmieraufgaben (falls zutreffend). Aufgaben, die von anderen Kursteilnehmern bewertet werden, können erst dann eingereicht und überprüft werden, wenn Ihr Unterricht begonnen hat. Wenn Sie sich den Kurs anschauen möchten, ohne ihn zu kaufen, können Sie womöglich auf bestimmte Aufgaben nicht zugreifen.
Was bekomme ich, wenn ich das Zertifikat erwerbe?
Wenn Sie ein Zertifikat erwerben, erhalten Sie Zugriff auf alle Kursmaterialien, einschließlich bewerteter Aufgaben. Nach Abschluss des Kurses wird Ihr elektronisches Zertifikat zu Ihrer Seite „Errungenschaften“ hinzugefügt – von dort können Sie Ihr Zertifikat ausdrucken oder es zu Ihrem LinkedIn Profil hinzufügen. Wenn Sie nur lesen und den Inhalt des Kurses anzeigen möchten, können Sie kostenlos als Gast an dem Kurs teilnehmen.
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Bioinformatics: Introduction and Methods 生物信息学: 导论与方法

100 % online

Flexible Fristen

Ca. 21 Stunden zum Abschließen

Englisch

100 % online

Flexible Fristen

Ca. 21 Stunden zum Abschließen

Englisch

Lehrplan - Was Sie in diesem Kurs lernen werden

Introduction and History of Bioinformatics

Sequence Alignment

Sequence Database Search

Markov Model

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

Functional Prediction of Genetic Variants

Mid-term Exam

Next Generation Sequencing: Transcriptome Analysis, and RNA-Seq

Prediction and Analysis of Noncoding RNA

Ontology and Identification of Molecular Pathways

Bioinformatics Database and Software Resources

Origination of New Genes

Evolution function analysis of DNA methyltransferase

Final Exam

40%

25%

Top-Bewertungen von Bioinformatics: Introduction and Methods 生物信息学: 导论与方法

Dozenten

Ge Gao 高歌, Ph.D.

Liping Wei 魏丽萍, Ph.D.

Über Peking University

Häufig gestellte Fragen