DAY 1: August 16th:

1. Course Registration
2. Organizational and practical introduction
3. Opening Overview Seminar: From genomes to cells and systems - opening overview of the course
   Peer Bork

Session 1:

Impact of Next-generation DNA sequencing on Metagenomics

Lecture 1:

Traditional and new-generation DNA sequencing technologies: high-throughput sequencing of entire and partial genomes Francesca Ciccarelli

Lecture 2
Impact of next generation sequencing on the sequencing of entire microbial communities Jeroen Raes

DAY 2: August 17th:

Lecture 3:

Analyzing populations: mutation, selection and stratification - Shamil Sunyaev

Lecture 4:

Impact of next generation sequencing on mapping genomic variation (II): Toward the generation of a global map of genomic structural variants in sequenced genomes – from bacteria to humans - Jan Korbel

1. Practical Session: Large scale data handling.
2. Poster session (with coffee/tea break)

DAY 3: August 18th:

Session 2:

“Genome and Metagenome Evolution”

Genomics focuses on different model organisms, allows us to shed light on the evolution of light-driven processes and reveals functional information by integration of data 'across species'. 

Lecture 1:

Protein domains in the pre-, post-, and meta-genomics era - Francesca Ciccarelli

Lecture 2:

Metagenome-wide co-evolution and functional linkage of genes in human gut microbial ecosystems - Yixue Li

1. Practical Session

Optional participation at symposium from 9:00AM to 5:00PM
- at the School of Life Sciences and Biotechnology of Shanghai Jiao Tong University.

DAY 5: August 20th:

Session 3:

“Protein Evolution, Orthology Concept, and Phylogenetic Trees”

The majority of basic functionality encoded in genomes is carried out by proteins. Predictions of particular features of proteins have become routine to many users but the interpretation requires a different view than provided by experimental techniques.

Lecture 1:

Phylogenetic tree reconstruction - (Roland Krause/Shamil Sunyaev)

Lecture 2:

The impact of Orthology, Paralogy and Homology assignments in Metagenomics Analysis – Roland Krause

Lecture 3 :

CVTree: Build Phylogenetic trees from whole genomes without sequence alignment – Bailin Hao

1. Practical Session: phylogenies

DAY 6: August 21st:

Session 4:

“Protein Function and Structure and Data Integration”

Lecture 1:

Using protein structures to understand protein function- Rebecca Wade

Lecture 2:

Data integration (I) – integration of external datasets with metagenomics data: focus environmental variation

data- Liping Zhao

1. Practical Session: data integration

DAY 7: August 22nd:

Session 5:

"Present and Future of Metagenomics"

Lecture 1:

The human microbiome project - Peer Bork

Lecture 2:

Data integration (II) – integration of functional associations using STRING, with a particular focus on metagenomics – Lars Juhl Jensen

1. Practical Session wrap up
2. Summary and Discussions
3. Presentation of Research results by participants
4. Concluding Remarks (Peer Bork)