NGS workshop and conference MouseGene 2014


NGS workshop and conference MouseGene 2014:

27. – 31. 10. 2014, Nové Hrady

Speaking language: English

3 days of intensive theoretical and practical workshop focused on NGS methods and handling of NGS data

2 days of conference focused on application of NGS in conservation and evolutionary genetics and molecular ecology

The Institute of Vertebrate Biology Academy of Sciences of the Czech Republic (IVB AS CR) is organising a next generation sequencing (NGS) workshop from October 27 to 29 in Nové Hrady, CZ.

The main aim of this workshop: to present current NGS methods and their application in conservation and evolutionary genetics and molecular ecology. Workshop will be focused also on practical trainings (see program below) which aim to facilitate to use of new sequencing technologies. Lectures will be given by experts from different fields and countries so official language will be English.

Students interested in participation will be invited to shortly (5-10min) present their research or their experience with NGS during conference MouseGene 2014 which will follow NGS workshop. Each day of the workshop will be finished by informal discussion where speakers will be ready to answer all questions.


Stuart Baird, IVB AS CR, Studenec, Czech Republic 

Mark Blaxter, University of Edinburgh, Scotland

Emanuel Heitlinger, Humbold University of Berlin, Germany 

Jakub Kreisinger, Edmund Mach Foundation, Italy

Jean Francois Martin,CBGP, Montpellier, France

Libor Morkovsky, Charles University in Prague, Czech Republic

Wasimuddin,IVB AS CR, Studenec, Czech Republic

Anja Westram, University of Sheffield, United Kingdom 

Oleksiy Yanchukov, IVB AS CR, Studenec, Czech Republic


Who is eligible to apply?
The workshop is designed for Czech master students, PhD-students and post-docs currently or prospectively working on NGS analysis. A basic knowledge of UNIX would be beneficial. Unfortunately students from Prague are not allowed to apply.

Application deadline: September 14, 2014
Admission notification: September 30, 2014

Send a single .pdf file to Tato e-mailová adresa je chráněna před spamboty. Pro její zobrazení musíte mít povolen Javascript. covering the following information:

CV (maximum 2 pages)

Letter of motivation including your experience with NGS data analysis and a statement of the relevance for your research project (maximum 1 page)

Title of conference contribution with short specification of talk topic (5-10 min, presenting of own research regarding NGS or own experience with NGS, etc..)

The workshop is free of charge (including also travel expenses, accommodation and meal).

PROGRAMME (preliminary version, will be continuously actualize)

Sunday, 26. 10. 2014, arrival to Nové Hrady at 18:00, diner and welcome party (19:00-23:00)

Monday, 27. 10. 2014

9:00 - 10:30, Jean Francois Martin: Overview of current NGS methods (theoretical lecture)

10:30 - 12:00, Jean Francois Martin: Overview of current NGS methods (theoretical lecture)

13:00 - 14:30, Libor Morkovsky:  Genomes and Unix (theoretical lecture)

15:00 - 17:00, Libor Morkovsky:  Handling important NGS data formats in UNIX (practical training course)

17:30 - 19:00, Informal discussion

Tuesday, 28.10.2014

9:00 - 10:30, Emanuel Heitlinger: Bioninformatic design of DNA capture baits for population genomics (theoretical lecture)

10:30 - 12:00, Emanuel Heitlinger: Bait design - extracting and screening regions from blast searches (practical training course)

13:00 - 14:30, Jean Francois Martin: Amplicon NGS data analysis (theoretical training course)

15:00 - 16:30, Jean Francois Martin: Amplicon NGS data analysis (practical training course)

17:00 - 18:30, Wasimuddin and Jakub Kreisinger: QIIME (quantitative insights into microbial ecology) – presenting of a software package for comparison and analysis of microbial communities, primarily based on high-throughput amplicon sequencing data (mainly 16S rRNA barcoding) (theoretical training course)

18:30 - 19:00, Informal discussion

Wednesday, 29. 10. 2014

9:00 - 10:00, Stuart Baird: How to use STRUCTURE (or other population-genetic model based inference software) to treat NGS data - in particular long sequences or (equivalently) SNPs which are dense on the map, i.e. cases where loci  cannot be treated as independent (theoretical course)

10:30 - 12:00, Stuart BairdHaplotype reconstruction from NGS data (practical training course)

13:00 - 14:00, Oleksiy Yanchukov: Digital PCR to genotype the gene copy number

14:30 – 16:00, Anja Westram: Highlighting advantages/pitfalls of RADseq or RNA seq

16:30 - 18:30, Mark Blaxter: NextGen applications to non-model organisms

18:30 - 19:00, Informal discussion

Workshop will be followed by the conference „THE CENTRAL EUROPEAN MEETING ON GENES, GENE EXPRESSION, AND BEHAVIOUR”. Conference will be held in Nové Hrady from October 30 to November 1, 2014 as well. The conference is organised by the Department of Zoology, Faculty of Science, Charles University in Prague and IVB AS CR.

More information about the conference and preliminary program can be found at:

For invitation card click here.