News:Upcoming NGS Workshop: A Beginner's Guide to NGS Data Analysis

Question

[David Langenberger]

A Beginner's Guide to NGS Data Analysis

Quality Control, Read Mapping, Visualization and Downstream Analyses

When?

9 - 13. March 2015

Where?

Leipzig, Germany

Scope and Topics

The purpose of this workshop is to get a deeper understanding in Next-Generation Sequencing (NGS) with a special focus on bioinformatics issues. Additionally, all workshop participants should be enabled to perform important tasks of NGS data analysis tasks themselves.

The first workshop module is an introduction to data analysis using Linux, assuring that all participants are able to follow the practical parts. The second module dicusses advantages and disadvantages of current sequencing technologies and their implications on data analysis. The most important NGS file formats (fastq, sam/bam, bigWig, etc.) are introduced and one proceeds with first hands-on analyses (QC, mapping, visualization). You will learn how to read and interprete QC plots, clip adapter sequences and/or trim bad quality read ends, get bioinformatics backgrounds about the read mapping and understand its problems (dynamic programming, alignment visualization, NGS mapping heuristics, etc.), perform your own mapping statistics and visualize your data in different ways (IGV, UCSC, etc.). The last two modules adress two specific applications of NGS: RNA-seq of model organisms and RNA-seq of non-model organisms.

Workshop Structure

The 2015 workshop has been redesigned and adapted to the needs of beginners in the field of NGS bioinformatics. The workshops comprises four course modules which can be combined.

1. Linux for Bioinformatics:

   This course module is optional. It will introduce the essential tools and file formats required for NGS data analysis. It helps to overcome the first hurdles when entering this (for NGS analysis) unavoidable operating system. Every participant who has no background in Linux usage should attend this course!

   (The linux calls and commandline pipes teached here are the basis for all other courses and can not be covered again!)

2. Introduction to NGS data analysis:

   This module is mandatory. Different methods of NGS will be explained, the most important notations be given and first analyses be performed. This course covers essential knowledge for analysing data of many different NGS applications. It also assures that all participants will be on the same level of knowledge for the downstream courses.

3. RNA-seq Data Analyses: Particpants can choose up to one of the following options:

   1. RNA-Seq for model-organisms
   2. RNA-Seq for non-model organisms

   Depending on the organism you are working with, our trainers will show you what's possible with your data and how you could/should interprete the output data.

Key Dates

• Opening Date of Registration: 10 November 2014
• Closing Date of Registration: 1 March 2015
• Workshop: 9 - 13 March 2015 (8am - 5pm)

Attendance

• Location: iad Pc-Pool, Rosa-Luxemburg-Straße 23, 04103 Leipzig, Germany
• Language: English
• Available seats: 24 (first-come, first-served)

Course Prices and Program

The prices and the program can be found on our workshop website: http://www.ecseq.com/workshops/workshop_2015-01.html

Contact

ecSeq Bioinformatics
Brandvorwerkstr.43
D-04275 Leipzig
Germany
Web: http://www.ecseq.com
Email: [e-mail]

[David Langenberger]

Some updates:

1. There will be an epigenetics workshop in December 2015 (Visit http://www.ecseq.com/workshops/workshop_2015-02.html for more information)
2. There will be another RNA-Seq workshop in January or February 2016 (to get a notification once the date is fix, you can sign up for our newsletter at http://www.ecseq.com/)
3. We also offer 'On-Site Bioinformatics Courses', which might be of interest to you and/or your institute (visit http://www.ecseq.com/workshops/on-site-courses.html to get more information)

Answer 1

[David Langenberger]

UPDATE: Good news!

The ecSeq Events-Team has just decided that there will be no increase in attendance fee after 15th January 2015. All participants who already paid the increased fee, will be refunded.

Answer 2

[David Langenberger]

UPDATE: The course for next year fills up unexpectedly fast.

I just want to mention that here, since we got several emails asking if there are still some seats available. I can tell you that there are some seats available for the course above. But, if you cannot apply now and thus will be too late to catch a seat, you can try to apply for our other (2-days) course in Oxford (UK): http://lpmhealthcare.com/ngs-workshop-2015-oxford/

[marcel.sauerbier]

Hej David, is there still a chance to get into the course in Leipzig or are all spots taken now?

[David Langenberger]

Hi Marcel,

today the last seat was taken and we also have already one person on the waiting list. But there are still some payments open and based on our experience, 4-5 people from the waiting list do normally get a seat. So, if you register fast, there might be a good chance. And if not, there will be another course in fall this year. We will announce it directly after the course in March.

Answer 3

[David Langenberger]

UPDATE: We just closed the registration for the 'non-model organism' downstream module.

The application for the 'model-organism' module is still open.

Answer 4

[David Langenberger]

Early Bird Registration Deadline ending soon!

I kindly want to remind you that the period of the early bird registration for our workshop 'A Beginner's Guide to NGS Data Analysis' is ending soon. Don't miss the chance to register during the time with the most favourable conditions. After January 15th the prices will increase by 10%.