Bioinformatics Center of Expertise

Bioinformatics Center of Expertise

Jelle Goeman

10 November 2009Bioinformatics Center of Expertise 2

What is Bioinformatics?

Bioinformatics:

Analyzing and connecting data from high throughput molecular

biology and imaging

Bioinformatics

Biology

Medicine ComputerScience

Statistics


High throughput

Modern technologies produce massive amounts of data


• Analyzing:

statistical and computational analysis, experimental design

• Connecting:

with databases (web), literature, making data accessible

Connecting and analyzing


Bioinformatics at the LUMC

Medical Statistics

Human Genetics

Molecular Cell Biology

Parasitology

Pathology

Medical Microbiology

… more departments expected to follow

Many departments have moved into bioinformatics

Statistical bioinformatics

Molecular Epidemiology Genetic population studies

Bioinformatics of genomics

Bioinformatics of imaging

Bioinformatics of proteomics

Virology bioinformatics

Bioinformatics of tumor genomics


The Bioinformatics Center of Expertise

Joins together all bioinformaticians of the whole LUMC to

1. Make Bioinformatics expertise available to the whole LUMC

2. Exchange knowledge and facilitate cooperation between

bioinformaticians

3. Organize courses in bioinformatics (researchers/students)

A “virtual department”


Participants of the Center of Expertise

Human Genetics• Judith Boer• Peter-Bram ‘t Hoen• Jan Bert van Klinken• Barend Mons• Marco Roos• Peter Taschner

Medical Microbiology• Sasha Gorbalenya• Igor Sidorov

Molecular Cell Biology• Raimond Ravelli• Willem Sloos• Hans Vrolijk

Medical Statistics and Bioinformatics• Stefan Böhringer• Bas Heijmans• Jeanine Houwing• Joost Kok• Bart Mertens• Kai Ye• Erik van Zwet

Pathology• Ronald van Eijk• Jan Oosting

Parasitology• Yuri van der Burgt• Magnus Palmblad

Available to be consulted in their area of expertise


How to find the expert you need?

www.lumc.nl/bioinformatics


The core

OR: contact the core of the Center to be forwarded

The core of the Center of Expertise

• Jelle Goeman

Coordinator, statistical aspects of bioinformatics

• Scott Marshall

Computer science aspects of bioinformatics

• Ramin Monajemi

Scientific programmer


Bioinformaticians

Participants

Schematic organization

Core

Users


What to expect?

Consulting: two flavors

1. Advice

• Expert opinion

• Be pointed to software, references, courses, people

2. Scientific Collaboration

• Regular advice throughout the project

• Performing analyses

What to give in return?

• Consulting is free for all LUMC researchers

• Collaborations should be rewarded with co-authorships

Model: statistical consulting


Seminar series

Integrated data analysis in Epidemiology and Bioinformatics

• Speakers from inside and outside LUMC

• Broad range of subjects; broad audience; practical perspective

• Integrated with

• Human Genetics Genomics/Bioinformatics seminars

• Genetic Epidemiology Theme Group

• Organizers:

Eline Slagboom, Judith Boer, Joost Kok, Jeanine Houwing, Jelle Goeman

• Every 2 weeks on Tuesday 15:45

• More information on www.lumc.nl/bioinformatics


Education and Teaching

• Courses for researchers

• Keep track of available courses (also elsewhere)

• Jointly teach courses

• MGC courses microarrays/nextgen sequencing (Judith Boer)

• Set up new courses if necessary

• Projects for students

• Hogeschool Bioinformatica

• Delft/LIACS Bioinformatics master

• Moscow State University (Sasha Gorbalenya)


Under development: the bioinformatics wiki

www.bioexp.org (under construction)

wiki: a web site that every LUMC researcher can read and edit

• A fountain of information on bioinformatics

• What courses to follow

• What tools to use

• A virtual coffee machine

• Meet bioinformaticians

• Discuss bioinformatics


A Bioinformatics Center of Expertise

Bioinformatics

• Much expertise available at the LUMC

• Added value in cooperation

A Center of Expertise

• Make knowledge of bioinformatics more easily available

• Help all LUMC researchers to the right expertise quickly

• Stimulate exchange between bioinformaticians

Bioinformatics Center of Expertise

Documents

Transcript of Bioinformatics Center of Expertise