Download Slide 1

CMBI - Centre for Molecular and Biomolecular Informatics
•
•Dutch national centre for computational molecular sciences research
•Research groups
–Comparative Genomics & Systems Biology (Huynen)
–Bacterial Genomics (Siezen)
–Computational Drug Design (De Vlieg)
–Bioinformatics of Macromolecular Structures (Vriend)
•Training & Education
–BSc, MSc, PhD and PostDoc programmes
–International workshops
–Hotel Bioinformatica
–High school courses
•Computational facilities, databases, and software packages via (inter-)national service
platforms (NBIC, EBI, etc)
•NBIC: National BioInformatics Centre.
Bioinformatics
@CMBI
1/26
©CMBI 2011
Computational Drug Discovery (CDD) Group
•
Head: Prof. Jacob de Vlieg
•
Key
–
–
–
Research Fields
Structural bioinformatics for drug design
Bioinformatics for genomics (microarray analysis, text mining, etc)
Translational medicine informatics
Academic Research
New scientific
approaches
Training & education
CDD
Applications
Exciting real life problems
‘wet’ validation
Bridging academic research and applied genomics
Bioinformatics
@CMBI
2/26
©CMBI 2011
Bacterial Genomics Group
•
Head: Prof Roland Siezen
•
Research interest: Biological questions in the interest of Dutch Food Industry
•
How
–
–
–
•
Micro-organisms studied: Gram-positive food bacteria:
–
lactic acid bacteria (Lactococcus, Lactobacillus)
–
spoilage bacteria (Listeria, Clostridium, Bacillus cereus)
can we improve:
fermentation
safety
health
lactococcus
listeria
Bioinformatics
@CMBI
3/26
©CMBI 2011
Comparative Genomics Group
•
Head: Prof. Martijn Huynen
•
Research Focus:
– How do the proteins encoded in genomes interact with each other to produce
cells and phenotypes ?
– To predict such functional interactions between proteins as there exist e.g. in
metabolic pathways, signalling pathways or protein complexes
Which genes do two genomes share (and which genes do they not share) and can we
relate this to their phenotype?
Comparative genomics
Prediction of protein function, pathways
Bioinformatics
@CMBI
4/26
©CMBI 20101
Bioinformatics of macromolecular structures
•Head: Prof. Gert Vriend
•Research Focus: Understanding proteins (and their environment)
•Proteins are the core of life, they do all the work, and they
give you feelings, contact with the outside world, etc.
•Topics:
– Homology modeling technology and applications
– Protein engineering
– Application of bioinformatics in medical research (Hanka Venselaar)
– Structure validation and structure determination improvement
– Molecular class specific information systems (e.g. GPCRDB & NucleaRDB)
– Data mining
– WHAT IF molecular modelling and visualization software
Bioinformatics
@CMBI
5/26
©CMBI 2011
Homology Modeling
The three mutated residues are all
important for the correct
positioning of Tyrosine 111
Tyrosine 111 is important
for substrate binding
Ahmed et al.,
Mutations of LRTOMT, a fusion gene
with alternative reading frames, cause
nonsyndromic deafness in humans.
Nat Genet. 2008 Nov;40(11):1335-40.
Interested? Contact Hanka Venselaar ([email protected])
Project HOPE: Have yOur Protein Explained
Bioinformatics
@CMBI
6/26
©CMBI 2011
Human genome, great expectations
Data ≠ Knowledge, insight !!!
Bioinformatics
7/26
©CMBI 2011