Understand
Modeling includes risk-assessment models, genome-scale and whole cell models, protein structure modeling and biomolecular simulation, virtual ligand-docking screens, and dynamic modeling of specific pathways.
While each of these methods have their merits, these approaches should be combined to provide better mechanistic understanding of trends and patterns in data (called explainable AI), as well as advanced biomarker discovery. This is an exciting scientific frontier where AIMMS can be a partner with data and computer scientists.
Methods
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Bioinformatics
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Theoretical chemistry
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Systems biology
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Evolutionary biology
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Toxicology
Data stewardship, analysis and modeling
- Advanced data integration using statistical, bioinformatic, machine learning, and modeling approaches
- Knowledge database development
- Genome-scale and whole cell models
- Protein structure modeling and biomolecular simulation
- Multi-scale modeling
- Dynamic modeling of specific pathways
Bioinformatics
Even the all-powerful Pointing has no control about the blind texts it is an almost unorthographic life One day however a small line of blind text by the name of Lorem Ipsum decided to leave for the far World of Grammar. The Big Oxmox advised her not to do so, because there were thousands of bad Commas, wild Question Marks and devious Semikoli.
Theoretical chemistry
Even the all-powerful Pointing has no control about the blind texts it is an almost unorthographic life One day however a small line of blind text by the name of Lorem Ipsum decided to leave for the far World of Grammar. The Big Oxmox advised her not to do so, because there were thousands of bad Commas, wild Question Marks and devious Semikoli.
Techniques
Mass spec-based methods
We have advanced analytical methods for metabolomics, proteomics and glycomics for the analysis of human fluids, intracellular metabolites, tissues and cell culture media. We hyphen separation techniques as HPLC, CE and GC with high-end (tandem) mass spectrometry (high-resolution, ion mobility and UVPD/IRMPD). We also have MS-based imaging facilities.
Contacts: Pim Leonards, Govert Somsen, Sofia Moco
NMR and crystallography
We have 300 – 600 MHz NMR machines for compound identification and analysis of complex fluids for metabolite quantification.
For protein structure determination, the workflow includes liquid handling for sample crystallization, optimizing crystals, crystal handling including cryo-protection and storage. Diffraction analysis and data collection is done on an in-house, state of the art Bruker D8 Quest X-ray source attached to an cutting edge PhotonII detector including downstream software suits for structure determination.
Contact: Elwin Janssen (nmr.beta@vu.nl).
Techniques
Congratulations to Elisabeth Naderlinger, Lenya de Brouwer, and Olivia Klatt for winning the MIMETAS-AIMMS VU OrganoPlate® Platform Proposal Contest! 🎉 The idea for the MIMETAS-AIMMS…
When ten bright minds come together for two full days, innovation is bound to prosper! The first AIMMS hackathon revolved all around finding alternative protein…
Systems biology
Even the all-powerful Pointing has no control about the blind texts it is an almost unorthographic life One day however a small line of blind text by the name of Lorem Ipsum decided to leave for the far World of Grammar. The Big Oxmox advised her not to do so, because there were thousands of bad Commas, wild Question Marks and devious Semikoli.
Single-cell
Even the all-powerful Pointing has no control about the blind texts it is an almost unorthographic life One day however a small line of blind text by the name of Lorem Ipsum decided to leave for the far World of Grammar. The Big Oxmox advised her not to do so, because there were thousands of bad Commas, wild Question Marks and devious Semikoli.
Evolutionary biology
Even the all-powerful Pointing has no control about the blind texts it is an almost unorthographic life One day however a small line of blind text by the name of Lorem Ipsum decided to leave for the far World of Grammar. The Big Oxmox advised her not to do so, because there were thousands of bad Commas, wild Question Marks and devious Semikoli.
Toxicology
Even the all-powerful Pointing has no control about the blind texts it is an almost unorthographic life One day however a small line of blind text by the name of Lorem Ipsum decided to leave for the far World of Grammar. The Big Oxmox advised her not to do so, because there were thousands of bad Commas, wild Question Marks and devious Semikoli.
Sample projects
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