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"Insilicosystems towards personalized medicine and nutrition"



News

01/10/2014

Metabolic profiler for Alzheimer's disease in production. The algorithm works on patient samples based on blood, cerebrospinal fluid and urine 

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30/10/2014

Quantitative visualization for Metabolic profiller ready to be used. Calculations are ported to cloud platform for high performance computation.

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Relevant Scientific work from our scientists:

Published Articles:

  • Using Bioconductor package BiGGR for metabolic flux estimation based on gene expression changes in brain:   Anand K. Gavai , Farahaniza Supandi, Hannes Hett Ling, Paul Murrell, Jack Kelley AM & Johannes HGM van Beek (PLoS One, 2014)
  • Simulating the physiology of athletes consistently endurance sports events: modeling human energy conversion and metabolism: a case study on "Tour de France" champion Lance Armstrong  John HGM van Beek, Farahaniza Supandi,  Anand K. Gavai , Thomas W. Binsl & Hannes Hett Ling. (Journal of phil transactions (Royal Society) - 2011)
  • MADMAX 2 - Management and analysis database for multiple omics experiments  Lin K, H Kools, the Great PJ  Gavai AK , RK Basnet, Cheng F, Wu J, Wang X, Rigby A, Hooiveld GJ Bonnema G, Fisher RG, Muller MR , Kelley YES. (Journal of Integrative Bioinformatics, 2011)
  • Dessertation: Bayesian Networks for omics data analysis Wageningen University,  Anand K. Gavai (2009)
  • Constraint-based probabilistic learning or metabolic pathways from tomato volatiles  Anand K. Gavai , Yury Tikunov Remco Ursem, Arnaud Bovy, Fred Eeuwijk, Harm Nijveen, Jack Kelley AM & Peter JF Lucas (Metabolomics 2009)
  • MADMAX - Database Management and Analysis for Multi-platform microarray experiments  Anand K. Gavai , Philip de Groot, Ke Lin, Guido Hooiveld, Mark V. Boekschoten, Liu Yannan, Harm Nijveen Pieter Neerincx, Michael Mueller & Jack Kelley AM (ISMB / ECCB Conference - Vienne (Austria)) Available on: http: //madmax.bioinformatics.nl (2007)

Conference Proceedings:

        • Jan Barfoot, Emma Kemp, Kate Doherty, Clare Blackburn, Shintaro Senguko,  Anand K. Gavai , Alexander             Servellen and Anders Karlsson:  Stem Cell Research: Research and Perspectives on  the Evolving             International Landscape (Cell Press 2014).

  • Johannes van Beek, Farahaniza Supandi Thomas Binsl,  Anand Gavai , Albert de Graaf and Hannes Hett Ling (2012):  Modelling muscle energy transfer and whole body heat transport falling on a mountain time trial in the Tour de France . Basel (Switzerland), September 9-12, 2012. (Highlight Presentation).
  • Gavai AK , de Groot P, Lin K, Liu Y, Hooiveld G Kelley JAM, Mu ller M (2007)  MADMAX LIMS, Quality Control and Statistical Analysis: a showcase . NBIC BioRange Consortium Meeting. Ede (NL), March 5-6, 2008, abstract 36, p. 90.
  • Gavai AK , de Groot P, Lin K, Liu Y, Nijveen H, Hooiveld G, Müller M, Kelley JAM (2007) MADMAX - . Management and Analysis Database for MicroArray Experiments  ISMB / ECCB, Vienna (AT), July 21-25 , 2007, Abstract B31.
  • the Great PJ  Gavai A , Lin K, Liu Y, Hooiveld G Kelley JAM, Mu ller M (2006 ) NuGO human and mouse microarray support; The (statistical) analysis pipeline . Benelux bio- matics Conference 2006 (BBC 2006), Wageningen (NL), October 17-18, 2006, abstract 24, p. 46.
  • Gavai AK , de Groot P, Lin K, Liu Y, Hooiveld G, Mu ller M Kelley JAM (2006)  MAD MAX - Management and Analysis Database for MicroArray experiments . Benelux bio- matics Conference 2006 (BBC 2006), Wageningen (NL), October 17-18, 2006, abstract 25, p. 47.

 

Published Softwares:

  • Metabolic Reconstructions (Interactive Model for Human Brain Energy Metabolism) (http://www.insilicosystems.nl).
  • MADMAX: An Oracle based data mining software for microarray data (https://madmax.bioinformatics.nl) (2006-present)
  • Temporal graphical models for building networks for modeling time series -omics data (2006- present)
  • Incorporating pathway knowledge from KEGG to reconstruct metabolomics network using constraint based approach (2007-present)
  • Fishers Exact Test- Implemented in Visual Basic (2003) (http://www.gavai.nl)