insight FOOD inside
guiding you to optimal food performance

In silico digestion modelling

In silico digestion modelling predicts the interaction of food with the body based on a large amount of information available from the physiological literature. The set of physiological  mechanisms and variations between subjects that are included in the model is constantly updated.  

The model has been applied successfully in a project to predict the effect of food structure (solid versus liquid) and gut hormone release for a dairy based food composition and the effect of protein type on amino acid absorption. 

Insight FOOD inside has user rights for application of the existing gastro-intestinal model for third parties, however because NIZO food research has the Intellectual Property of the existing model the application will be consulted with NIZO food research. Any licensing for the use of the gastro intestinal model by third parties are to be negotiated with NIZO food research. The Intellectual Property for new additions to the model or separate physiology modelling develloped by insight FOOD inside remain with insight FOOD inside. 



The existing model can be extended by adding new modules describing new aspects of the gastro-intestinal tract. Obviously, any further development of the model will be greatly supported by collaboration on these topics with experts in pharmaceutical and medical application and companies that are interested in the application for food or feed product development. I am therefore searching for collaboration with the academia and commercial companies to further develop knowledge and research tools, share insight and bring these to application through contract research.

Examples of possible developments are: 

  • put in a more detailed description of gastric acidification, 
  • include time-of day effects,
  • include the migrating motor complex, 
  • include functionalities of the large intestine such as the dynamics of the intestinal microbiota)
  • add physiological functionalities more remotely related to the gastrointestinal tract (for example the lymphatic transport of absorbed fat, liver function, glucose homeostasis and skeletal muscle protein accretion). 
  • adapt the physiological parameters towards subgroups of the population (infants, elderly, ethnic variations), diseased (obese, insulin resistance, medical situations) and animal physiology (ruminants, poultry, pig, dog), 
  • predict effects of digestion and absorption in satisfaction from food and sugar craving, 
  • modelling gastro-instestinal release and bioavailability and medical situations.
  • develop physiologically more realistic in vitro stomach and intestinal models by including feedback regulations from the in silico model  


The body is a highly functional biosystem consisting of several integrated functional units (mouth, stomach, intestine, liver, brain, etc.) which has developed to optimally select, digest, absorb and metabolize food. If we want to optimize the composition, structure and timing of meals for optimal nutritional performance regarding for example nutrient delivery, glycemic effects and hunger suppression, we need to adapt the food to the conditions exposed by the digestive system. However, the difficulty is that the digestive system adjusts its digestive settings in response to the food. For that reason, in vitro digestion setups, which are non-reactive in general, fail to mimic the actual adapting conditions in the gastrointestinal tract. To overcome this problem, a literate-based in silico model for the gastrointestinal tract been developed, which calculates the digestive processes and transport of the food through the gastrointestinal, which include the adaptations of the digestive parameters (transit times, digestive fluid secretion, pH control by acidification and bicarbonate addition) and absorption. 

The model is structured as a lineup of well-mixed compartments with different functionalities (plate, mouth, proximal stomach, etc.) representing the lumen of the gastrointestinal tract (see figure below). Each time step calculates the digestive processes within each compartment and the material transport between subsequent compartments. The small intestinal compartments are lined with compartments representing the epithelial surface that contain the receptor and absorptive cells. In between each luminal and epithelial compartment is a mucus compartment, which is programmed to behave as a selective filter, only allowing small molecular species such as small sugars, peptides, amino-acids and fatty acid bound to bile micelles to pass. Absorption is programmed to be competitive between the macronutrients and limited to a specific maximum per unit length of the small intestine in accordance to the experimental findings in pigs reported in literature. The epithelial compartments also release gut hormones (CCK, PYY, GLP-1 and GIP) in correspondence to the physiological sensitivity of the receptor I, K and L-cells and their typical distribution along the alimentary tract. The released hormones enter a simulated blood compartment, where they have a residence half time corresponding to their typical physiological values. Various settings of the model, such as the gastric tone, gastric emptying time and small intestinal transit times are adjusted by either the blood content of these hormones or their rate of release by the epithelial compartments (and a simulated neural coupling tot the target compartment). Also the release of digestive fluids (gastric acid, digestive enzymes, bile and water) are adjusted according to the detection of nutrients in the epithelial compartments (hence specific small molecular species that were able to pass the mucosal lining).    

The stomach

As an example of the type of information that has been included in the model, the stomach will be discussed. The stomach has multiple physiological functions of which the most important ones are that it prepares the food for optimal digestion by the small intestine (e.g. solid chunks are broken down into a fluidic system of sufficiently small pieces), it is acidified to low pH to reduce microbial survival, and stored and released from the stomach at a rate that does not exceed the digestive and absorptive capacities of the small intestine.   

Secretion of gastric fluids occurs mainly in the proximal region of the stomach (corpus + fundus). Gastric acid secretion is modelled according to experimental  in vivo secretion rates described in the literature, by setting a basal secretion rate and activated release is modelled to be proportional to the deviation from a target pH in the antral region (where most pH receptors reside), in such a way that these together lead to a steady state pH of 2 in the antrum. Hence, gastric acid release dynamically adapts to the deviation from steady state, and will temporarily increase when food enters the stomach, similar to in vivo experimental observations.

Because of the relative slowness of this process of pH adjustment (among other caused by the distance between pH receptors and acid secretory glands), this system can become unstable and lead to temporarily excessive acid secretion, leading to a pH in the antral region far below 1, which would be harmful for the duodenum. Likely for that reason, physiology provides a secretin-mediated brake mechanism that reacts in response to a low duodenal pH, resulting an inhibition of gastric acidification and gastric emptying. This mechanism is also been included in the model.

Exchange of material between the proximal (fundus, corpus) and distal (antrum) regions of the stomach results in a redistribution of the gastric contents, which is modelled such that the gastric handling of any floating material (fat) and solid food material (e.g. curdled milk, cheese, meat) corresponds to the in vivo behavior described in the literature.  

Based on observation from x-ray imaging movies of gastric emptying in dogs, it seems likely that the antral volume adjusts “as a balloon” to the gastric tone, which in turn is a linear function of the gastric volume, with a proportionality constant  determined by the gut hormone CCK. Gastric tone is modelled such that it describes experimental gastric tone data reported in literature. The proportionality constant between antral volume ant gastric tone is adjusted in such a way that the gastric emptying rate of low-caloric viscous fluids (fast emptying) corresponds to in vivo experimental findings, giving a roughly exponential emptying with a half-emptying time. This adjustment of the antral volume depends on the transfer rate from the proximal to the antral compartments, which results in the visosity dependence of fast gastric emptying in accordance to the literature. 

Solid material is actively transported from the antral to the proximal compartment by peristalsis at a rate that is roughly estimated from videos on this process. The model allows this solid material to be introduced in the form of solid food entering through the mouth, or be formed in the gastric compartment as a result of the interaction with gastric secretion (acid and pepsin), which is of particular relevance for modelling the effect of curdling of milk proteins.  

Retropulsion of food from the antrum to the corpus and fundus occurs during contraction of the antrum, which in the extremes can lead to a complete emptying of the distal lumen into the small intestine (fast emptying), or a complete retropulsion into the proximal compartment. The ratio between these limiting processes determines to what extent the antral content is mixed with the content retained in the proximal stomach. During this retropulsion, the content that is retropelled is subject to considerable shear, which supports the break up any solid material (“gastric grinder”). The extent to which this breakup break up occurs is dependent on the properties of the solid material, and must be estimated for example by in vitro experiments.

Sensation of gastric fullness is calculated on the basis of blood hormone levels, gastric volume and gastric tone. A gastric tone that exceeds a critical value is associated with gastric discomfort. 

Selected Publications 

Relating food emulsion structure and composition to the way it is processed in the Gastro Intestinal tract and physiological responses. What are the opportunities?
Food Biophysics 5(4) (2010) 258–283.

Specific food structures suppress appetite through reduced gastric emptying rate. 

American Journal of Physiology- Gastrointestinal and Liver Physiology,

Differences in in vitro gastric behaviour between homogenized milk and emulsions stabilised by Tween 80, whey protein, or whey protein and caseinate.

Food Hydrocolloids 25(4) (2011) 781–788