Showing posts with label papers. Show all posts
Showing posts with label papers. Show all posts

Friday, January 17, 2014

Get it while it is still fresh! A mathematical model of stem cell-driven tumourigenesis

A couple of months ago +Jacob Scott and I (as well as +Anita Hjelmeland , +Prakash Chinaiyan and +Alexander Anderson ) got our work accepted in PLOS Computational Biology and finally it is available online here.


This is an example of a simulation where on the left you can see the different types of cells (stem in red and non stem in green and blue) as well as blood vessels; whereas on the right you can see the concentration of oxygen (from white where there is abundance to red where there is hypoxia). The work is available to anybody since it is a PLOS paper. +Jacob Scott has also produced a nice description on his blog here. So go ahead and take a look if you are interested in mathematical oncology, cancer stem cells, both or either.

Also thanks to +Alexander Anderson for this paper. This work started a few years ago when I was a postdoc at his group using a mathematical tool, the hybrid discrete-continuum cellular automaton, that I learned from him. Nonetheless he let me take responsibility for the project while at the same time contributing to it with his expertise and ideas. 

Expect to see new results from this model soon, it is difficult to stop +Jacob Scott when he has an idea and I am afraid he has quite a few involving versions of this model.

Saturday, January 20, 2007

The Darwinian perspective, the mutator phenotype and response to stress

Although today I will be writing about a paper recently published in the international journal of Epidemiology and authored by Paolo Vineis and Marianne Berwick, this is not going to be a review in the usual sense. This time I would like to write about the ideas and make no reference to the methodology.

The Vineis and Berwick emphasize the role of population dynamics on cancer progression. The usual view on cancer is that cancer cells grow at a faster rate than normal cells and that is the reason why they end up (if successful) killing the host. Growing populations can be due to this but they can also be the result of other factors (think of longer lifespan). The authors hint that the success of most cancers (with respect to taking over a tissue) lays on the fact that cancer cells have a greater proportion of replicating daughter cells. That makes sense to me. For instance, in a tumour whose cells that are capable of dividing near the tumour growth front (let's call them motile tumour cells) will have an advantage over other non motile but faster proliferating tumour cells in terms of how many of its daughter cells will be in position to proliferative (regardless to the speed at which they can divide).

The authors have also something to say about the highly controversial topic of the mutator phenotype. Quick reminder: the amount of time to pick up all the mutations necessary for a neoplastic cell to become a cancer cell is, according to some researchers, big enough as to be unlikely to happen in our life time. Thus cancer is the consequence of a single mutation that makes the cell more likely to produced mutated offspring. To prove their point they compare tumour cells to the behaviour of E.coli under stress. Under normal circumstances the mutation rate of the E.coli is low but when the going gets tough the mutation rates increases significantly. The speculation is that this is no accident but a feature of the bacterial DNA that in such a way can explore a genetic solution out of the problem. Could tumour cells be attempting something similar?

I find this hypothesis quite interesting and from my limited experience it seems quite novel. It should be interesting to do some experimental work (maybe more than theoretical) to see if there are any molecular mechanisms that might have an effect on the probability of mutation (say, the DNA repair mechanism) that could be held down when there are 'stress' signals in the environment. It could even be that the mechanism is similar to that of the E.coli although since bacteria are far simpler cells than human cells that could be unlikely (not having any experience with molecular biology should make any one be skeptic about statements like this).

Thursday, August 31, 2006

Nature papers and reviews

For those of you interested in Cancer (and I assume that if you read this blog then that is probably the case), check out Nature's special "New horizon's in cancer". Sounds interesting and hopefully it will be as good as Science's Cancer research special back in May. It looks a little bit too centered in molecular biology but that is what most of the readership of Nature would want.

The website is here: http://www.nature.com/nature/focus/cancerhorizons/index.html

For those of you without access to Nature's subscription-only website, here is a free article in the collection: http://www.nature.com/nature/journal/vaop/ncurrent/full/nature05085.html

*additionally* you might want to take a look at some article that some guys in London and I have worked on. It is not about cancer but about evolution: how evolution can bring about robustness.

The name of the paper is "The evolution of robust homeostasis and stem cell-like behaviour in artificial multicellular organisms" and you can find it here:
http://blogs.nature.com/nature/peerreview/trial/2006/08/the_evolution_of_robust_homeos.html

Take a look if you have the time and even a mild interest in computational evolution. It is also written in a very readable style (thanks to Buzz).