Parameter estimation for an immortal model of colonic stem cell division using approximate Bayesian computation

Journal of Theoretical Biology
Kevin Walters

Abstract

In this paper we use approximate Bayesian computation to estimate the parameters in an immortal model of colonic stem cell division. We base the inferences on the observed DNA methylation patterns of cells sampled from the human colon. Utilising DNA methylation patterns as a form of molecular clock is an emerging area of research and has been used in several studies investigating colonic stem cell turnover. There is much debate concerning the two competing models of stem cell turnover: the symmetric (immortal) and asymmetric models. Early simulation studies concluded that the observed methylation data were not consistent with the immortal model. A later modified version of the immortal model that included preferential strand segregation was subsequently shown to be consistent with the same methylation data. Most of this earlier work assumes site independent methylation models that do not take account of the known processivity of methyltransferases whilst other work does not take into account the methylation errors that occur in differentiated cells. This paper addresses both of these issues for the immortal model and demonstrates that approximate Bayesian computation provides accurate estimates of the parameters in this neighbo...Continue Reading

References

Apr 1, 1981·Cell·M WiglerM Perucho
Jul 1, 1982·Proceedings of the National Academy of Sciences of the United States of America·R J Shmookler Reis, S Goldstein
Jun 7, 2000·The Journal of Clinical Investigation·C Booth, C S Potten
Aug 11, 2001·Science·W ReikJ Walter
Aug 23, 2001·Proceedings of the National Academy of Sciences of the United States of America·Y YatabeD Shibata
Sep 13, 2001·Proceedings of the National Academy of Sciences of the United States of America·S Ro, B Rannala
Jan 10, 2002·Genes & Development·Adrian Bird
Oct 2, 2002·Genes to Cells : Devoted to Molecular & Cellular Mechanisms·Tetsuo IidaToshiki Tsurimoto
Mar 6, 2007·PLoS Computational Biology·Pierre NicolasSimon Tavaré
Nov 29, 2007·Current Opinion in Gastroenterology·Darryl Shibata
Oct 6, 2009·Statistical Applications in Genetics and Molecular Biology·Michelle R Lacey, Melanie Ehrlich

❮ Previous
Next ❯

Citations

Oct 1, 2013·Journal of Gastroenterology·Yuki KagawaSatoshi Tsuneda
Oct 26, 2018·Nature Protocols·Areti TsigkinopoulouRainer Breitling

❮ Previous
Next ❯

Related Concepts

Related Feeds

Adult Stem Cells

Adult stem cells reside in unique niches that provide vital cues for their survival, self-renewal, and differentiation. They hold great promise for use in tissue repair and regeneration as a novel therapeutic strategies. Here is the latest research.

Apoptosis

Apoptosis is a specific process that leads to programmed cell death through the activation of an evolutionary conserved intracellular pathway leading to pathognomic cellular changes distinct from cellular necrosis