TY - JOUR
T1 - Cleavage pattern of DNA caused by endonuclease
T2 - Theoretical modeling and experimental verification
AU - Inagaki, Shio
AU - Liu, Li
AU - Takinoue, Masahiro
AU - Yoshikawa, Kenichi
N1 - Funding Information:
We acknowledge Dr. Ryushin Mizuta of the Tokyo University of Science for his helpful advice and his kind offer of Ramos cells. We are also grateful to Dr. Hirohide Saito of Kyoto University for his help. This work was supported by a Grants-in-aid for Scientific Research (Grant No. 18GS0421).
PY - 2010
Y1 - 2010
N2 - In apoptotic cells, genomic DNA molecules are fragmented into multiple fragments with lengths that are integer multiples of approximately 180-200 base pairs (bp), i.e., the size of a single nucleosome. Here we propose a simple mathematical model for interpreting this cleavage pattern of DNA. Under the condition of a purely stochastic cleavage process, we derive a time evolution of the probability distribution of the fragment length by a Poisson distribution. We examine the applicability of our model by analyzing experimental results with apoptotic cells. Our model enables us to satisfactorily interpret the experimental trends. Interestingly, this theoretical fitting of the experimental data provides kinetic information for the cleavage reaction.
AB - In apoptotic cells, genomic DNA molecules are fragmented into multiple fragments with lengths that are integer multiples of approximately 180-200 base pairs (bp), i.e., the size of a single nucleosome. Here we propose a simple mathematical model for interpreting this cleavage pattern of DNA. Under the condition of a purely stochastic cleavage process, we derive a time evolution of the probability distribution of the fragment length by a Poisson distribution. We examine the applicability of our model by analyzing experimental results with apoptotic cells. Our model enables us to satisfactorily interpret the experimental trends. Interestingly, this theoretical fitting of the experimental data provides kinetic information for the cleavage reaction.
UR - http://www.scopus.com/inward/record.url?scp=76749149184&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=76749149184&partnerID=8YFLogxK
U2 - 10.1063/1.3304790
DO - 10.1063/1.3304790
M3 - Article
AN - SCOPUS:76749149184
SN - 0003-6951
VL - 96
JO - Applied Physics Letters
JF - Applied Physics Letters
IS - 6
M1 - 063701
ER -