PMID- 26671812
OWN - NLM
STAT- MEDLINE
DCOM- 20160920
LR  - 20161020
IS  - 1557-9964 (Electronic)
IS  - 1545-5963 (Linking)
VI  - 12
IP  - 6
DP  - 2015 Nov-Dec
TI  - Ribosome Flow Model on a Ring.
PG  - 1429-39
LID - 10.1109/TCBB.2015.2418782 [doi]
AB  - The asymmetric simple exclusion process (ASEP) is an important model from 
      statistical physics describing particles that hop randomly from one site to the 
      next along an ordered lattice of sites, but only if the next site is empty. ASEP 
      has been used to model and analyze numerous multiagent systems with local 
      interactions including the flow of ribosomes along the mRNA strand. In ASEP with 
      periodic boundary conditions a particle that hops from the last site returns to 
      the first one. The mean field approximation of this model is referred to as the 
      ribosome flow model on a ring (RFMR). The RFMR may be used to model both 
      synthetic and endogenous gene expression regimes. We analyze the RFMR using the 
      theory of monotone dynamical systems. We show that it admits a continuum of 
      equilibrium points and that every trajectory converges to an equilibrium point. 
      Furthermore, we show that it entrains to periodic transition rates between the 
      sites. We describe the implications of the analysis results to understanding and 
      engineering cyclic mRNA translation in-vitro and in-vivo.
FAU - Raveh, Alon
AU  - Raveh A
FAU - Zarai, Yoram
AU  - Zarai Y
FAU - Margaliot, Michael
AU  - Margaliot M
FAU - Tuller, Tamir
AU  - Tuller T
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PL  - United States
TA  - IEEE/ACM Trans Comput Biol Bioinform
JT  - IEEE/ACM transactions on computational biology and bioinformatics
JID - 101196755
SB  - IM
MH  - Computer Simulation
MH  - *Models, Chemical
MH  - *Models, Statistical
MH  - Molecular Conformation
MH  - Ribosomes/*chemistry/*ultrastructure
EDAT- 2015/12/17 06:00
MHDA- 2016/09/22 06:00
CRDT- 2015/12/17 06:00
PHST- 2015/12/17 06:00 [entrez]
PHST- 2015/12/17 06:00 [pubmed]
PHST- 2016/09/22 06:00 [medline]
AID - 10.1109/TCBB.2015.2418782 [doi]
PST - ppublish
SO  - IEEE/ACM Trans Comput Biol Bioinform. 2015 Nov-Dec;12(6):1429-39. doi: 
      10.1109/TCBB.2015.2418782.