Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury

Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury Publisher Pubmed

Heidary Z¹ ; Ghaisari J¹ ; Moein S² ; Naderi M³ ; Gheisari Y⁴

Show Affiliations

1. Department of Electrical and Computer Engineering, Isfahan University of Technology, Isfahan, 84156-83111, Iran
2. Department of Genetics and Molecular Biology, Isfahan University of Medical Sciences, Isfahan, 81746-73461, Iran
3. Liver and Pancreatobiliary Diseases Research Center, Digestive Disease Research Institute, Tehran University of Medical Sciences, Tehran, 1416753955, Iran
4. Regenerative Medicine Lab, Isfahan Kidney Diseases Research Center, Isfahan University of Medical Sciences, Isfahan, 81746-73461, Iran

Source: IEEE Transactions on Nanobioscience Published:2016

Abstract

Homing of stem cells to the sites of injury is crucial for tissue regeneration. Stromal derived factor 1 (SDF-1) is among the most important chemokines recruiting these cells. Unexpectedly, our previous experimental data on mouse models of acute kidney injury showed that SDF-1 has a declining trend following ischemic kidney insult. To describe this unforeseen observation, a stochastic Petri net model of SDF-1 regulation in the hypoxia pathway was constructed based on main related components extracted from literature. Using this strategy, predictions regarding the underlying mechanisms of SDF-1 kinetics are generated and a novel incoherent feed forward loop regulating SDF-1 expression is proposed. The computational approach suggested here can be exploited to propose novel therapies for debilitating disorders such as kidney injury. © 2015 IEEE.

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Experts (# of related papers)

Mohammad Hossein Modarressi (1)

Style	Citing Format
MLA	Heidary Z, et al.. "Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury." IEEE Transactions on Nanobioscience, vol. 15, no. 1, 2016, pp. 19-26.
APA	Heidary Z, Ghaisari J, Moein S, Naderi M, Gheisari Y (2016). Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury. IEEE Transactions on Nanobioscience, 15(1), 19-26.
Chicago	Heidary Z, Ghaisari J, Moein S, Naderi M, Gheisari Y. "Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury." IEEE Transactions on Nanobioscience 15, no. 1 (2016): 19-26.
Harvard	Heidary Z et al. (2016) 'Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury', IEEE Transactions on Nanobioscience, 15(1), pp. 19-26.
Vancouver	Heidary Z, Ghaisari J, Moein S, Naderi M, Gheisari Y. Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury. IEEE Transactions on Nanobioscience. 2016;15(1):19-26.
BibTex	@article{ author = {Heidary Z and Ghaisari J and Moein S and Naderi M and Gheisari Y}, title = {Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury}, journal = {IEEE Transactions on Nanobioscience}, volume = {15}, number = {1}, pages = {19-26}, year = {2016} }
RIS	TY - JOUR AU - Heidary Z AU - Ghaisari J AU - Moein S AU - Naderi M AU - Gheisari Y TI - Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury JO - IEEE Transactions on Nanobioscience VL - 15 IS - 1 SP - 19 EP - 26 PY - 2016 ER -

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