Advanced methods and algorithms for biological networks analysis

Advanced methods and algorithms for biological networks analysis

Modeling and analysis of complex biological networks presents a number of mathematical challenges. For the models to be useful from a biological standpoint, they must be systematically compared with data. Robustness is a key to biological understanding and proper feedback to guide experiments, inclu...

Deskribapen osoa

Xehetasun bibliografikoak
Egile Nagusiak:	El-Samad, H, Prajna, S, Papachristodoulou, A, Doyle, J, Khammash, M
Formatua:	Journal article
Hizkuntza:	English
Argitaratua:	2006

Antzeko izenburuak

Model validation and robust stability analysis of the bacterial heat shock response using SOSTOOLS
nork: El-Samad, H, et al.
Argitaratua: (2003)

Stochastic reachability analysis in complex biological networks
nork: El-Samad, H, et al.
Argitaratua: (2006)

Challenges at the interface of control engineering and synthetic biology
nork: Steel, H, et al.
Argitaratua: (2018)

Algorithms for discriminating between biochemical reaction network models: Towards systematic experimental design
nork: Papachristodoulou, A, et al.
Argitaratua: (2007)

Analysis of switched and hybrid systems - Beyond piecewise quadratic methods
nork: Prajna, S, et al.
Argitaratua: (2003)

Reverse engineering: the architecture of biological networks
nork: Mustafa Khammash
Argitaratua: (2008-03-01)

Robust Stability Analysis of Nonlinear Hybrid Systems.
nork: Papachristodoulou, A, et al.
Argitaratua: (2009)

Analysis of non-polynomial systems using the sum of squares decomposition
nork: Papachristodoulou, A, et al.
Argitaratua: (2005)

Tutorial on sum of squares techniques for systems analysis
nork: Papachristodoulou, A, et al.
Argitaratua: (2005)

Methodological frameworks for large-scale network analysis and design.
nork: Papachristodoulou, A, et al.
Argitaratua: (2004)

SOS for Nonlinear Delayed Models in Biology and Networking
nork: Papachristodoulou, A, et al.
Argitaratua: (2009)

Efficient, sparse biological network determination
nork: August, E, et al.
Argitaratua: (2009)

Advanced methods for gene network identification and noise decomposition from single-cell data
nork: Zhou Fang, et al.
Argitaratua: (2024-06-01)

On the construction of Lyapunov functions using the sum of squares decomposition
nork: Papachristodoulou, A, et al.
Argitaratua: (2002)

Nonlinear control synthesis by sum of squares optimization: A Lyapunov-based approach
nork: Prajna, S, et al.
Argitaratua: (2004)

Discriminating between rival biochemical network models: three approaches to optimal experiment design
nork: Mélykúti, B, et al.
Argitaratua: (2010)

Model decomposition and reduction tools for large-scale networks in systems biology.
nork: Anderson, J, et al.
Argitaratua: (2011)

Parameter estimation and model selection in computational biology.
nork: Gabriele Lillacci, et al.
Argitaratua: (2010-03-01)

On validation and invalidation of biological models
nork: Anderson, J, et al.
Argitaratua: (2009)

SOSTOOLS and its control applications
nork: Prajna, S, et al.
Argitaratua: (2005)

SOSTOOLS: Control applications and new developments
nork: Prajna, S, et al.
Argitaratua: (2004)

Introducing SOSTOOLS: A general purpose sum of squares programming solver
nork: Prajna, S, et al.
Argitaratua: (2002)

Feedback Control and Synthetic Biology: Constraints on Design
nork: Steel, H, et al.
Argitaratua: (2017)

Module-based analysis of robustness tradeoffs in the heat shock response system.
nork: Hiroyuki Kurata, et al.
Argitaratua: (2006-07-01)

Analysis of nonlinear delay differential equation models of TCP/AQM protocols using sums of squares
nork: Papachristodoulou, A, et al.
Argitaratua: (2004)

Low-burden biological feedback controllers for near-perfect adaptation
nork: Steel, H, et al.
Argitaratua: (2019)

Design constraints for biological systems that achieve adaptation and disturbance rejection
nork: Steel, H, et al.
Argitaratua: (2018)

New developments in sum of squares optimization and SOSTOOLS
nork: Prajna, S, et al.
Argitaratua: (2004)

In situ characterisation and manipulation of biological systems with Chi.Bio - Design Files
nork: Steel, H, et al.
Argitaratua: (2020)

Algorithmic construction of lyapunov functions for power system stability analysis
nork: Anghel, M, et al.
Argitaratua: (2013)

Algorithmic Construction of Lyapunov Functions for Power System Stability Analysis.
nork: Anghel, M, et al.
Argitaratua: (2013)

Stability analysis of power systems using network decomposition and local gain analysis
nork: Anghel, M, et al.
Argitaratua: (2013)

On validation and invalidation of biological models
nork: Anderson James, et al.
Argitaratua: (2009-05-01)

A structured model reduction method for large scale networks.
nork: Chu, B, et al.
Argitaratua: (2011)

Structured sum of squares for networked systems analysis.
nork: Hancock, E, et al.
Argitaratua: (2011)

A loop shaping approach for designing biological circuits.
nork: Dolan, J, et al.
Argitaratua: (2012)

Global Stability Analysis of a TCP/AQM protocol for arbitrary networks with delay
nork: Papachristodoulou, A, et al.
Argitaratua: (2004)

sbml-diff: A tool for visually comparing SBML models in synthetic biology.
nork: Scott-Brown, J, et al.
Argitaratua: (2016)

Likelihood-free nested sampling for parameter inference of biochemical reaction networks.
nork: Jan Mikelson, et al.
Argitaratua: (2020-10-01)

A Network Decomposition Approach for Efficient Sum of Squares Programming Based Analysis
nork: Anderson, J, et al.
Argitaratua: (2010)