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Network inference using steady-state data and Goldbeter-Koshland kinetics
Published on Oct 23, 20123043 Views
**Motivation:** Network inference approaches are widely used to shed light on regulatory interplay between molecular players such as genes and proteins. Biochemical processes underlying networks of
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Chapter list
Network Inference Using Steady-State Data and Goldbeter-Koshland Kinetics00:00
Outline (1)01:05
Outline (2)01:30
Outline (3)01:37
Outline (4)01:48
Outline (5)01:59
Problems with the linear model (1)02:01
Problems with the linear model (2)02:02
Problems with the linear model (3)02:03
Problems with the linear model (4)02:03
Problems with the linear model (5)02:04
Problems with the linear model (6)02:04
Problems with the linear model (7)02:32
Problems with the linear model (8)02:34
Problems with the linear model (9)02:38
Problems with the linear model (10)02:42
Example (1)03:22
Example (2)04:05
Example (3)04:07
Example (4)04:13
Example (5)04:15
Example (6)04:25
Example (7)04:27
Example (8)04:38
Example: Symmetry of the linear equivalence04:52
Example: Nonlinearity aids causal inference05:36
A bit more generally (1)06:26
A bit more generally (2)06:28
A bit more generally (3)07:24
A bit more generally (4)07:25
Any nonlinearity will do... (1)07:48
Any nonlinearity will do... (2)08:04
Any nonlinearity will do... (3)08:47
Problems with steady-state data (1)09:15
Problems with steady-state data (2)09:33
Problems with steady-state data (3)09:44
Faithfulness at equilibrium (1)10:31
Faithfulness at equilibrium (2)10:34
Faithfulness at equilibrium (3)10:41
Faithfulness at equilibrium (4)12:12
Example: Faithfulness at equilibrium (1)12:14
Example: Faithfulness at equilibrium (2)12:48
A model for protein phosphorylation (1)13:37
A model for protein phosphorylation (2)14:36
A model for protein phosphorylation (3)15:01
A model for protein phosphorylation (4)15:04
Inference by MCMC sampling (1)15:37
Inference by MCMC sampling (2)17:12
Inference by MCMC sampling (3)17:15
Inference by MCMC sampling (4)17:18
Empirical results: Simulation study (1)17:31
Empirical results: Simulation study (2)17:56
Empirical results: Simulation study (3)19:01
Empirical results: Real data21:19
Inference for p-S6 (1)21:21
Inference for p-S6 (2)21:55
Inference for p-S6 (3)22:50
Summary (1)23:17
Summary (2)23:19
Summary (3)23:23
Summary (4)23:49
Summary (5)23:54
Summary (6)23:55
Summary (7)24:01
References and Acknowledgments24:21