Key Features
- Focuses on computational methods in cell biology
- Split into 2 parts--data extraction and analysis to distill models and mechanisms, and developing and simulating models to make predictions and testable hypotheses
- Emphasizes the intimate and necessary connection with interpreting experimental data and proposing the next hypothesis and experiment
Description
Computational methods are playing an ever increasing role in cell biology. This volume of Methods in Cell Biology focuses on Computational Methods in Cell Biology and consists of two parts: (1) data extraction and analysis to distill models and mechanisms, and (2) developing and simulating models to make predictions and testable hypotheses.
Computational Methods in Cell Biology, 1st Edition
- Principles of model building: an experimentation-aided approach to development of models for signaling networks
Ambhighainath Ganesan and Andre Levchenko
- Integrated Inference and Analysis of Regulatory Networks From Multi-Level Measurements
Christopher S. Poultney, Alex Greenfield, and Richard Bonneau
- Swimming upstream: identifying proteomic signals that drive transcriptional changes using the interactome and multiple "-omics" datasets
Shao-shan Carol Huang and Ernest Fraenkel
- A framework for modeling the relationship between cellular steady-state and stimulus-responsiveness
Paul Loriaux and Alexander Hoffmann
- Stochastic Modeling of Cellular Networks
Jacob Stewart-Ornstein and Hana El-Samad
- Quantifying Traction Stresses in Adherent Cells
Casey M. Kraning-Rush, Shawn P. Carey, Joseph P. Califano, and Cynthia A. Reinhart-King
- CellOrganizer: Image-derived Models of Subcellular Organization and Protein Distribution
Robert F. Murphy
- Spatial Modeling of Cell Signaling Networks
Ann E. Cowan, Ion I. Moraru, James C. Schaff, Boris M. Slepchenko, and Leslie M. Loew
- Stochastic models of cell protrusion arising from spatiotemporal signaling and adhesion dynamics
Erik S. Welf and Jason M. Haugh
- Nonparametric Variable Selection and Modeling for Spatial and Temporal Regulatory Networks
Anil Aswani, Mark D. Biggin, Peter Bickel and Claire Tomlin
- Quantitative Models of the Mechanisms that Control Genome-Wide Patterns of Animal Transcription Factor Binding
Tommy Kaplan and Mark D. Biggin
- Computational Analysis of Live Cell Images of the Arabidopsis thaliana Plant
Alexandre Cunha, Paul T. Tarr, Adrienne H. K. Roeder, Alphan Altinok, Eric Mjolsness, and Elliot M. Meyerowitz
- Multi-scale modeling of tissues using CompuCell3D
Maciej H. Swat, Gilberto L. Thomas, Julio M. Belmonte, Abbas Shirinifard, Mitja Hmeljak, and James A. Glazier
- Multiscale Model of Fibrin Accumulation on the Blood Clot Surface and Platelet Dynamics
Zhiliang Xu, Scott Christley, Joshua Lioi, Cameron Harvey, Wenzhao Sun, Elliot D. Rosen, and Mark Alber
