Rule-based Models and Applications in Biology -- Optimized Protein-protein Interaction Network usage with Context Filtering -- SignaLink: Multi-layered Regulatory Networks -- Interplay between Long Non-coding RNAs and microRNAs in Cancer -- Methods and Tools in Genome-wide Association Studies -- Identifying Differentially Expressed Genes using Fluorescence-Activated Cell Sorting (FACS) and RNA Sequencing from Low Input Samples -- Computational and Experimental Approaches to Predict Host-parasite Protein-protein Interactions -- An Integrative Approach to Virus-host Protein-protein Interactions -- The SQUAD Method for the Qualitative Modeling of Regulatory Networks -- miRNet - functional Analysis and Visual Exploration of miRNA-target Interactions in a Network Context -- Systems Biology Analysis to Understand Regulatory miRNA Networks in Lung Cancer -- Spatial Analysis of Functional Enrichment (SAFE) in Large Biological Networks -- Toward Large Scale Computational Prediction of Protein Complexes -- Computational Models of Cell Cycle Transitions -- Simultaneous Profiling of DNA Accessibility and Gene Expression Dynamics with ATAC -- Computational Network Analysis for Drug Toxicity Prediction -- Modeling the Epigenetic Landscape in Plant Development -- Developing Network Models of Multi-scale Host Responses Involved in Infections and Diseases -- Exploring Dynamics and Noise in Gonadotropin-Releasing Hormone (GnRH) Signaling. .

This volume details computational techniques for analyses of a wide range of biological contexts, providing an overview of the most up-to-date techniques used in the field. Chapters guide the reader through available data resources and analysis methods and easy-to-follow protocols that allow the researcher to apply various computational tools to an array of different data types. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory and computational protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Computational Cell Biology: Method and Protocols aims to ensure successful results in the further study of this vital field.