ChIP and ChIP-Related Techniques: Expanding the Fields of Application and Improving ChIP Performance -- Considerations on Experimental Design and Data Analysis of Chromatin Immunoprecipitation Experiments -- How to Combine ChIP with qPCR -- Analysis of Protein-DNA Interaction by Chromatin Immunoprecipitation and DNA Tiling Microarray (ChIP-on-Chip) -- Chromatin Immunoprecipitation from Mouse Embryonic Tissue or Adherent Cells in Culture, Followed by Next Generation Sequencing -- Chromatin RNA Immunoprecipitation (ChRIP) -- DNA Accessibility by MNase Digestions -- Characterization of the Nucleosome Landscape by Micrococcal Nuclease-Sequencing (MNase-Seq) -- ChIP-re-ChIP: Co-Occupancy Analysis by Sequential Chromatin Immunoprecipitation -- Sm-ChIPi: Single-Molecule Chromatin Immunoprecipitation Imaging -- Chromatin Immunoprecipitation of Skeletal Muscle Tissue -- Chromatin Immunoprecipitation Assay in the Hyperthermoacidophilic Crenarchaeon, Sulfolobus acidocaldarius.- Using Intra-ChIP to Measure Protein-DNA Interactions in Intracellular Pathogens -- Native Chromatin Immunoprecipitation-Sequencing (ChIP-Seq) from Low Cell Numbers -- MOBE-ChIP: Probing Cell Type-Specific Binding Through Large-Scale Chromatin Immunoprecipitation -- Multiplexed ChIP-Seq Using Direct Nucleosome Barcoding: A Tool for High-Throughput Chromatin Analysis -- Analysis of ChIP-Seq Data in R/Bioconductor -- Spike-In Normalization of ChIP Data Using DNA-DIG-Antibody Complex.

This up-to-date volume includes protocols that illustrate the broad use of chromatin immunoprecipitation (ChIP) and ChIP-related methods in a variety of biological research areas. The collection also includes protocols designed to improve the performance of ChIP for specific applications.  Written in the highly successful Methods in Molecular Biology series format, chapters include introduction to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, as well as tips on troubleshooting and avoiding known pitfalls.  Authoritative and practical, Chromatin Immunoprecipitation: Methods and Protocols features techniques, including bioinformatic analysis of ChIP data, will be of interest to a very broad research community in the fields of biochemistry, molecular biology, microbiology, and biomedicine.