1. ChIP and ChIP-Related Techniques: Expanding the Fields of Application and Improving ChIP Performance
Neus Visa and Antonio Jordán-Pla
2. Considerations on Experimental Design and Data Analysis of Chromatin Immunoprecipitation Experiments
Antonio Jordán-Pla and Neus Visa
3. How to Combine ChIP with qPCR
Patrik Asp
4. Analysis of Protein-DNA Interaction by Chromatin Immunoprecipitation and DNA Tiling Microarray (ChIP-on-Chip)
Hui Gao and Chunyan Zhao
5. Chromatin Immunoprecipitation from Mouse Embryonic Tissue or Adherent Cells in Culture, Followed by Next Generation Sequencing
Mário A.F. Soares and Diogo S. Castro
6. Chromatin RNA Immunoprecipitation (ChRIP)
Tanmoy Mondal, Santhilal Subhash, and Chandrasekhar Kanduri
7. DNA Accessibility by MNase Digestions
Ann-Kristin Östlund Farrants
8. Characterization of the Nucleosome Landscape by Micrococcal Nuclease-Sequencing (MNase-Seq)
Wieteke Anna Maria Hoeijmakers and Richárd Bártfai
9. ChIP-re-ChIP: Co-Occupancy Analysis by Sequential Chromatin Immunoprecipitation
Timothy V. Beischlag, Gratien G. Prefontaine, and Oliver Hankinson
10. Sm-ChIPi: Single-Molecule Chromatin Immunoprecipitation Imaging
Roubina Tatavosian, and Xiaojun Ren
11. Chromatin Immunoprecipitation of Skeletal Muscle Tissue
Amarjit Saini and Carl Johan Sundberg
12. Chromatin Immunoprecipitation Assay in the Hyperthermoacidophilic Crenarchaeon, Sulfolobus acidocaldarius
Kun Wang and Ann-Christin Lindås
13. Using Intra-ChIP to Measure Protein-DNA Interactions in Intracellular Pathogens
Brett R. Hanson and Ming Tan
14. Native Chromatin Immunoprecipitation-Sequencing (ChIP-Seq) from Low Cell Numbers
Teodora Ribarska and Gregor D. Gilfillan
15. MOBE-ChIP: Probing Cell Type-Specific Binding Through Large-Scale Chromatin Immunoprecipitation
Shenqi Wang and On Sun Lau
16. Multiplexed ChIP-Seq Using Direct Nucleosome Barcoding: A Tool for High-Throughput Chromatin Analysis
Christophe D. Chabbert, Sophie H. Adjalley, Lars M. Steinmetz, and Vicente Pelechano
17. Analysis of ChIP-Seq Data in R/Bioconductor
Ines de Santiago and Thomas Carroll
18. Spike-In Normalization of ChIP Data Using DNA-DIG-Antibody Complex
Andrea B. Eberle
