BioProtocols--mapping protein DNA interactions

Mapping Protein/DNA Interactions by Cross Linking

(source from NCBI)

Dissecting Fission Yeast Centromeres via Silencing
Robin Allshire.

Localizing Replication Sites and Nuclear Proteins
Angela Taddei, Danièle Roche, Jean-Baptiste Sibarita, Sébastien Huart, Christèle Maison, Delphine Bailly, and Geneviève Almouzni.

Finding Downstream Target DNAs for Chromatin Proteins by X-CHIP in Drosophila
Nicolas Nègre and Giacomo Cavalli.

Emerging Techniques: UV Laser Footprinting and Protein--DNA Crosslinking
Stefan Dimitrov.

Nuclear Organization and Gene Expression: Visualization of Transcription and Higher Order Chromatin Structure
Roel van Driel and Pernette J. Verschure.

Examining the Distribution of Telomeric and DNA Repair Proteins by ChrIP and Real-Time PCR
Karine Dubrana.

Nuclear Organisation and Gene Silencing in Lymphocytes
Amanda Fisher and Matthias Merkenschlager.

Direct Visualization of Transcription Factor Binding to Regulatory Elements in Living Cells
Gordon L. Hager.

Part I. Chromatin Protein Complexes: Dynamic Assemblies in the Nucleus
Donna Jovin.

Isolation of Homeodomain Engrailed Target Genes by UV Cross-Linking and Chromatin IP
Florence Maschat.

Analysis of Chromatin Assembly, Chromatin Domains, and DNA Replication Using Xenopus Systems
Jean-Marc Lemaitre, Yegor Vassetzky, and Marcel Méchali.

Binding Sights in Chromatin by X-ChIP
Achim Breiling and Valerio Orlando.

Chromatin Immunoprecipitation in Budding Yeast
Tomoyuki Tanaka.

ChIP with Native Chromatin: Advantages and Problems Relative to Methods Using Cross-Linked Material
Bryan Turner.

Highly Sensitive FISH in Combination with the Visualization of the Mammalian Genome: Architecture
Daniele Zink.

Part II. Fly-FISHing: A Protocol to Localize Single Copy Genes inside the Nucleus in Whole Mount Embryos
Mark J. Gemkow.

Part 2. Detailed Method for Immunoprecipitation of Unfixed Chromatin from Mammalian Cells
Laura O'Neill and Bryan Turner.

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