Biochemistry

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    Protocols in Current Issue
    Chromatin Immunoprecipitation (ChIP) Assay for Detecting Direct and Indirect Protein – DNA Interactions in Magnaporthe oryzae
    Authors:  Gang Li, Margarita Marroquin-Guzman and Richard A. Wilson, date: 11/05/2015, view: 7811, Q&A: 0
    [Abstract] Chromatin immunoprecipitation (ChIP) is a powerful technology for analyzing protein-DNA interactions in cells. Robust ChIP procedures have been established for investigating direct interactions between protein and DNA. However, detecting indirect protein-DNA interactions in vivo is challenging. Recently, we used ChIP to analyze an ...
    RNA Chromatin Immunoprecipitation (RNA-ChIP) in Caenorhabditis elegans
    Authors:  Germano Cecere and Alla Grishok, date: 12/20/2014, view: 8797, Q&A: 0
    [Abstract] The RNA chromatin immunoprecipitation assay (RNA-ChIP) allows detection and quantification of RNA–protein interactions using in vivo cross-linking with formaldehyde followed by immunoprecipitation of the RNA–protein complexes. Here we describe the RNA–ChIP protocol that we have adapted for Caenorhabditis elegans (C. elegans ...
    ChIP-Seq in Candida albicans
    [Abstract] Systems biology approaches can be used to study the regulatory interactions occurring between many components of the biological system at the whole-genome level and decipher the circuitries implicated in the regulation of cellular processes, including those imparting virulence to opportunistic fungi. Candida albicans (C. albicans ...
    Identification of Proteins Interacting with Genomic Regions of Interest in vivo Using Engineered DNA-binding Molecule-mediated Chromatin Immunoprecipitation (enChIP)
    Authors:  Toshitsugu Fujita and Hodaka Fujii, date: 05/20/2014, view: 8568, Q&A: 0
    [Abstract] Elucidation of molecular mechanisms of genome functions requires identification of molecules interacting with genomic regions of interest in vivo. To this end, it is useful to isolate the target regions retaining molecular interactions. We established locus-specific chromatin immunoprecipitation (ChIP) technologies consisting of ...
    Chromatin Immunoprecipitation (ChIP), Streptavidin and ATP-agarose Mediated Pull-down Analyses
    [Abstract] Epstein-Barr virus (EBV) nuclear antigen 2 (EBNA2) induces expression of both viral and cellular genes in virus infected B cells by mimicking activated Notch receptors (Notch-IC) that mediate transcription activation through binding to the repressing domain of the recombining binding protein suppressor of hairless (RBP-Jκ). In general, chromatin ...
    Estradiol Receptor (ER) Chromatin Immunoprecipitation in MCF-7 Cells
    Authors:  Pia Giovannelli, Gabriella Castoria and Antimo Migliaccio, date: 07/20/2013, view: 6519, Q&A: 0
    [Abstract] Steroid hormone receptors, for example estradiol receptor, act like transcription factors. In the cell, steroids bind to a specific receptor. Upon ligand binding, many steroid receptors dimerize and enter nuclei where they bind specific DNA sequences called Hormone Responsive Elements (HRE) and regulate gene transcription. ER is able to bind DNA ...
    p65 Chromatin Immunoprecipitation Protocol
    Author:  Crissy Dudgeon, date: 04/20/2013, view: 7183, Q&A: 0
    [Abstract] Chromatin Immunoprecipitation (ChIP) is an important procedure that allows you to verify if a certain protein is physically located at a regulatory region. This information, taken together with other procedures such as luciferase assays and EMSAs, will give definitive proof that the query protein is involved in the transcription of a protein. ...
    Illumina Sequencing Library Construction from ChIP DNA
    Author:  Wei Zheng, date: 02/20/2012, view: 15256, Q&A: 0
    [Abstract] The Illumina sequencing platform is very popular among next-generation sequencing platforms. However, the DNA sequencing library construction kit provided by Illumina is considerably expensive. The protocol described here can be used to construct high-quality sequencing libraries from chromatin immunoprecipitated DNA. It uses key reagents from ...



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