Biochemistry

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    Protocols in Current Issue
    Biochemical Analysis of Dimethyl Suberimidate-crosslinked Yeast Nucleosomes
    Authors:  Yuichi Ichikawa and Paul D. Kaufman, date: 03/20/2018, view: 2389, Q&A: 0
    [Abstract] Nucleosomes are the fundamental unit of eukaryotic chromosome packaging, comprised of 147 bp of DNA wrapped around two molecules of each of the core histone proteins H2A, H2B, H3, and H4. Nucleosomes are symmetrical, with one axis of symmetry centered on the homodimeric interaction between the C-termini of the H3 molecules. To explore the ...
    An Improved Method for Measuring Chromatin-binding Dynamics Using Time-dependent Formaldehyde Crosslinking
    [Abstract] Formaldehyde crosslinking is widely used in combination with chromatin immunoprecipitation (ChIP) to measure the locations along DNA and relative levels of transcription factor (TF)-DNA interactions in vivo. However, the measurements that are typically made do not provide unambiguous information about the dynamic properties of these ...
    Analysis of in vivo Interaction between RNA Binding Proteins and Their RNA Targets by UV Cross-linking and Immunoprecipitation (CLIP) Method
    Authors:  Pamela Bielli and Claudio Sette, date: 05/20/2017, view: 4721, Q&A: 0
    [Abstract] RNA metabolism is tightly controlled across different tissues and developmental stages, and its dysregulation is one of the molecular hallmarks of cancer. Through direct binding to specific sequence element(s), RNA binding proteins (RBPs) play a pivotal role in co- and post-transcriptional RNA regulatory events. We have recently demonstrated that, ...
    In vitro RNA-protein Binding Assay by UV Crosslinking
    Authors:  Hailong Zhang and Muxiang Zhou, date: 11/05/2012, view: 16920, Q&A: 1
    [Abstract] Because covalent bond can form between RNA and its binding proteins after UV irradiation, UV cross-linking is widely used to identify the specific RNA binding proteins. This protocol is described in details as follows.



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