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Gene Regulation

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Cover of 'Gene Regulation'

Table of Contents

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    Book Overview
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    Chapter 1 Gene Regulation
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    Chapter 2 Isolation of Nuclei for Use in Genome-Wide DNase Hypersensitivity Assays to Probe Chromatin Structure
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    Chapter 3 DNase I Digestion of Isolated Nulcei for Genome-Wide Mapping of DNase Hypersensitivity Sites in Chromatin
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    Chapter 4 Isolation and Analysis of DNA Derived from Nucleosome-Free Regions
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    Chapter 5 Acquisition of High Quality DNA for Massive Parallel Sequencing by In Vivo Chromatin Immunoprecipitation
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    Chapter 6 Luciferase Assay to Study the Activity of a Cloned Promoter DNA Fragment
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    Chapter 7 Promoter Deletion Analysis Using a Dual-Luciferase Reporter System
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    Chapter 8 Application of mRNA Display for In Vitro Selection of DNA-Binding Transcription Factor Complexes
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    Chapter 9 Isolation of Intracellular Protein – DNA Complexes Using HaloCHIP, an Antibody-Free Alternative to Chromatin Immunoprecipitation
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    Chapter 10 A Modified Yeast One-Hybrid System for Genome-Wide Identification of Transcription Factor Binding Sites
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    Chapter 11 Identifying Specific Protein-DNA Interactions Using SILAC-Based Quantitative Proteomics.
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    Chapter 12 Electrophoretic Mobility-Shift and Super-Shift Assays for Studies and Characterization of Protein–DNA Complexes
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    Chapter 13 Combination of Native and Denaturing PAGE for the Detection of Protein Binding Regions in Long Fragments of Genomic DNA
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    Chapter 14 Quantitative NanoProteomics Approach for Protein Complex (QNanoPX) Using Gold Nanoparticle-Based DNA Probe
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    Chapter 15 Chromatin Assembly and In Vitro Transcription Analyses for Evaluation of Individual Protein Activities in Multicomponent Transcriptional Complexes
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    Chapter 16 Gene Regulation
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    Chapter 17 Promoter Independent Abortive Transcription Assays Unravel Functional Interactions Between TFIIB and RNA Polymerase
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    Chapter 18 Fluorescence Cross-correlation Spectroscopy (FCCS) to Observe Dimerization of Transcription Factors in Living Cells.
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    Chapter 19 Nuclear Recruitment Assay as a Tool to Validate Transcription Factor Interactions in Mammalian Cells
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    Chapter 20 Preparation of Cell Lines for Single-Cell Analysis of Transcriptional Activation Dynamics
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    Chapter 21 Peptide Microarrays for Profiling of Serine/Threonine Kinase Activity of Recombinant Kinases and Lysates of Cells and Tissue Samples
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    Chapter 22 Immunoaffinity Purification of Protein Complexes from Mammalian Cells
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    Chapter 23 Simple and Efficient Identification of Chromatin Modifying Complexes and Characterization of Complex Composition
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    Chapter 24 Heavy Methyl-SILAC Labeling Coupled with Liquid Chromatography and High-Resolution Mass Spectrometry to Study the Dynamics of Site-Specific Histone Methylation
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    Chapter 25 Analysis of p300 Occupancy at the Early Stage of Stem Cell Differentiation by Chromatin Immunoprecipitation
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    Chapter 26 Mammalian Two-Hybrid Assays for Studies of Interaction of p300 with Transcription Factors
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    Chapter 27 Fluorescence Anisotropy Microplate Assay to Investigate the Interaction of Full-Length Steroid Receptor Coactivator-1a with Steroid Receptors
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    Chapter 28 Use of Histone Deacetylase Inhibitors to Examine the Roles of Bromodomain and Histone Acetylation in p300-Dependent Gene Expression
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    Chapter 29 Histone Deacetylase Inhibitor Valproic Acid as a Small Molecule Inducer to Direct the Differentiation of Pluripotent Stem Cells
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    Chapter 30 Sedimentation and Immunoprecipitation Assays for Analyzing Complexes that Repress Transcription
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    Chapter 31 Methods for Studies of Protein Interactions with Different DNA Methyltransferases
Attention for Chapter 12: Electrophoretic Mobility-Shift and Super-Shift Assays for Studies and Characterization of Protein–DNA Complexes
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Chapter title
Electrophoretic Mobility-Shift and Super-Shift Assays for Studies and Characterization of Protein–DNA Complexes
Chapter number 12
Book title
Gene Regulation
Published in
Methods in molecular biology, January 2013
DOI 10.1007/978-1-62703-284-1_12
Pubmed ID
Book ISBNs
978-1-62703-283-4, 978-1-62703-284-1
Authors

Elsie I. Parés-Matos, Parés-Matos, Elsie I.

Abstract

Gene expression is in part regulated by transcription factors that bind specific sequence motifs in genomic DNA. Transcription factors cooperate with the basal machinery to upregulate or downregulate transcription. Experimental data have revealed the importance of interactions among members of distinct families of transcription factors to form complexes that regulate gene expression. Thus, a full characterization of protein-DNA complexes is essential to understanding of gene regulation in a more complex cellular environment. Electrophoretic mobility shift assay (EMSA) is a powerful technique to resolve nucleic acid-protein complexes formed with transcription factors in nuclear extracts. Herein is described how EMSA and super-shift assays were used to characterize several complexes produced from binding of transcription factors to a regulatory DNA sequence upstream from the promoter region of the human NF-IL6 gene.

Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 15 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 15 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 4 27%
Student > Doctoral Student 2 13%
Professor 1 7%
Professor > Associate Professor 1 7%
Researcher 1 7%
Other 0 0%
Unknown 6 40%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 4 27%
Agricultural and Biological Sciences 2 13%
Unspecified 1 7%
Chemistry 1 7%
Engineering 1 7%
Other 0 0%
Unknown 6 40%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 12 March 2014.
All research outputs
#20,223,099
of 22,747,498 outputs
Outputs from Methods in molecular biology
#9,860
of 13,089 outputs
Outputs of similar age
#248,866
of 280,854 outputs
Outputs of similar age from Methods in molecular biology
#298
of 340 outputs
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So far Altmetric has tracked 13,089 research outputs from this source. They receive a mean Attention Score of 3.3. This one is in the 1st percentile – i.e., 1% of its peers scored the same or lower than it.
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