Eukaryotic Transcriptional and Post-Transcriptional Gene Expression Regulation

Front Matter

Fluorescence Reporter-Based Genome-Wide RNA Interference Screening to Identify Alternative Splicing Regulators

• Ashish Misra, Michael R. Green

Tandem Affinity Purification Approach Coupled to Mass Spectrometry to Identify Post-translational Modifications of Histones Associated with Chromatin-Binding Proteins

• Sophie Beyer, Philippe Robin, Slimane Ait-Si-Ali

Efficient Preparation of High-Complexity ChIP-Seq Profiles from Early Xenopus Embryos

• George E. Gentsch, James C. Smith

Systematic Discovery of Chromatin-Bound Protein Complexes from ChIP-seq Datasets

• Eugenia Giannopoulou, Olivier Elemento

Assay for Transposase-Accessible Chromatin with High-Throughput Sequencing (ATAC-Seq) Protocol for Zebrafish Embryos

• Canan Doganli, Melissa Sandoval, Sean Thomas, Daniel Hart

Establishment of Time- and Cell-Specific RNAi in Caenorhabditis elegans

• Masayuki Hamakawa, Takaaki Hirotsu

Cell-Penetrating Peptide-Mediated Delivery of Cas9 Protein and Guide RNA for Genome Editing

• Bharathi Suresh, Suresh Ramakrishna, Hyongbum Kim

Epigenetic Analysis of Endocrine Cell Subtypes from Human Pancreatic Islets

• Jia Zhang, Klaus H. Kaestner

eIF3 Regulation of Protein Synthesis, Tumorigenesis, and Therapeutic Response

• Ji-Ye Yin, Zizheng Dong, Jian-Ting Zhang

High-Resolution Gene Expression Profiling of RNA Synthesis, Processing, and Decay by Metabolic Labeling of Newly Transcribed RNA Using 4-Thiouridine

• Andrzej J. Rutkowski, Lars Dölken

Accurate Detection of Differential Expression and Splicing Using Low-Level Features

• Tomi Suomi, Laura L. Elo

Profiling Changes in Histone Post-translational Modifications by Top-Down Mass Spectrometry

• Mowei Zhou, Si Wu, David L. Stenoien, Zhaorui Zhang, Lanelle Connolly, Michael Freitag et al.

Determining if an mRNA is a Substrate of Nonsense-Mediated mRNA Decay in Saccharomyces cerevisiae

• Marcus J. O. Johansson

Optimizing In Vitro Pre-mRNA 3′ Cleavage Efficiency: Reconstitution from Anion-Exchange Separated HeLa Cleavage Factors and from Adherent HeLa Cell Nuclear Extract

• Mihwa Na, Susana T. Valente, Kevin Ryan

Unbiased Interrogation of 3D Genome Topology Using Chromosome Conformation Capture Coupled to High-Throughput Sequencing (4C-Seq)

• Rutger W. W. Brouwer, Mirjam C. G. N. van den Hout, Wilfred F. J. van IJcken, Eric Soler, Ralph Stadhouders

Using an Inducible CRISPR-dCas9-KRAB Effector System to Dissect Transcriptional Regulation in Human Embryonic Stem Cells

• Krishna Mohan Parsi, Erica Hennessy, Nicola Kearns, René Maehr

In Vitro Assay to Study Histone Ubiquitination During Transcriptional Regulation

• Jogender Tushir-Singh, Sanchita Bhatnagar

Determination of Alternate Splicing Events Using Transcriptome Arrays

• Rebecca S. DeVaux, Marcy Kuentzel, Jason Herschkowitz, Sridar V. Chittur

Large-Scale RNA Interference Screening to Identify Transcriptional Regulators of a Tumor Suppressor Gene

• Matteo Forloni, Thuy Ho, Lisha Sun, Narendra Wajapeyee