Gene Regulatory Networks

How Do You Find Transcription Factors? Computational Approaches to Compile and Annotate Repertoires of Regulators for Any Genome.- Expression Pattern Analysis of Regulatory Transcription Factors in Caenorhabditis elegans.- High-throughput SELEX Determination of DNA Sequences Bound by Transcription Factors In vitro.- Convenient Determination of Protein-Binding DNA Sequences using Quadruple 9-Mer-Based Microarray and DsRed-Monomer Fusion Protein.- Analysis of Specific Protein-DNA Interactions by Bacterial One-Hybrid Assay.- MITOMI- A Microdluidic Platform for In vitro Characterization of Transcription Factor – DNA Interaction.- Detecting Protein-protein Interactions with the Split-Ubiquitin Sensor.- Genome-wide Dissection of Post-transcriptional and Post-translational Interactions.- Linking Cellular Signalling to Gene Expression using EXT Encoded Reporter Libraries.- Sample Preparation for Small RNA Massive Parallel Sequencing.- CAGE-Cap Analysis Gene Expression: A Protocol for the Detection of Promoter and Transcriptional Networks.- Detecting DNasel-hypersensitivity Sites with MLPA.- Detecting Long-range Chromatin Interactions using the Chromosome Conformation Capture Sequencing (3C-seq) Method.- Analyzing Transcription FactorOccupancy during Embryo Development using ChIP-seq.- Genome-wide Profiling of DNA Binding Proteins using Barcode-based Multiplex Solexa Sequencing.- Computational Analysis of Protein-DNA Interactions from ChIP-seq Data.- Using a Yeast Inverse One-hybrid System to Identify Functional Binding Sites of Transcription Factors.- Using cisTargetX to Predict Transcriptional Targets and Networks in Drosophila.- Proteomic Methodologies to Study Transcription Factor Function.- A High-throughput Gateway-compatible Yeast One-hybrid Screen to Detect Protein-DNA Interactions.- BioTapestry: A Tool to Visualize the Dynamic Properties of Gene Regulatory Networks.- Implicit Methods for Qualitative Modeling of Gene Regulatory Networks.