HOX Genes: Methods and ProtocolsBony De Kumar, Ashish Shelar This volume explores the latest advancements and methodologies in studying Hox genes; gene regulation; and Hox gene expression, function, and regulation in various model organisms. The chapters in this book cover topics such as high-resolution imaging and gene editing, bioinformatics approaches ad chromatin analysis, Spatial technology (Curio), ChIP-Seq, and ATAC-Seq. There are also chapters on data analysis, variant calling, gene expression analysis using SmFISH, and microscopy-based approaches to study HOX gene function. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on trouble shooting and avoiding known pitfalls.Cutting-edge and comprehensive, HOX Genes: Methods and Protocols is a valuable resource for the researchers in fields of biochemistry, developmental biology, molecular biology, and biomedicine. This book also shows scientists and researchers the critical roles that Hox genes play in development, evolution, and utility as model systems for studying basic molecular biology. |
Contents
| 1 | |
| 11 | |
Tracking AbdominalB Expression and Function in the Fly Internal Reproductive System by Explants Imaging | 25 |
Using Bimolecular Fluorescence Complementation BiFC with Photoactivated Localization Microscopy PALM to Analyze | 39 |
Optimized smFISH Pipeline for Studying Nascent Transcription in Mouse Embryonic Tissue Samples | 53 |
Exploring Hox Genes and Their Temporal Expression in an Embryonic Model of Freshwater Crustaceans | 67 |
Investigating the Functions of Hox Genes Using Planarian Asexual Reproduction | 91 |
Studying the Role of HOX Genes in Thrombocyte Development | 107 |
Detection of ProteinNucleic Acid Interaction by Electrophoretic Mobility Shift Assay | 155 |
Capturing Chromatin Organization by MNaseseq and ATACseq | 167 |
A Simple Method to Analyze Context and TissueSpecific CisRegulatory Modulations of Homeotic HOX Genes Using C | 181 |
Guidelines to Analyze ChIPSeq Data Journey Through QC and Analysis Considerations | 193 |
A Comprehensive Bioinformatics Approach to Analysis of Variants Variant Calling Annotation and Prioritization | 207 |
Spatial Genomic Approaches to Investigate HOX Genes in Mouse Brain Tissues | 235 |
Patterning Functional Proteins in UltrabithoraxBased Materials | 245 |
| 257 | |
How to Study Gene Expression and Gain of Function of Hoxb1 in Mouse Heart Development | 121 |
Using the Conserved Hexapeptide in HOX Proteins as an Antagonist of HOXPBX Interactions | 139 |