JoVE Journal

Genetics

JoVE Genetics includes experimental approaches to study gene function, gene expression and regulation, epigenetics, genetic disorders, population genetics, and evolution.

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Metabolic Labeling and Profiling of Transfer RNAs Using Macroarrays

Sophia Emetu*¹, Morgan Troiano*¹, Jacob Goldmintz*¹, Jensen Tomberlin¹, Simon Grelet², Philip H. Howe², Christopher Korey³, Renaud Geslain¹

¹Laboratory of tRNA Biology, Department of Biology, College of Charleston, ²Department of Biochemistry and Molecular Biology, MUSC, ³Department of Biology, College of Charleston

Determining Genome-wide Transcript Decay Rates in Proliferating and Quiescent Human Fibroblasts

Mithun Mitra^1,2, Ha Neul Lee^1,2,3, Hilary A. Coller^1,2,3

¹Department of Molecular, Cell and Developmental Biology, University of California, Los Angeles, ²Department of Biological Chemistry, David Geffen School of Medicine, ³Molecular Biology Institute Interdepartmental Program, University of California, Los Angeles

Chromatin Immunoprecipitation (ChIP) of Histone Modifications from Saccharomyces cerevisiae

Meagan Jezek¹, Alison Jacques¹, Deepika Jaiswal¹, Erin M. Green¹

¹Department of Biological Sciences, University of Maryland

Embryo Microinjection and Transplantation Technique for Nasonia vitripennis Genome Manipulation

Ming Li^1,2, Michelle Bui^1,2, Omar S. Akbari^1,2

¹Department of Entomology and Riverside Center of Disease Vector Research, Institute for Integrative Genome Biology, University of California, Riverside, ²Section of Cell and Developmental Biology, Division of Biological Sciences, University of California, San Diego

A Protocol for the Production of Integrase-deficient Lentiviral Vectors for CRISPR/Cas9-mediated Gene Knockout in Dividing Cells

Sriram Vijayraghavan¹, Boris Kantor¹

¹Duke Viral Vector Core, Department of Neurobiology, Duke University School of Medicine

Generation of Native Chromatin Immunoprecipitation Sequencing Libraries for Nucleosome Density Analysis

Alireza Lorzadeh¹, Rodrigo Lopez Gutierrez¹, Linda Jackson¹, Michelle Moksa¹, Martin Hirst^1,2

¹Department of Microbiology and Immunology, Michael Smith Laboratories Centre for High-Throughput Biology, University of British Columbia, ²Canada's Michael Smith Genome Science Center, BC Cancer Agency

A Universal Protocol for Large-scale gRNA Library Production from any DNA Source

Anna Köferle¹, Stefan H. Stricker^1,2

¹MCN Junior Research Group, Munich Center for Neurosciences, Ludwig-Maximilian-Universität, BioMedical Center, ²Epigenetic Engineering, Institute of Stem Cell Research, Helmholtz Zentrum, German Research Center for Environmental Health

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Ivana Grbesa¹, Miriam Tannenbaum¹, Avital Sarusi-Portuguez¹, Michal Schwartz¹, Ofir Hakim¹

¹The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University

An Array-based Comparative Genomic Hybridization Platform for Efficient Detection of Copy Number Variations in Fast Neutron-induced Medicago truncatula Mutants

Yuhui Chen¹, Xianfu Wang², Shunfei Lu³, Hongcheng Wang², Shibo Li², Rujin Chen¹

¹Laboratory of Plant Genetics and Development, Noble Research Institute, ²Genetics Laboratory, University of Oklahoma Health Science Center, ³Medicine and Health School, Li Shui University

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish

Timothy L. Hostelley*¹, Jessica E. Nesmith*¹, Norann A. Zaghloul¹

¹Division of Endocrinology, Diabetes and Nutrition, Department of Medicine, University of Maryland School of Medicine

Generation of a Gene-disrupted Streptococcus mutans Strain Without Gene Cloning

Takatoshi Murata¹, Ayako Okada¹, Khairul Matin^1,2,3, Nobuhiro Hanada¹

¹Department of Translational Research, Tsurumi University School of Dental Medicine, ²Endowed Department of International Oral Health Science (affiliated with Department of Translational Research), Tsurumi University School of Dental Medicine, ³Cariology and Operative Dentistry, Graduate School of Medical and Dental Sciences, Tokyo Medical and Dental University

High Resolution Fluorescent In Situ Hybridization in Drosophila Embryos and Tissues Using Tyramide Signal Amplification

Allison Jandura^1,2, Jack Hu¹, Ronit Wilk^1,2, Henry M. Krause^1,2

¹The Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, ²Department of Molecular Genetics, University of Toronto

The Nematode Caenorhabditis Elegans - A Versatile In Vivo Model to Study Host-microbe Interactions

Luca Issi¹, Meredith Rioux¹, Reeta Rao¹

¹Biology and Biotechnology, Worcester Polytechnic Institute

Sequential Salt Extractions for the Analysis of Bulk Chromatin Binding Properties of Chromatin Modifying Complexes

Elizabeth G. Porter¹, Katelyn E. Connelly¹, Emily C. Dykhuizen¹

¹Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University

In Vitro Bioluminescence Assay to Characterize Circadian Rhythm in Mammary Epithelial Cells

Mingzhu Fang¹, Hwan-Goo Kang², Youngil Park², Brian Estrella¹, Helmut Zarbl¹

¹Department of Environmental and Occupational Health, School of Public Health, NIEHS Center for Environmental Exposures and Disease, Environmental and Occupational Health Sciences Institute, Rutgers University, ²Veterinary Drugs & Biologics Division, Animal and Plant Quarantine Agency

Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids

Desiree-Faye Kaixin Toh*¹, Kiran M. Patil*¹, Gang Chen¹

¹Division of Chemistry and Biological Chemistry, School of Physical and Mathematical Sciences, Nanyang Technological University

High Fat Diet Feeding and High Throughput Triacylglyceride Assay in Drosophila Melanogaster

Soda Balla Diop¹, Ryan T. Birse¹, Rolf Bodmer¹

¹Development, Aging and Regeneration Program, Sanford Burnham Prebys Medical Discovery Institute

Determination of the Optimal Chromosomal Location(s) for a DNA Element in Escherichia coli Using a Novel Transposon-mediated Approach

Jakob Frimodt-Møller¹, Godefroid Charbon¹, Karen A. Krogfelt², Anders Løbner-Olesen¹

¹Department of Biology, Section for Functional Genomics and Center for Bacterial Stress Response and Persistence (BASP), University of Copenhagen, ²Department of Microbiology and Infection Control, Statens Serum Institut

Immunostaining for DNA Modifications: Computational Analysis of Confocal Images

Ashley H. Ramsawhook*¹, Lara C. Lewis*¹, Maria Eleftheriou¹, Abdulkadir Abakir¹, Paulina Durczak¹, Robert Markus², Seema Rajani², Nicholas R.F. Hannan¹, Beth Coyle³, Alexey Ruzov¹

¹Division of Cancer and Stem Cells, School of Medicine, Centre for Biomolecular Sciences, University of Nottingham, ²School of Life Sciences Imaging (SLIM), School of Life Sciences, University of Nottingham, ³Children's Brain Tumour Research Centre, School of Medicine, QMC, University of Nottingham

Expedited Radiation Biodosimetry by Automated Dicentric Chromosome Identification (ADCI) and Dose Estimation

Ben Shirley*¹, Yanxin Li*¹, Joan H.M. Knoll^1,2, Peter K. Rogan^1,3

¹CytoGnomix Inc., ²Department of Pathology and Laboratory Medicine, Western University, ³Department of Biochemistry, Western University

Chromatin Immunoprecipitation (ChIP) Protocol for Low-abundance Embryonic Samples

Rizwan Rehimi¹, Michaela Bartusel¹, Francesca Solinas², Janine Altmüller², Alvaro Rada-Iglesias^1,3

¹Center for Molecular Medicine Cologne (CMMC), University of Cologne, ²Cologne Center for Genomics (CCG), University of Cologne, ³Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases (CECAD), Research Center and Systems Biology of Ageing Cologne, University of Cologne

A Standard Methodology to Examine On-site Mutagenicity As a Function of Point Mutation Repair Catalyzed by CRISPR/Cas9 and SsODN in Human Cells

Natalia Rivera-Torres^1,2, Eric B. Kmiec^1,2

¹Gene Editing Institute, Helen F. Graham Cancer Center and Research Institute, Christiana Care Health Services, ²Department of Medical Sciences, University of Delaware

Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans

Dhaval S Patel*¹, Giovanni Diana*¹, Eugeni V. Entchev¹, Mei Zhan^2,3,4, Hang Lu^2,3,4, QueeLim Ch'ng¹

¹Centre for Developmental Neurobiology, King's College London, ²Interdisciplinary Bioengineering Graduate Program, Georgia Institute of Technology, ³Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology, ⁴School of Chemical & Biomolecular Engineering, Georgia Institute of Technology

Measuring mRNA Levels Over Time During the Yeast S. cerevisiae Hypoxic Response

Stephen D. Willis¹, A. K. M. Nawshad Hossian², Nathan Evans², Mark J. Hickman²

¹Department of Molecular Biology, Rowan School of Osteopathic Medicine, ²Department of Biological Sciences, Rowan University

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