UVM Genetics & Genomics Wiki


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Genetics explained.

Welcome to the 2012 UVM Genetics & Genomics WikiEdit

Class wiki for the Genetics and Genomics course in the Department of Microbiology and Molecular Genetics, University of Vermont, Burlington VT USA. John Burke is the course instructor, and can be reached at or @JohnBTV. The Twitter hashtag for the course is #uvmgg. Comments, questions and suggestions are welcome. Use the comments section on the relevant page, or John's Wikia wall, or Twitter as appropriate.

About the CourseEdit

This course is being offered for the first time in the 2012 fall semester, and is intended for both graduate students and advanced undergraduates. It will be a highly collaborative and open course in which students will have the backing of an excellent textbook and an experienced instructor, while learning how to cope with a vast flow of new information. Students will generate, evaluate, and collaboratively edit content and will primarily be evaluated by the quality of their contributions and collaborations in class and on this wiki.

Getting StartedEdit

Expectations for Enrolled StudentsEdit

Editing work of class participantsEdit

| ChavenVT | John Mackenzie Burke | Lisz Graves | Lorantes | LoriUVM | Meghan.mckeown | RachaelChi | ShruthiUvm | Tereza Pos |

WIKI CONTENT (required sections)Edit

Class NotesEdit

Concepts and JargonEdit

A B CEdit

D E FEdit

G H IEdit

J K LEdit

M N OEdit

P Q REdit

S T UEdit

V W X Y ZEdit

Student ProjectsEdit

YFG: Your Favorite GeneEdit

  • | DRACO (synthetic antiviral protein, built from human genes) | F5 (factor V blood coagulation, human gene) | FGFR3 (fibroblast growth factor receptor 3, human gene) | HOXA1 (homeobox developmental control protein, human gene) | GAA (glucosidase alpha acid, human gene) | MTRNR2 (mitochondrial large subunit ribosomal RNA, human gene) | NOG (noggin developmental control protein, human gene) | VRN2 (vernalization, wheat gene) | VSG (variable surface glycoprotein, Trypanosome gene) |

Genetic StudiesEdit

Genomic StudiesEdit

Transcriptome analysis of the Vernalization Response in Barley (Hordeum vulgare) Seedlings (Greenup et al. 2011)

Trypanosoma cruzi Genome Project

Extremophiles - Thermophiles

Tetraodon nigroviridis genome

Human susceptibility to Malaria analyzed by GWAS

Epigenetic regulation by long non-coding RNAs in mice

Deinococcus radiodurans R1

Metagenomic StudiesEdit

Metagenomic-wide association study of gut microbiota in type 2 diabetes

Metagenomics of the leaf-cutter ant fungus-garden

Metagenomics highlighting the complex interplay between diet, gut microbiota and immune response in infants

Metagenomic analysis of the microbiota from the crop of an invasive snail

Metagenomic study of oral microbiota

Metagenomic study of investigation of microbes and viruses in patients with jaw osteonecrosis


Metagenomic Study of Deinococcus Radiodurans

Interesting TopicsEdit

HeLa Cells


Brewing and Diacetyl


Kombucha: Exploring the SCOBY


Online Resources (databases, web sites, blogs, Twitter feeds)Edit

Personal PagesEdit

Student-Generated Questions and Proposed SolutionsEdit

Textbook Problems and SolutionsEdit

  • Ch 3, Mapping, Sequencing, Annotation, and Databases | Exercises | Problems | Weblems |
  • Ch 4, Comparative Genomics | Exercises | Problems | Weblems |
  • Ch 5, Evolution and Genomic Change | Exercises | Problems | Weblems |
  • Ch 6, Genomes of Prokaryotes | Exercises | Problems | Weblems |
  • Ch 7, Genomes of Eukaryotes | Exercises | Problems | Weblems |
  • Ch 8, Genomics and Human Biology | Exercises | Problems | Weblems |
  • Ch 9, Microarrays and Transcriptomics | Exercises | Problems | Weblems |
  • Ch 10, Proteomics | Exercises | Problems | Weblems |
  • Ch 11, Systems Biology | Exercises | Problems | Weblems |

Wikipedia Page EvaluationsEdit

Polyploid Review

WIKI CONTENT (optional sections)Edit

Biographies of Geneticists and Genome ScientistsEdit

Book, Film and Video ReviewsEdit

Current News in Genetics and GenomicsEdit

  • 4 October 2012. Rapid Whole-Genome Sequencing for Genetic Disease Diagnosis in Neonatal Intensive Care Units. Newborn babies in intensive care unit have genomes sequenced in only 50 hours. An interesting read. | BBC News | New York Times | Science Translational Medicine |
  • 4 October 2012. Huang et al. (2012), A map of rice genome variation reveals the origin of cultivated rice. Nature, published online 3 October 2012. | Nature |
  • Gene Therapy aprroved in Europe for a rare genetic disease called glybera where people cannot breakdown lipids. Here is the bbc news link.
  • DNA is more stable than we thought it was. Here is an interesting article. Follow the link.
  • PHD comics take on "open access" published in 10/24/12. Follow the link
  • Two Bowel Cancer Genes identified. More information on this BBC article and Prof Ian Tolinson's homepage at Welcome Trust.

Humor for Gene GeeksEdit

Textbook Issues, Corrections and UpdatesEdit

Updates, news, plans, questions and announcementsEdit

Latest activityEdit

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