March 25
Lecture 1 (ppt) - General Introduction, Meiosis and segregation; linkage and genetic maps.
pre-quiz (answers and summary of responses, pdf):
Begin Lecture 2 (ppt) - yeast; forward vs. reverse genetics, parallel genetic analysis; tetrad analysis
Readings: Hartwell Chs. 1-5, Reference A; Hawley and Walker Chs. 1, 2 and 7, Sherman

March 27
Finish Lecture 2 (ppt) - yeast; forward vs. reverse genetics, parallel genetic analysis; tetrad analysis
Readings: Hartwell Chs. 1-5, Reference A; Hawley and Walker Chs. 1, 2 and 7, Sherman
(also see mapping function in Griffiths: text, figure)
Lecture 3 (ppt) - Molecular Biology and Genomics
Begin Lecture 4 (Conserved domains, refseq accessions) (partial lecture given 3-27, for homework)

April 1
Paper 1 (Presentation PPT) -- Marston et al. Science 303:1367-1370. (Science, PMID 14752166 , PDF, SOM (pdf))
(Homework 1, on Marston et al., is due)
Lecture 4 - Informatics, (Internet handout) and BLAST
Downloads: BioEdit and MEGA
Reading: Hartwell Chs. 5, 10, 11 and 21; Hawley and Walker Ch. 7.

April 3
Lecture 5 -phylogeny (ppt)
Fitch 2001 on homology (PDF, PMID 10782117) and Bauldof on phylogeny (PDF, PMID 12801728).

April 8 - no meeting

April 10
(Homework 2, on use of internet resources, was due (answers). See Homework 2, 2007, and 2007 answers, for review)
Lecture 6 (PPT) - Mouse: Mammalian genomics, Transgenics, knock-outs.
Hartwell Appendix E on the Mouse (Ref. E)
Lecture 7 (PPT) inbred strains, RILs, etc.. HMG II online (15.4, with box and Table)
Festing 2000 ("Mighty Mice" PDF, PMID 10786770), Peters 2007 (PDF, PMID 17173058)

April 15
Paper 2 Buchner et al. 2003.(Presentation PPT)
"SCNM1, a putative RNA splicing factor that modifies disease severity in mice." Science 301:967-969. (Science, PMID 12920299, PDF, SOM).
(no Homework 3, just review)
Lecture 8 Arabidopsis (PPT) Arabidopsis thaliana (Ref. B)

April 17
Lecture 9 more informatics (proteomics, networks, synthetic lethals, etc..)
Lecture 10 gene ontologies, model organism web sites, etc..

April 22
Paper 3 Lolle et al. 2006 (Presentation PPT; paper: Nature, PMID 15785770, PDF) plus Brief Communications Arising (Sept. 1, Sept. 28). Quiz "answers" (pdf).
Homework 4 (answers) is due (presentations).
Lecture 11 (PPT) - C. elegans (Ref. C)

April 24
Lecture 12 genetic interactions, epistasis. (PPT)

Apr. 29
Paper 4 Lehner, Crombie, Tischler, Rotunato and Fraser. 2006. Nature Genetics 38:896-903. "Systematic mapping of genetic interactions in Caenorhabditis elegans identifies common modifiers of diverse signaling pathways. (Presentation PPT [subject to revision]; paper: PMID 16845399, Nature Genetics, PDF; list of presentations)
Lecture 13 (PPT) - Introduce Drosophila, nomenclature, basics, sex determination, epistasis. (Ref. D; Drosophila handout)

May 1
Lecture (full time; continuation of 13) (PPT) - Drosophila: the many uses of P elements, binary systems.
Background methods: Lee and Luo. 1999. "Mosaic analysis with a repressible cell marker for studies of gene function in neuronal morphogenesis." (Neuron, PubMed, PDF)

May 6
Paper 5 (Presentation PPT) -- Metzstein and Krasnow. 2006. PLoS Genetics 2:180. "Functions of the nonsense-mediated mRNA decay pathway in Drosophila development." (PLoS, PMID 17196039, PDF) Homework 5 is due (answers).
Lecture 14 (PPT I can only start this!) Begin population genetics.

May 8
Lecture 14 continued (ppt) Human gene mapping and cloning; Population genetics, Complex traits and advanced mapping (association vs. linkage studies, the hapmap project).  Strachan and Read: Ch. 12: Genetic mapping of complex characters
Readings: Hartwell Chs. 5, 10 and 11; Hawley and Walker Ch. 7; 
Strachan and Read, "Genetic mapping of Mendelian Characters"  
Chalfie "Is the traditional way of teaching three-factor mapping sufficient?" (PubMed ID 9066267 , TIGS, PDF)

May 13
Paper 6 (full time) -- Dog genome paper. Lindblad-Toh et al. 2005 "Genome sequence, comparative analysis and haplotype structure of the domestic dog." Nature 438: 803-19. (Nature, PubMed, PDF, Suppl-text, Suppl-figs; other papers on dogs).
(Presentation PPT; handout with last years homework and answers).