Biostat 580B - Statistical Genetics Seminar
Winter Quarter 2007
Seminar: Tuesday 4:00-5:00, probably in F643 HSB
CURRENT SCHEDULE
January 9
First 40 minutes: Liping Tong will talk about her new methods
for MCMC sampling of inheritance patterns on pedigrees.
Last 20 minutes: Organizational meeting
Bring, written down on a piece of paper, general topic(s) you would be
interested in reading about that are pertinent to the broad field of
statistical genetics. If you have any specific articles from the
literature to suggest, write those down as well. We will (as usual) pick
one or more areas for literature review, for weeks in which we do not
have a research presentation, and we will set up the rest of the quarter's
schedule.
List of topics from Jan 9 meeting
January 16: Amy Anderson and Sansoon Wu: Copy number variation
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1) A survey paper:
Redon R, Ishikawa S, Fitch KR, et al. (2006)
Global variation in copy number in the human genome
NATURE 444 (7118): 444-454 (23 Nov 2006)
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2) Copy-number-variation in relation to human traits:
Sharp et al. and Eichler (2006)
Discovery of previously unidentified genomic disorders from the
duplication architecture of the human genome
Nature Genetics - 38, 1038 - 1042 (13 Aug 2006)
January 23; Yanming Di and Grace Ge; Complex traits; Candidate genes
January 30; Carolyn Hutter and Yoonha Choi; Genome-wide Assoc Studies
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Van Steen K, et al. (2005)
Genomic screening and replication using the same data
set in family-based association testing.
Nat Genet. 2005 Jul;37(7):683-91.
Two other papers that provide some background and motivation are
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Laird and Lange (2006)
" review paper that gives some good background on this subject"
Nature Reviews, Genetics (May 2006) 7: 385- 394.
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Herbert et al (2006)
"the method from Van Steen et al is used to identify a gene for obesity."
Science 312: 279.
February 6; Audrey Fu ; modelling LD for assoc studies
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S. Browning (2006)
Multilocus association mapping using variable-length Markov chains.
AJHG 78: 903-913
February 13; Elisabeth Rosenthal; Research Talk;
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Linkage Analysis of Quantitative Traits Allowing for Multiallelic QTL
Using Reversible Jump MCMC, a work in progress.
February 20: Pui Yee Fong and Cara Carty: MDR for gene-gene interaction
Main paper will be the early introduction and application of MDR
by its original inventors:
Here are two other relevant papers. The first is a recent review paper, also
by Ritchie. However, only the abstract is available through UW. Cara and Pui
Yee may give us some background from this paper.
-
Motsinger AA, Ritchie MD. (2006)
Multifactor dimensionality reduction: an analysis strategy for modelling and
detecting gene-gene interactions in human genetics and pharmacogenomics
studies.
Hum Genomics. 2: 318-28.
The second is a recent application, combining MDR with other approaches
to get an overall paradigm. The results with regard to MDR are negative,
so it turns out not very interesting in that regard, but may be of interest
to some in terms of where these methods are heading applicationwise.
-
Ashley-Koch et al. (2006)
An Analysis Paradigm for Investigating Multi-locus Effects in Complex Disease:
Examination of Three GABAA Receptor Subunit Genes on 15q11-q13 as Risk Factors
for Autistic Disorder.
Ann.Hum. Genet. 70: 281--292.
February 27: Charla Lambert; Research Talk
- Inferring the evolutionary history of the Duffy-O mutation
March 6; Chad Brock and Dustin Weems; Genome scans for selection