Biostat 580B - Statistical Genetics Seminar
1 credit
Spring Quarter 2003
Seminar: Tuesday 4:00-5:00, in F643 HSB
(biostatistics conference room) Note that location is NOT what is
listed in the time schedule!!
Remember the important questions:
Why? What? Why? How? Why? What next? and WHY?
(Why is this question important? What did they do? Why did they choose this approach?
How did they do it? Why did they choose these methods? What should
come next? Why is this paper important? )
Reminder: Everyone should read the papers for weeks in which we read a journal article.
If the paper is available electronically, we will provide the reference, and
you may download your own copy from
the
healthlinks web site,
or through the
UW e-journals page.
If the paper is not available electronically,
the discussion leaders should make 2 copies, and should put one copy in each of the
stat mailbox and the biostat 580B homework folder, preferably a week ahead of time.
The stat mailbox is in the mail room in statistics;
the biostat 580B homework folder is
in the top left drawer underneath the biostat mailboxes in a folder to the far left
as you face the mailboxes.
Others should then make their copies from one of these two copies.
Discussion leaders are only expected to spend 20-30 minutes (jointly)
presenting the assigned paper(s). If you don't understand everything, focus on
what you can, and try to think about what is important about the papers, and
what open questions you are left with.
MAKE SURE YOU LEAVE ADEQUATE TIME FOR
DISCUSSION.
Statistical Genetics Computing in Biostat
Statistical Genetics at UW has
software installed for the use of UW StatGen students and others.
This software is installed and maintained at
our Statgen Biostatistics computing page. To use the software,
a biostat computing account is needed:
Biostat 580B seminar participants may obtain an account through this class.
(Since this is an ongoing class, with ongoing participation by StatGen people
(we hope!), we believe this will lead to less admin headaches for all.)
Please note: Your Biostat computing account given
in connection with
the Statistical Genetics seminar is for learning and exploring the software,
not
for doing your research computing. Your research computing should be done
on computing resources allocated for that purpose.
Spring 2003 SCHEDULE
More detail will follow, but here is a draft schedule for the quarter:
Apr. 1: everyone
This was an organizational meeting to layout speakers
and topics for the quarter. We decided to cover:
- some material on motif prediction
- a series of sessions on Crohn's disease (from start of the study of this
disease to the discovery of the gene)
- a session on design of microarray studies
- I'll talk about my recent work studying the genetics of gene expression
- and a couple of sessions on various aspects of gene duplications as it
pertains to evolution.
Apr. 8: Paul Scheet
- Lawrence, Altschul, et al
"Detecting Subtle Sequence Signals: A Gibbs Sampling Strategy for Multiple
Alignment"
Science, 262: 208-14. (8 Oct '93)
Note that the paper is available through e-journals at UW (link to the older
issues from JSTOR). I've also placed a copy in our biostat folder.
Apr. 15:
Ting-Yuan Liu and Michael Li
- Todd JA (2001) Tackling common disease. Nat 411:537-539
- Chapter excerpt "Genetics of Infammatory Bowel Disease" by Koutroubakis
and Pena in Inflammatory Bowel Diseases 3rd ed.
Apr. 22:
Dongmei Yu, Saonli Basu and Claudia Salinas
- Hugot JP et al. (1996) Mapping of a susceptibility locus for Crohn's disease on chromosome
16. Nature (1996) v.379 p.821-823.
- Cho JH et al. (1998) Identification of novel susceptibility loci for
inflammatory bowel disease on chromosomes 1p, 3q, and 4q: evidence for
epistasis between 1p and IBD1. Proc. Nat. Acad. Sci. 95: 7502-7507, 1998.
- Hampe J et al. (1999) A genomewide analysis provides evidence for
novel linkages in inflammatory bowel disease in a large European cohort.
Am. J. Hum. Genet. 64: 808-816, 1999.
Note that there are a number of other papers on linkages for Crohn's
disease (see
OMIM
266600 for additional information). Here we'll focus on the
initial 3 whole genome scans.
Apr. 29: Amy D. Anderson and Elisabeth Rosenthal
- Hugot JP et al. (2001) Association of NOD2 leucine-rich repeat
variants with susceptibility to Crohn's disease. Nat 411: 599-602
- Ogura Y, Bonen DK et al. (2001) A frameshift mutation in NOD2
associated with susceptibility to Crohn's disease. Nat 411: 603-606
May 6:
Angel Wan and Terri Kim
- Yang YH, Speed T (2002) Design issues for cDNA
microarray experiments. Nat Rev Genet 3:579-588.
May 13: Stephanie Monks
May 20:
Florence Demenais will be visiting from INSERM and will discuss some of her
recent research.
- “Combined segregation-linkage analysis based on
regressive models including linkage disequilibrium and gene x environment
interactions”
May 27: Rob Igo and Joe Rothstein
- Bailey JA et a. 2002 "Recent segmental
duplications in the human genome" Science 297:1003-1007.
June 3: Bill Stewart and Garrett Hellenthal
- Dermitzakis, E.T. and Clark, A.G. (2001) Differential Selection After
Duplication in Mammalian Developmental Genes. Mol. Biol. Evol. 18(4):557-562
For a link to other seminars of related interest,
click here.
Previous Quarters
2003:
Winter
2002:
Winter,
Spring,
Fall
2001:
Winter,
Spring,
Fall
2000:
Winter,
Spring,
Fall
1999:
Winter,
Spring ,
Fall
1998:
Winter,
Spring,
Fall
1997:
Winter,
Spring,
Fall
http://courses.washington.edu/b580b
Last updated:
Saturday, 30-Aug-2003 16:16:03 PDT
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