Biostat 580B - Statistical Genetics Seminar
1 credit
Fall Quarter 2002
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.
Autumn 2002 SCHEDULE
Oct. 1:
As usual, we will use this first session of the year to identify topics,
to decide how we we want to run the seminar this year, and to set up the
schedule for fall quarter. Please bring (in writing) your ideas for topics
you would like to see us discuss. Also bring any ideas you may have regarding
how you would like to see the seminar run. We may want to try some new
approaches this year. (First year students: these latter two
tasks are optional, since you may very well have no opinions yet).
Oct. 8: Jackie Starr:
Maternal genetics as risk factors for offspring
disease: the log-linear approach to case-parent triads and other
alternative study designs.
related references:
- Weinberg CR, et al (1998) A log-linear approach to
case-parent-tirad data: assessing effects of disease genes that act either
directly or through maternal effects and that may be subject to parental
imprinting. Am J Hum Genet 62:969-978.
- Wilcox A, et al (1998) Distinguishing the effects of maternal and
offspring genes through studies of case-parent triads. Am J Epidemiol
148:893-901.
Oct. 15: Michael Li
Linkage disequilibrium mapping with the coalescent.
Oct. 22: Amy Anderson and Ting-Yuan Lin
Huang SP, Weir BS (2001)
Estimating the total number of alleles using a sample coverage method.
GENETICS 159 (3): 1365-1373.
Oct 29: Joe Rothstein and Grace Ge
Huang and Weir, continued.
Nov. 5: Saonli Basu and Paul Scheet will both give works-in-progress
talks.
Saonli will give a talk that she will be presenting at the IGES
meeting, entitled "Allele sharing methods in large pedigrees".
Paul will give a talk entitled "Improving Polyphred, software
for SNP detection and genotyping"
Nov. 12: Rich Jensen and Angel Wan
K Rohde and R Fuerst (2001) Haplotyping and estimation of
haplotype frequencies for closely linked biallelic multilocus genetic
phenotypes including nuclear family information. Human Mutation
17:289-295.
Nov. 19: Kyle Rudser and Rob Igo
Rohde and Fuerst, continued.
Nov. 26: James Dai and Dongmei Yu
Trikka D, Fang Z, Renwick A, Jones SH, Chakraborty R, Kimmel M, Nelson DL. Complex SNP-based haplotypes in three
human helicases: Implications for cancer association studies GENOME RESEARCH 12 (4): 627-639 APR 2002
Dec 3: Caroline Cutting and Solly Sieberts
Dec 10: A debate, led by Bill Stewart
The three general topics for the debate are:
1- Traditional linkage analysis -vs- Assoc. studies
(Which is better for mapping complex traits????)
2- Microsatellites -vs- SNPs
(What do we want from our genetic markers???)
3- How best can we incorporate microarray data into
either linkage or association studies??
Of course, each of the three topics have many subdivisions, and I have
intentionally chosen the above (possibly unanswerable) questions to
stimulate discussion.
In between cutting commentary, I would also like to expose the group to
some of what happend at Rockefeller Univ. last week. All in all, this should
give everyone enough to do for the hour.
For a link to other seminars of related interest,
click here.
Previous Quarters
1997:
Winter,
Spring,
Fall
1998:
Winter,
Spring,
Fall
1999:
Winter,
Spring ,
Fall
2000:
Winter,
Spring,
Fall
2001:
Winter,
Spring,
Fall
2002:
Winter
Spring
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