THIS SCHEDULE IS PRELIMINARY, AND SUBJECT TO CHANGE
Stuff we might do after the stuff already moved down to the tentative schedule:
We decided not to do this:
Two-locus theory:
Background 2.10, up to (2.94)
Basic theory 6.1-6.3: Pp 201-203, 204-207 (top), 207-209
Genetic modifiers 6.5: Pp 221-223 (6.65), 223-225 (mis), 225-227.
Hitchhiking 6.7: Pp 230-232 (Assoc ovedominance), 232-234 (top)
Evolutionary advantage of recombination: 6.8: 235-237, 237-239
The coalescent Ch 10: it wd be nice to do 10.6
Testing neutral theory: Ch 11 -- we will do 11.3
| Tues, Jan 4 |
Overview of the book: evolutionary theories Random mating and random union of gametes One-locus, 2-alleles; mutation-selection balance |
Elizabeth: (people shd read secs 1.6, 1.7) Elizabeth: 1.2, 2.2 Elizabeth: part of 1.4.1 (Pp 11-13, 15-16) |
| Thurs, Jan 6 |
Times spent in allele frequency ranges Genetic variance formulation The MFIT theorem Intro to the stochastic theory |
Adele: 1.4.1 Pp.13-14 Paul: 1.3 (part) Pp. 7-8 Bill: 1.4.1 P. 16-18 Arindam: 1.4.3 P.20-23 |
| - | ||
| Tues, Jan 11 |
1.4.3 Fixation and loss: times and probabilties 1.5 Evolved phenomena 2.4 Selection with multiple alleles |
Saonli: Pp. 23-27 Garrett Grace: Pp 49-50 (People read p.50) |
| Thurs, Jan 13 |
2.4 ctd: multiple alleles partition of variance 2.8 MFIT in non-random-mating pops 2.9 FTNS (one locus) |
Grace: Pp 51-52 Liping Bertrand : See also Edwards on FTNS |
| - | ||
| Tues, Jan 18 |
2.11 Genetic load 3.2 Wright-Fisher model: two alleles |
Elizabeth Adele : Pp 92-95 |
| Thurs, Jan 20 | Alun Thomas will give talk | |
| - | ||
| Tues, Jan 25 |
3.2 Wright-Fisher model: two alleles (ctd) |
Arindam: Pp 95-97 Paul : Pp 97-99 (See also: Ewens (1969)) |
| Thurs, Jan 27 |
3.3 Cannings models: two alleles |
Saonli: Pp 99-102 Garrett: Pp 102-104 For a probability ref, see Shiriyayev |
| - | ||
| Tues, Feb 1 |
3.4 Moran model : two alleles |
Grace: Pp 104-106 Yunju: PP107-109. |
| Thurs, Feb 3 |
3.6 Infinite-alleles models 3.6.2: Wright-Fisher 3.6.2 ctd.: |
Paul : Pp 111-113 Bertrand Pp 114-117 |
| - | ||
| Tues, Feb 8 |
3.6.4: Moran model 3.7 Effective Pop size Pp 119-122 ctd: Pp 123-127. |
Bill Pp 119-122 Adele Pp 119-122 Liping Pp 123-127 |
| Thurs, Feb 10 |
ctd: Pp 123-127. ctd: Chapter 9: Molecular Population Genetics 9.3.1 Infinite alleles: Wright-Fisher 9.3.2 Infinite alleles: Moran |
Liping (ctd) All read 9.1, 9.2 Yunju Pp 292-294 Grace Pp 294-296 |
| - | ||
| Tues, Feb 15 |
9.3.2 Infinite alleles: Moran (ctd) 9.4.1-2 Infinite sites W-F 9.4.2-3 Infinite sites: W-F and Moran |
Grace ctd. Garreth Pp 297-299 (to (9.21)) Saonli Pp 299-301 |
| Thurs, Feb 17 |
9.4.3 ctd: 9.5.2 Sample properties W-F 9.5.2 ctd: Pp 303-306 |
Saonli Pp 299-301 (ctd) Arindam Pp. 301-303 (to (9.35)) Bill Pp. 303-306 |
| - | ||
| Tues, Feb 22 | Class deferred to March 15 | I AM IN UK |
| Thurs, Feb 24 | Class deferred to March 17 | I AM IN UK |
| - | ||
| Tues, Mar 1 |
9.5.3 Pp 306-308 9.6.1,2 (to top 310) ctd 310 to 312 (9.67) |
Bertrand Pp. 306-308 Liping Pp 308-310 Grace Pp 310-312 |
| Thurs, Mar 3 |
ctd 310 to 312 (9.67) ctd 312-314 |
Grace Pp 310-312 Arindam |
| - | ||
| Tues, Mar 8 |
9.8 Population structure 9.6.3 Moran model: infinite sites 9.7 Relation between inf alleles and inf sites |
Adele Pp. 319-320 Paul Garrett Pp. 316-319 |
| Thurs, Mar 10 |
9.9 Ages of alleles: size-biased sampling ctd Population properties ctd Sample properties |
Saonli to 322 Yunju ctd 323-325 (mid) Elizabeth: ctd 325-327 |
| - | ||
| Tues, Mar 15 |
9.9 ctd Sample properties 11.3.1-2: Estimators of theta 11.3.3-4: Tajima-like tests |
Elizabeth: See Kelly Chapter 7 Paul Pp. 355-358 Grace Pp. 359-362 |
| Thurs, Mar 17 |
11.3.5-6: Selective sweep; infinite alleles vs sites 11.3.7-9; several unlinked loci; unlinked sites |
Bill Pp.362-365 Arindam Pp. 366-369 |
| - |