Our BYU CS 704R class will discuss the following papers (to be updated throughout the semester):
| Date | Paper | Presenter |
|---|---|---|
| Wed Jan 7 | Aligning gene trees with family trees. Andrii Serdiuk, Claudia Moreau, Jean Mathieu et al. bioRxiv 2025. | Amy |
| Mon Jan 12 | Ancestral haplotype reconstruction in endogamous populations using identity-by-descent. Kelly Finke, Michael Kourakos, Gabriela Brown, et al. PLOS Computational Biology 2021. | Rebekah |
| Wed Jan 14 | Effects of ancestry, agriculture, and lactase persistence on the stature of prehistoric Europeans. Samantha L. Cox, Kaeli Kaymak-Loveless, Carson Shin, et al. Current Biology 2025. | Chahyun |
| Mon Jan 19 | No class: Martin Luther King Day | N/A |
| Wed Jan 21 | Polygenic prediction of educational attainment within and between families from genome-wide association analyses in 3 million individuals. Aysu Okbay, Yeda Wu, Nancy Wang, et al. Nature Genetics 2022. | Wesley |
| Mon Jan 26 | Estimating the size of long tandem repeat expansions from short reads with ScatTR. Rashid Al-Abri and Gamze Gürsoy. Genome Research 2025. | Jason |
| Wed Jan 28 | TBA | Kepler |
| Mon Feb 2 | TBA | TBA |
| Wed Feb 4 | TBA | Parker |
| Mon Feb 9 | TBA | Jeffrey |
| Wed Feb 11 | TBA | Robert |
| Tue Feb 17 | TBA | TBA |
| Wed Feb 18 | TBA | TBA |
| Mon Feb 23 | TBA | TBA |
| Wed Feb 25 | TBA | TBA |
Approach to presenting papers
See this slide for how to structure your presentation. If you’d like more specific guidance, contact Amy Williams to find a time to discuss your presentation before class.
Potential papers to discuss
Parental haplotypes reconstruction in up to 440,209 individuals reveals recent assortative mating dynamics. Robin J. Hofmeister, Davide Marnetto, Théo Cavinato, et al. bioRxiv 2025.
Parent-of-origin effects on complex traits in up to 236,781 individuals. Robin J. Hofmeister, Théo Cavinato, Roya Karimi, et al. Nature 2025.
Allele Frequencies at Recessive Disease Genes are Mainly Determined by Pleiotropic Effects in Heterozygotes. Jonathan Judd, Jeffrey P. Spence, Nikhil Milind, et al. bioRxiv 2025.
Sequence context and methylation interact to shape germline mutation rate variation at CpG sites. Sheel Chandra and Ziyue Gao. bioRxiv 2025.
Modeling the length distribution of gene conversion tracts in humans from the UK Biobank sequence data. Nobuaki Masaki and Sharon R. Browning. PLOS Genetics 2025.
Bayesian inference of population structure using identity-by-descent-based stochastic block models. Steven J. Micheletti, Katarzyna Bryc, Samantha G. Ancona Esselmann, et al. bioRxiv 2025.
Advances in haplotype phasing and genotype imputation. Quan Sun and Yun Li. Nature Reviews Genetics 2025.