Statistical and Computational Genetics Seminar, Spring 2016

BTRY 7200
Statistical and Computational Genetics
Spring 2016

Time: Tuesdays 2:30-3:20pm
Location: Weill Hall 121
Instructor Amy Williams, 102G Weill Hall
Class mailing list Subscribe by sending an email to with the word ‘join’ in the subject

Course description: BTRY 7200 is a graduate seminar on statistical and computational genetics. It has a journal club format in which students, postdocs, and faculty meet to discuss a scientific paper each week. At the beginning of each meeting, one person provides a summary of the paper to be discussed and then all individuals in the class participate in discussion of the paper. Individuals enrolled or participating in this course are expected to present for one week during the term. A list of potential papers for discussion is given below; the presenter has the option of selecting either a paper listed here or can select another paper with permission from the instructor.

Course credit: This course is graded S/U, to receive a satisfactory grade, students must: (1) lead the discussion of a paper on one week and (2) attend class and participate in the discussion.

Presentation schedule:

Date Paper Presenter
February 2 A reference panel of 64,976 haplotypes for genotype imputation.
Shane McCarthy, Sayantan Das, Warren Kretzschmar, et al. bioRxiv, 2015.
Amy Williams
February 9 Estimating the Ages of Selection Signals from Different Epochs in Human History. Shigeki Nakagome, Gorka Alkorta-Aranburu, Roberto Amato, et al. Molecular Biology and Evolution, 2015. Kaixiong Ye
February 23 An Ancestry Based Approach for Detecting Interactions. Danny Park, Itamar Eskin, Eun Yong Kang, Eric R Gamazon, et al. bioRxiv, 2016. Monica Ramstetter
March 1 Genome-wide patterns of selection in 230 ancient Eurasians. Iain Mathieson, Iosif Lazaridis, Nadin Rohland, Swapan Mallick, Nick Patterson, et al. Nature, 2015. Nathan Oakes
March 8 Genotype Imputation with Millions of Reference Samples. Brian L. Browning, Sharon R. Browning. American Journal of Human Genetics, 2016. Amy Williams
March 15 Health and population effects of rare gene knockouts in adult humans with related parents. Vagheesh M. Narasimhan, Karen A. Hunt, Dan Mason, Christopher L. Baker, et al. Science, 2016. Zachary Stansell
March 22 The phenotypic legacy of admixture between modern humans and Neandertals. Corinne N. Simonti, Benjamin Vernot, Lisa Bastarache, Erwin Bottinger, et al. Science, 2016. Melissa Hubisz
April 5 Genome-wide patterns and properties of de novo mutations in humans. Laurent C Francioli, Paz P Polak, Amnon Koren, Androniki Menelaou, et al. Nature Genetics, 2015. Maryn Carlson
April 12 Fast principal components analysis reveals convergent evolution of ADH1B gene in Europe and East Asia. Kevin J Galinsky, Gaurav Bhatia, Po-Ru Loh, Stoyan Georgiev, Sayan Mukherjee, Nick J Patterson, Alkes L Price. AJHG, 2016. Kaixiong Ye
April 19 A Genealogical Look at Shared Ancestry on the X Chromosome. Vince Buffalo, Stephen M. Mount, Graham Coop. bioRxiv, 2016. Sayantani Basu Roy
April 26 Recombination in diverse maize is stable, predictable, and associated with genetic load. Eli Rodgers-Melnick, Peter J. Bradbury, Robert J. Elshire, Jeffrey C. Glaubitz, Charlotte B. Acharya, Sharon E. Mitchell, Chunhui Li, Yongxiang Li, and Edward S. Buckler. PNAS, 2015. Ariel Chan
May 3 Genomic Characterization of Large Heterochromatic Gaps in the Human Genome Assembly. Nicolas Altemose, Karen H. Miga, Mauro Maggioni, Huntington F. Willard. PLOS Comput Biol, 2014. Mike McGurk
May 10 Punctuated bursts in human male demography inferred from 1,244 worldwide Y-chromosome sequences.G David Poznik, Yali Xue, Fernando L Mendez, Thomas F Willems, Andrea Massaia, et al. Nature Genetics, 2016. Stephanie Hilz