|Jan 12||cancelled due to Biology seminar|
|Jan 19||MLK Jr Holiday|
|Feb 2||Shai||MacArthur et al., 2014. The Rate of Nonallelic Homologous Recombination in Males Is Highly Variable, Correlated between Monozygotic Twins and Independent of Age. PLoS Genetics.|
|Feb 9||Eduardo||Foll et al. 2014. Widespread signals of convergent adaptation to high altitude in Asia and America. AJHG.|
|Feb 16||Joe||Tomasetti and Vogelstein. 2015. Variation in cancer risk among tissues can be explained by the number of stem cell divisions. Science. Suppl Info.|
|Feb 23||Yuval||Yuen et al. 2015. Whole-genome sequencing of quartet families with autism spectrum disorder. Nature Medicine. Suppl Info.|
|March 2||Sonal||Barber and Elde. 2014. Escape from bacterial iron piracy through rapid evolution of transferrin. Science. Suppl Info.|
|March 9 & 16||No meetings for spring break.|
|March 23||Priya||Mathieson et al. 2015. Eight thousand years of natural selection in Europe. bioRxiv.|
|March 30||Harold de Vladar; Parmenides Foundation. He will be giving a talk in lieu of journal club.|
|April 6||Chen||Polak et al. 2015. Cell-of-origin chromatin organization shapes the mutational landscape of cancer. Nature.Note: we will meet at 10 am.|
|April 13||Guy S.||Charlesworth. 2015. Causes of natural variation in fitness: Evidence from studies of Drosophila populations. PNAS.|
|April 20||Guy S||Continuation of last week; will be at 10 am, bc of Stats talk at 4|
|April 27||Alva||Tung et al. 2015. The genetic architecture of gene expression levels in wild baboons. Elife.|
|May 4||Priya||Helgason et al. 2015. The Y-chromosome point mutation rate in humans. Nat Genet.|
|May 11||Sonal||Corbett-Detig et al. 2015. Natural Selection Constrains Neutral Diversity across A Wide Range of Species. PLoS Biology|
|May 18||David||Lan and Pritchard. 2015. Long-term survival of duplicate genes despite absence of subfunctionalized expression. bioRxiv.|
|May 25||No journal club; Memorial Day|
|June 1||lab meeting in lieu of journal club; Daniel Jordan, Harvard|
|June 8||Guy A.||Dutheil et al. 2009 Ancestral Population Genomics: The Coalescent Hidden Markov Model Approach Genetics.|
|Jan 12||Mark Lipson, Harvard (Note: lab meeting is exceptionally at 3:45 pm, in lieu of journal club.)|
|Jan 19||MLK Jr Holiday|
|Jan 26||Lavanya Kannan, AMNH|
|Feb 2||Tuuli Lappalainen, New York Genome Center & Columbia|
|Feb 16||Elliot Aguilar, “”Evolution of Cultural Systems”, CUNY|
|March 30||Mike Hickerson, CUNY|
|April 13||Yaniv Erlich, Columbia & New York Genome Center – CANCELLED|
|April 20||Guy S [journal club instead of lab meeting; continuation of last week]|
|May 11||Laurent Excoffier, Bern|
|May 25||No lab meeting; Memorial Day|
|Sept 22nd||Chris Nasrallah (NC State)|
|Oct 27th||Judy Cho MD (Mt Sinai)|
|Nov 3||Shai (Pe’er Lab)|
|Sept 15||Guy A.||Inferring human population size and separation history from multiple genome sequences. Nature Gen. Schiffels and Durbin, 2014.|
|Sept 29||Sonal||Comparative population genomics in animals uncovers the determinants of genetic diversity. Nature. Romiguier et al., 2014. Suppl. Info.|
|Oct 13||David||Probabilities of Fitness Consequences for Point Mutations across the Human Genome. bioRxiv. Gulko et al., 2014.|
|Oct 20||Priya||Highly variable recessive lethal or nearly lethal mutation rates during germ-line development of Drosophila melanogaster. PNAS. Gao et al. 2011.|
|Oct 27||Eduardo||The genetics of monarch butterfly migration and warning coloration. Nature. Zhan et al., 2014. Suppl Info.|
|Nov 3||Guy S||(Please see Guy’s email for preprint.)|
|Nov 10||Alva||Mouse tetrad analysis provides insights into recombination mechanisms and hotspot evolutionary dynamics. Nat gen. Cole et al. 2014. Supplementary Information.|
|Nov 17||Priya||Genomic structure in Europeans dating back to at least 36,200 years. Science. Seguin-Orlando et al. 2014. Supplementary Information|
|Nov 24||Yuval||Characteristics of Neutral and Deleterious Protein-Coding Variation among Individuals and Populations. AJHG. Fu et al. 2014.|
|Dec 1||Guy A||Rate and cost of adaptation in the Drosophila genome. bioRxiv. Schiffels et al.|
|Dec 15||Molly||The Red Queen Model of Recombination Hotspots Evolution in the Light of Archaic and Modern Human Genomes. PLoS Genet. Lesecque et al. 2014.|
|Aug 29||Eduardo||Genome-wide scan of 29,141 African Americans finds no evidence of selection since admixture. Bhatia et al. arXiv|
|Aug 22||Priya||Recombination in the Human Pseudoautosomal Region PAR1. Hinch et al. PLoS Genetics 2014.|
|Aug 15||Sonal||Genetics of ecological divergence during speciation. Arnegard et al. Nature 2014.|
|Aug 8||Daniel Hooper||The genomic landscape underlying phenotypic integrity in the face of gene flow in crows. Poelstra et al. Science 2014. (Supplemental Material)|
|Aug 1||None||Statistical Genetics seminar given by Iain Mathieson (Reich lab)|
|July 25||Shai||Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA Huerta-Sanchez et al., Nature 2014. SOM.|
|June 27||Eyal||Poxviruses deploy genomic accordions to adapt rapidly against host antiviral defenses Elde et al., Cell 2012.Rules of engagement: molecular insights from host-virus arms races Daugherty and Malik, Annual Reviews 2012.|
|June 20||none||Statistical Genetics seminar given by Ilan Gronau (Siepel lab, Cornell)|
Precise estimates of mutation rate and spectrum in yeast. Zhu et al. PNAS 2014
|LAB MEETINGS||GIVEN BY:|
|Sept 12||Hila Sheftel, Weizmann Institute — beginning promptly at 9a
Statistical Genetics Seminar to follow
|Aug 15||Daniel Hooper (Price lab, U. Chicago)|
|Aug 1||PJ Perry (Penn State)|
|July 25||Adam Auton (Einstein)|
|June 13||Christina Bergey (Disotell lab, NYU)|
|June 6||none – NYU Annual Symposium in Genomics –|
|May 30||Yuri Pritykin (Singh lab, Princeton)|
|May 9||none – Biology of Genomes –|
|May 2||Eli Stahl (Mount Sinai)|
|April 4||Guy A. *from 10:30-12 in Fairchild 800*|
|Mar 28||Molly Schumer (Andolfatto lab, Princeton)|
|June 6||none||– NYU Annual Symposium in Genomics –|
|May 30||Amy||Transmission Distortion Affecting Human Noncrossover but Not Crossover Recombination: A Hidden Source of Meiotic Drive Odenthal-Hesse et al. PLoS Genet 2014.|
|May 9||none||– Biology of Genomes –|
|May 2||Molly S.||doublesex is a mimicry supergene Kunte et al. Nature 2014.|
|April 25||none||Eimear Kenny (Mount Sinai) @ Statistical Genetics|
|April 18||Joe||LD Score Regression Distinguishes Confounding from Polygenicity in Genome-Wide Association Studies Bulik-Sullivan et al. bioRxiv 2014.|
|April 11||Guy S.||Searching for missing heritability: designing rare variant association studies. Zuk et al. PNAS 2013.|
|Mar 28||Amir||Strong selective sweeps associated with ampliconic regions in great ape X chromosomes Nam et al. arXiv 2014.|
A Genetic Atlas of Human Admixture History. Hellenthal et al. 2014.
Mendelian randomization: prospects, potentials, and limitations. Smith and Ebrahin, 2004.
|Feb 7||Yuval||Evaluating empirical bounds on complex disease genetic architecture. Agarwala et al. Nature Genetics 45: 1418-27.|
|Jan 31||Joe||Joint analysis of functional genomic data and genome-wide association studies of 18 human traits. Joseph Pickrell 2013. bioRxiv. dio: 10.1101/000752.|
|Jan 23||Min||Error-prone polymerase activity causes multinucleotide mutations in humans. Harris and Nielsen 2013.|
|Jan 22||Amy||Practice talk|
Great ape genetic diversity and population history. Prado-Martinez et al. 2013. Nature. 499(7459):471-5.
|Dec 9||Speaker: Pleuni Pennings, Postdoc with Dmitri Petrov|
|Dec 5||Speaker: Anand Bhaskar, Ph.D. student with Yun Song|
|Nov 21||Guy S.||
Why we are not dead one hundred times over. Charlesworth 2013. Evolution. 67(11):3354-61.
|Nov 14||Guy A.||
Contamination of the genome by very slightly deleterious mutations: why have we not died 100 times over? Kondrashov 1995. J Theor Biol. 175(4):583-94.
A Model-Based Analysis of GC-biased Gene Conversion in the Human and Chimpanzee Genomes. Capra et al. 2013. PLoS Genet. 9(8):e1003684.
Evidence of Abundant Purifying Selection in Humans for Recently Acquired Regulatory Functions. Ward and Kellis 2012. Science 337 (6102): 1675-1678.
Comment. Green and Ewing 2013. Science 340 (6133): 682.
Response to comment. Ward and Kellis 2013. Science 340 (6133): 682.
|Oct 15||Amy||Using extended genealogy to estimate components of heritability for 23 quantitative and dichotomous traits. Zaitlen et al. 2013. PLoS Genet. 9(5):e1003520.
|Oct 8||Min||Estimating human mutation rate using autozygosity in a founder population. Campbell et al. 2012. Nat Genet. 44(11): 1277–1281.
Whole-genome sequencing in autism identifies hot spots for de novo germline mutation. Michaelson et al. 2012. Cell 151(7):1431-42. http://www.ncbi.nlm.nih.gov/pubmed/23260136
Revising the human mutation rate: implications for understanding human evolution. Scally and Durbin 2012. Nat Rev Gen 13(10):745-753. http://www.ncbi.nlm.nih.gov/pubmed/22965354
|June 10||Ellen||Genetic recombination is targeted towards gene promoter regions in dogs. Auton et al. 2013. arXiv. http://arxiv.org/abs/1305.6485|
|June 3||Ziyue||Length distributions of identity by descent reveal fine-scale demographic history. Palamara et al. 2012. Am J Hum Genet. 7;91(6):1150.
|May 28||Marie||Recurrent rearrangement during adaptive evolution in an interspecific yeast hybrid suggests a model for rapid introgression. Dunn et al. 2013. PLoS Genet, 9(3):e1003366.
|May 20||Daniel||Hybrid speciation and independent evolution in lineages of alpine butterflies. Nice et al. 2013. Evolution, 67: 1055–1068.
|May 13||Amir||Genomic Tests of Variation in Inbreeding Among Individuals and Among Chromosomes. Schraiber et al. 2012. Genetics. (192): 1477–1482.
|May 6||Wynn||Genetic Architecture of Skin and Eye Color in an African- European Admixed Population. Beleza et al. 2013. PLOS Genet. 9(3): e1003372.
|May 2||Laure||Genomic evidence of rapid and stable adaptive oscillations over seasonal time scales in Drosophila. Bergland et al. 2013. arXiv.
|Apr 24||Daniel||A Y-like social chromosome causes alternative colony organization in fire ants. Wang et al. 2013. Nature 493, 664-668.
|Apr 8||Ziyue||Estimating selection coefficients in spatially structured populations from time series data of allele frequencies. Mathieson et al. 2013. Genetics 193(3), 973-984.
|Apr 2||Keerthi||A framework for variation discovery and genotyping using next-generation DNA sequencing data. DePristo et al. 2011. Nature Genetics 43, 491–498.
|Mar 20||Amir||Human aneuploidy: mechanisms and new insights into an age-old problem. Nagaoka et al. 2012. Nat Rev Genet 13(7):493-504. http://www.ncbi.nlm.nih.gov/pubmed/22705668|
|Mar 4||Wynn||Long-term exposure to antibiotics has caused accumulation of resistance determinants in the gut microbiota of honeybees. Tian et al. 2012. MBio. Oct 30;3(6). http://www.ncbi.nlm.nih.gov/pubmed/23111871|
|Feb 20||Ellen / Laure||A sequence-based approach demonstrates that balancing selection in classical human leukocyte antigen (HLA) loci is asymmetric. Bronson et al. 2013. HumMolGenet 22(2):252-61. http://www.ncbi.nlm.nih.gov/pubmed/23065702|
|Feb 4||Ellen||Discrete genetic modules are responsible for complex burrow evolution in Peromyscus mice. Weber et al. 2013. Nature 493(7432):402-405. http://www.ncbi.nlm.nih.gov/pubmed/23325221|
|Jan 30||Amir||Ancient admixture in human history. Patterson et al. 2012. Genetics 192:1065–1093 http://www.ncbi.nlm.nih.gov/pubmed/22960212|
|Jan 21||Daniel||Practice talk.|
|Jan 14||Laure||Genetic history of an archaic hominin group from Denisova Cave in Siberia. Reich et al. 2010. Nature 468(7327)
|Jan 7||Daniel||Mutations in the neverland Gene Turned Drosophila pachea into an Obligate Specialist Species. Lang et al. 2012. Science 337:1658-1661