Recommended Readings: Stephen Quake, Ph.D. November 12

Special Seminar Series
Wednesday, November 12, 2014,
4:00 p.m., Carson Family Auditorium (CRC)

Stephen Quake, Ph.D.
Lee Otterson Professor,
Bioengineering and Applied Physics,
Stanford University
Howard Hughes Medical Institute

Single Cell Genomics

Recommended Readings

Empirical Papers

Ashley, E. a, Butte, A. J., Wheeler, M. T., Chen, R., Klein, T. E., Dewey, F. E., … Altman, R. B. (2010). Clinical assessment incorporating a personal genome. Lancet, 375(9725), 1525–1535. doi:10.1016/S0140-6736(10)60452-7

Fan, H. C., Gu, W., Wang, J., Blumenfeld, Y. J., El-Sayed, Y. Y., & Quake, S. R. (2012). Non-invasive prenatal measurement of the fetal genome. Nature, 487(7407), 320–324. doi:10.1038/nature11251

Pushkarev, D., Neff, N. F., & Quake, S. R. (2009). Single-molecule sequencing of an individual human genome. Nature Biotechnology, 27(9), 847–850. doi:10.1038/nbt.1561

Wang, J., Fan, H. C., Behr, B., & Quake, S. R. (2012). Genome-wide single-cell analysis of recombination activity and de novo mutation rates in human sperm. Cell, 150(2), 402–412. doi:10.1016/j.cell.2012.06.030

Review Papers

Kalisky, T., Blainey, P., & Quake, S. R. (2011). Genomic analysis at the single-cell level. Annual Review of Genetics, 45, 431–445. doi:10.1146/annurev-genet-102209-163607

Melin, J., & Quake, S. R. (2007). Microfluidic large-scale integration: the evolution of design rules for biological automation. Annual Review of Biophysics and Biomolecular Structure, 36, 213–231. doi:10.1146/annurev.biophys.36.040306.132646

Recommended Readings: Beatrice H. Hahn, M.D.

Friday Lecture Series

Maclyn McCarty Memorial Lecture

Great Ape Reservoirs of Human AIDS and Malaria

Beatrice H. Hahn, M.D., professor, departments of medicine and microbiology,

University of Pennsylvania

 January 25, 2012

3:45 p.m.-5:00 p.m. (Refreshments, 3:15 p.m., Abby Lounge)

Caspary Auditorium

Recommended Readings

Keele, B. F., J. H. Jones, K. A. Terio, J. D. Estes, R. S. Rudicell, M. L. Wilson, Y. Li, et al. 2009. “Increased Mortality and AIDS-Like Immunopathology in Wild Chimpanzees Infected with SIVcpz.” Nature 460 (7254): 515-519

Lee, H. Y., E. E. Giorgi, B. F. Keele, B. Gaschen, G. S. Athreya, J. F. Salazar-Gonzalez, K. T. Pham, et al. 2009. “Modeling Sequence Evolution in Acute HIV-1 Infection.” Journal of Theoretical Biology 261 (2): 341-360

Liu, J., B. F. Keele, H. Li, S. Keating, P. J. Norris, A. Carville, K. G. Mansfield, et al. 2010. “Low-Dose Mucosal Simian Immunodeficiency Virus Infection Restricts Early Replication Kinetics and Transmitted Virus Variants in Rhesus Monkeys.” Journal of Virology 84 (19): 10406-10412

Liu, W., Y. Li, G. H. Learn, R. S. Rudicell, J. D. Robertson, B. F. Keele, J. -B N. Ndjango, et al. 2010. “Origin of the Human Malaria Parasite Plasmodium Falciparum in Gorillas.” Nature 467 (7314): 420-425

Rayner, J. C., W. Liu, M. Peeters, P. M. Sharp, and B. H. Hahn. 2011. “A Plethora of Plasmodium Species in Wild Apes: A Source of Human Infection?” Trends in Parasitology 27 (5): 222-229

Sharp, P. M. and B. H. Hahn. 2010. “The Evolution of HIV-1 and the Origin of AIDS.” Philosophical Transactions of the Royal Society B: Biological Sciences 365 (1552): 2487-2494


White House Bioethics Committee Addressing Genomic Data

NEW YORK (GenomeWeb News) – The Presidential Commission for the Study of Bioethical Issues has begun looking into the ethical concerns brought about by whole genome sequencing, and in particular wants to know what policies may best enable researchers to use genomic data while protecting individual privacy.   more…..