Recommended Readings: Joan A. Steitz, Ph.D. Friday January 5th, 2018

Friday Lectures

Friday, January 5, 2018  3:45 p.m.

Caspary Auditorium

Joan A. Steitz, Ph.D.

Sterling Professor

Molecular Biophysics and Biochemistry

Yale University

RNA Triple Helices in Cellular and Viral Biology

 

Recommended Readings:

Science News

Michael White. Oct 17, 2017. The Women Who Should Win the Nobel Prize—but Haven’t. PacificStandard

Empirical Articles

Brown, Jessica A.; Kinzig, Charles G.; DeGregorio, Suzanne J.; et al. (2016). Methyltransferase-like protein 16 binds the 3 ‘-terminal triple helix of MALAT1 long noncoding RNA. PNAS. 113 (49): 14013-14018

Brown, Jessica A.; Kinzig, Charles G.; Degregorio, Suzanne J.; et al. (2016). Hoogsteen-position pyrimidines promote the stability and function of the MALAT1 RNA triple helix. RNA. 22 (5): 743-749

Brown, Jessica A.; Bulkley, David; Wang, Jimin; et al. (2014). Structural insights into the stabilization of MALAT1 noncoding RNA by a bipartite triple helix. NATURE STRUCTURAL & MOLECULAR BIOLOGY. 21 (7): 633-640

Guo, Yang Eric; Riley, Kasandra J.; Iwasaki, Akiko; et al. (2014). Alternative Capture of Noncoding RNAs or Protein-Coding Genes by Herpesviruses to Alter Host T Cell Function. MOLECULAR CELL. 54 (1): 67-79

Brown, Jessica A.; Valenstein, Max L.; Yario, Therese A.; et al. (2012). Formation of triple-helical structures by the 3 ‘-end sequences of MALAT1 and MEN beta noncoding RNAs. PNAS. 109 (47): 19202-19207

Borah, Sumit; Darricarrere, Nicole; Darnell, Alicia; et al. (2011). A Viral Nuclear Noncoding RNA Binds Re-localized Poly(A) Binding Protein and Is Required for Late KSHV Gene Expression. PLOS PATHOGENS. 7 (10)

Mitton-Fry, Rachel M.; DeGregorio, Suzanne J.; Wang, Jimin; et al. (2010). Poly(A) Tail Recognition by a Viral RNA Element Through Assembly of a Triple Helix. SCIENCE. 330 (6008): 1244-1247

Review Papers

Tycowski, Kazimierz T.; Guo, Yang Eric; Lee, Nara; et al. (2015). Viral noncoding RNAs: more surprises. GENES & DEVELOPMENT. 29 (6): 567-584

Cech, Thomas R.; Steitz, Joan A. (2014). The Noncoding RNA Revolution-Trashing Old Rules to Forge New Ones. CELL. 157 (1): 77-94

Recommended Readings: Stephen Quake, Ph.D., October 19th

Monday Lecture Series
Monday, October 19, 2015
4:00 p.m., Carson Family Auditorium (CRC)

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

Single Cell Genomics

Recommended Readings

Empirical Articles

Braslavsky, I., Hebert, B., Kartalov, E., & Quake, S. R. (2003). Sequence information can be obtained from single DNA molecules. Proceedings of the National Academy of Sciences, 100(7), 3960-3964. doi:10.1073/pnas.0230489100.

Dalerba, P., Kalisky, T., Sahoo, D., Rajendran, P. S., Rothenberg, M. E., Leyrat, A. A., … & Quake, S. R. (2011). Single-cell dissection of transcriptional heterogeneity in human colon tumors. Nature Biotechnology, 29(12), 1120-1127. doi:10.1126/science.1150427.

Fan, H. C., Wang, J., Potanina, A., & Quake, S. R. (2011). Whole-genome molecular haplotyping of single cells. Nature Biotechnology, 29(1), 51-57. doi:10.1038/nbt.1739.

Harris, T. D., Buzby, P. R., Babcock, H., Beer, E., Bowers, J., Braslavsky, I., … & Xie, Z. (2008). Single-molecule DNA sequencing of a viral genome. Science, 320(5872), 106-109. doi:10.1038/nbt.2038.

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.