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Genome Analysis Unit

Collaborators

Charles Vinson - Laboratory of Metabolism, Gene Regulation

Details forthcoming…

Christopher Buck - Laboratory of Cellular Oncology

Ongoing supportfor efforts to characterize the viral populations present in samples derived from patient “swabs” via deep sequencing (MiSeq). Efforts also focus on discovering novel viruses. 

Publications

Peretti A, FitzGerald PC, Bliskovsky V, Pastrana DV, Buck CB. Genome Sequence of a Fish-Associated Polyomavirus, Black Sea Bass (Centropristis striata) Polyomavirus 1. Genome Announc. 2015 Jan 29;3(1). Peretti A, FitzGerald PC, Bliskovsky V, Buck CB, Pastrana DV. Hamburger polyomaviruses. J Gen Virol. 2015 Jan 7. Pastrana DV, Fitzgerald PC, Phan GQ, Raiji MT, Murphy PM, McDermott DH, Velez D, Bliskovsky V, McBride AA, Buck CB. A divergent variant of the eleventh human polyomavirus species, saint louis polyomavirus. Genome Announc. 2013 Oct 24;1(5). Pastrana DV, Buck CB, Pang YY, Thompson CD, Castle PE, FitzGerald PC, Krüger Kjaer S, Lowy DR, Schiller JT.(2004): Reactivity of human sera in a sensitive, high-throughput pseudovirus-based papillomavirus neutralization assay for HPV16 and HPV18. Virology. Apr 10;321(2):205-16.

David FitzGerald - Laboratory of Molecular Biology

Details forthcoming…

Publications

Gottesman S, McCullen CA, Guillier M, Vanderpool CK, Majdalani N, Benhammou J, Thompson KM, FitzGerald PC, Sowa NA, FitzGerald DJ. (2006):  Small RNA regulators and the bacterial response to stress. Cold Spring Harb Symp Quant Biol. 71:1-11. Review. Wilderman PJ, Sowa NA, FitzGerald DJ, FitzGerald PC, Gottesman S, Ochsner UA, Vasil ML.(2004): Identification of tandem duplicate regulatory small RNAs in Pseudomonas aeruginosa involved in iron homeostasis. Proc Natl Acad Sci U S A. Jun 29;101(26):9792-7. Epub 2004 Jun 21.

Elizabeth Conner - Seq37 CCR Genomics Core

Details forthcoming…

Mikhail Kashlev - RNA Biology Laboratory

Genome-wide RNET-seq studies to identify and characterize RNA polymerase pause sites in Bacillus subtilis, E. coli and Homo sapiens

Haobin Chen - Thoracic Surgery Branch

This collaboration involved the development of a DNAnexus pipeline to satisfy the specific needs of this group, but to the view to making this resource more generally available, initially to the CCR community and eventually the DNAnexus scientific community at large.