A. Selected publications enabled by the facility's resources and services

Guertin MJ, Lis JT. (2010) Chromatin landscape dictates HSF binding to target DNA elements. PLoS Genet. 9;6(9). pii: e1001114.  PMID: 20844575.

Larschan E, Bishop PE, Kharchenko PV, Core L,  Lis JT, Park PJ, and Kuroda MI (2011)  X chromosome dosage compensation via enhanced transcriptional elongation in Drosophila. Nature, 471: 115-8. PMID: 21368835.

Min IM , Waterfall JJ, CoreLJ, Munro RJ, SchimentiJ, and Lis JT (2011) Regulating RNAPolymerase Pausing and Transcription Elongation in Embryonic Stem Cells.  Genes & Devel., 25: 742-754. PMID: 21460038.

Chopra VS, Hendrix DA, Core LJ, Tsui C, Lis JT, Levine M. (2011) The Polycomb Group Mutant esc Leads to Augmented Levels of Paused Pol II in the Drosophila Embryo. Mol Cell. 42:837-44.  PMID: 21700228.

Hah N, Danko CG., Core LJ, Waterfall JJ,  Siepel A, Lis, JT, and Kraus WL. (2011) Global Analysis of the Immediate Transcriptional Effects of Estrogen Signaling Reveals a Rapid, Extensive, and Transient Response.  Cell 145: 622-34. PMID: 21549415.

Guertin MJ, Martins AL, Siepel A, Lis JT.(2012) Accurate prediction of inducible transcription factor binding intensities in vivo. PLoS Genet. Mar;8(3):e1002610. Epub 2012 Mar 29. PMID: 22479205.

Zhang X, Bolt M, Guertin MJ, Chen W, Zhang S, Cherrington BD, Slade DJ,Dreyton CJ, Subramanian V, Bicker KL, Thompson PR, Mancini MA, Lis JT, CoonrodSA. (2012) Peptidylarginine deiminase 2-catalyzed histone H3 arginine 26 citrullination  facilitates estrogen receptor Œ± target gene activation. Proc Natl Acad Sci  109:13331-6. PMID: 22853951.

Core LJ, Waterfall JJ, Gilchrist DA, Fargo DC, Kwak H, Adelman K, Lis JT. (2012) Defining the Status of RNA Polymerase at Promoters. Cell Reports. Oct 9. pii: S2211-1247(12)00274-4. doi: 10.1016/j.celrep.2012.08.034. [Epub ahead of print] PMID: 23062713.

Kwak H, Fuda NJ, Core LJ, and Lis JT (2013) Precise Maps of RNA Polymerase Reveal How Promoters Direct Initiation and Pausing.  Science, in press.

B. Selected publications with facility staff as coauthors:

Zangerl, B., Q. Sun, J. Pillardy, J. L. Johnson, P. A. Schweitzer, A. G. Hernandez, L. Liu, G. M. Acland, and G. D. Aguirre. (2006) Development and Characterization of a Normalized Canine retinal cDNA Library for Genomic and Expression Studies. Investigative Opthalmology and Visual Science 47:2632-2638.

Needleman, D., D. Adam, M. Detwiler, H. Escobar, J. Kieleczawa, R. Pershard, P. Schweitzer, and G. Wiebe. (2007) DNA Sequencing Research Group: 2006 General Survey of DNA Sequencing Facilities. J. Biomolecular Techniques18: 113 - 119.

Zhu, L., Z. Zhang, F. Feng, P. Schweitzer, J. Phavaphutanon, M. Vernier-Singer, E. Corey,S. Friedenberg, R. Mateescu, A. Williams, G. Lust, G. Acland, and R. Todhunter (2008) Single-nucleotide polymorphisms refine QTL intervals for hip joint laxity in dogs. Animal Genetics 39:141-146.

Kieleczawa, J., D. Adam, D. Bintzler, M. Detwiler, D. Needleman, P. Schweitzer, S. Singh, R. Steen, and M. Zianni. (2009) Identification of Optimal Protocols for Sequencing Difficult Templates: The Results of the 2008 ABRF DSRG Difficult Template Study. J. Biomolecular Techniques 20: 116–127.

Agalliu, I., P. A. Schweitzer, S. M. Leanza, R. D. Burk, and T. E. Rohan. (2009) Illumina DNA Test Panel-Based Genotyping of Whole Genome Amplified DNA Extracted from Hair Samples: Performance and Agreement with Genotyping Results from Genomic DNA from Buccal Cells. Clinical Chemistry and Laboratory Medicine 47:516-522.

Phavaphutanon, J., R. G. Mateescu, K. L. Tsai, P. A. Schweitzer, E. E. Corey, M. A. Vernier-Singer, A. J. Williams, N. L. Dykes, K. E. Murphy, G. Lust, R. J. Todhunter (2009) Evaluation of quantitative trait loci for hip dysplasia in Labrador Retrievers. American Journal of Veterinary Research 70:1094-1101.

Filiatrault, M. J., P. V. Stodghill, P.  A. Bronstein, S. Moll, M. Lindeberg, G. Grills, P. Schweitzer, W. Wang, G. P. Schroth, S. Luo, I. Khrebtukova, Y. Yang, T. Thannhauser, B. G. Butcher, S. Cartinhour, D. J. Schneider. (2010) Transcriptome analysis of Pseudomonas syringae identifies new genes, ncRNAs, and antisense activity. Journal of Bacteriology 192:2359-2372.

Friedenberg, S. G., K. Zhu, Z. Zhang, W. Van Den Berg, W. Foels, P. A. Schweitzer, W. Wang, P. J. Fisher, N. L. Dykes, E. Corey, M. Vernier-Singer, S. Jung, X. Sheng, L. S. Hunter, S. P. McDonough, G. Lust, S. P. Bliss, U. Krotscheck, T. M. Gunn, R. J. Todhunter.  (2011) A fibrillin 2 haplotype associated with canine hip dysplasia and incipient osteoarthritis. American Journal of Veterinary Research 72:530-540.

Rinkevich, F. D., P. A. Schweitzer, J. G. Scott. Antisense sequencing improves the accuracy and precision of A-to-I editing measurements using the peak height ratio method. BMC Research Notes 5:63-68.