Publications
Publications
Supporting the scientific spirit of transparency, the Stowers Institute for Medical Research makes the data underlying its scientific publications freely accessible to the scientific community. Access to original, unprocessed data allows other scientists to validate and extend findings made by Stowers researchers.
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Poised RNA Polymerase II Changes over Developmental Time and Prepares Genes for Future Expression.
Gaertner B, Johnston J, Chen K, Wallaschek N, Paulson A, Garruss AS, Gaudenz K, De Kumar B, Krumlauf R, Zeitlinger J. Cell Rep. 2012;2:1670-1683.
Genetic analysis of Mps3 SUN domain mutants in Saccharomyces cerevisiae reveals an interaction with the SUN-like protein Slp1.
Friederichs JM, Gardner JM, Smoyer CJ, Whetstine CR, Gogol M, Slaughter BD, Jaspersen SL. G3 (Bethesda). 2012;2:1703-1718.
A Genetic Screen to Discover Pathways Affecting Cohesin Function in Schizosaccharomyces pombe Identifies Chromatin Effectors.
Chen Z, McCroskey S, Guo W, Li H, Gerton JL. G3 (Bethesda). 2012;2:1161-1168.
Chromatin remodelers Isw1 and Chd1 maintain chromatin structure during transcription by preventing histone exchange.
Smolle M, Venkatesh S, Gogol MM, Li H, Zhang Y, Florens L, Washburn MP, Workman JL. Nat Stuct Mol Biol. 2012;19:884-892.
HP1a targets the Drosophila KDM4A demethylase to a subset of heterochromatic genes to regulate H3K36me3 levels.
Lin C-H, Paulson A, Abmayr SM, Workman JL. PLoS One. 2012:e39758.
Cohesin proteins promote ribosomal RNA production and protein translation in yeast and human cells.
Bose T, Lee KK, Lu S, Xu B, Harris B, Slaughter B, Unruh J, Garrett A, McDowell W, Box A, Li H, Peak A, Ramachandran S, Seidel C, Gerton JL. PLoS Genet. 2012;8:e1002749.
Characterization of a highly conserved histone related protein, ydl156w, and its functional associations using quantitative proteomic analyses.
Gilmore JM, Sardiu ME, Venkatesh S, Stutzman B, Peak A, Seidel CW, Workman JL, Florens L, Washburn MP. Mol Cell Proteomics. 2012;11:M111 011544.
A Whole-Chromosome Analysis of Meiotic Recombination in Drosophila melanogaster.
Miller DE, Takeo S, Nandanan K, Paulson A, Gogol MM, Noll AC, Perera AG, Walton KN, Gilliland WD, Li H, Staehling KK, Blumenstiel JP, Hawley RS. G3 (Bethesda). 2012;2:249-260.
Effects of a 28-Day Cage-Change Interval on Intracage Ammonia Levels, Nasal Histology, and Perceived Welfare of CD1 Mice.
Vogelweid CM, Zapien KA, Honigford MJ, Li L, Li H, Marshall H. J Am Assoc Lab Anim Sci. 2011;50:868-878.
Dynamic transcriptional events in embryonic stem cells mediated by the super elongation complex (SEC).
Lin C, Garrett AS, De Kumar B, Smith ER, Gogol M, Seidel C, Krumlauf R, Shilatifard A. Genes Dev. 2011;25:1486-1498.
Rupture of thin liquid films: Generalization of weakly nonlinear theory.
Rubinstein BY, Leshansky AM. Phys Rev E Stat Nonlin Soft Matter Phys. 2011;83:031603.
Targeting of the SUN protein Mps3 to the inner nuclear membrane by the histone variant H2A.Z.
Gardner JM, Smoyer CJ, Stensrud ES, Alexander R, Gogol M, Wiegraebe W, Jaspersen SL. J Cell Biol. 2011;193:489-507.
Modular coherence of protein dynamics in yeast cell polarity system.
Gao JT, Guimera R, Li H, Pinto IM, Sales-Pardo M, Wai SC, Rubinstein B, Li R. Proc Natl Acad Sci U S A. 2011;108:7647-7652.
High conservation of transcription factor binding and evidence for combinatorial regulation across six Drosophila species.
He Q, Bardet AF, Patton B, Purvis J, Johnston J, Paulson A, Gogol M, Stark A, Zeitlinger J. Nat Genet. 2011;43:414-420.
Capillary Pressure Curve for Liquid Menisci in a Cubic Assembly of Spherical Particles Below Irreducible Saturation.
Bear J, Rubinstein B, Fel L. Transport In Porous Media. 2011;89:63-73.
Prp8, the pivotal protein of the spliceosomal catalytic center, evolved from a retroelement-encoded reverse transcriptase.
Dlakic M, Mushegian A. RNA. 2011;17:799-808.
Evolutionarily conserved orthologous families in phages are relatively rare in their prokaryotic hosts.
Kristensen DM, Cai X, Mushegian A. J Bacteriol. 2011;193:1806-1814.
A polynomial-time algorithm computing lower and upper bounds of the rooted subtree prune and regraft distance.
Kannan L, Li H, Mushegian A. J Comput Biol. 2011;18:743-757.
Features of cryptic promoters and their varied reliance on bromodomain-containing factors.
Pattenden SG, Gogol MM, Workman JL. PLoS One. 2010;5:e12927.
Statistical analysis of nondisjunction assays in Drosophila.
Zeng Y, Li H, Schweppe NM, Hawley RS, Gilliland WD. Genetics. 2010;186:505-513.
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Identification and Localization of Cell Types in the Mouse Olfactory Bulb Using Slide-SeqV2
Fang A, Petentler K, Price A, Malloy S, Maddera C, Russell J, Treese M, Li H, Wang Y, McKinney S, Perera A, Yu CR. Methods Mol Biol. 2023;2710:171-183. Published Erratum Methods Mol Biol. 2023;2710:C1. doi: 10.1007/978-1-0716-3425-7_17.
Manipulation of Gene Activity in the Regenerative Model Sea Anemone, Nematostella vectensis
Hill EM, Chen CY, Del Viso F, Ellington LR, He S, Karabulut A, Paulson A, Gibson MC. Methods Mol Biol. 2022;2450:437-465.
Using fluorescent reporters in conjunction with cytometry and statistics to assess nuclear accumulation of ribosomal proteins
Kim DH, Box AC, Li H, Gerton JL. Methods Mol Biol.2017;1515:217-226.
Sec66-Dependent Regulation of Yeast Spindle-Pole Body Duplication Through Pom152.
Katta SS, Chen J, Gardner JM, Friederichs JM, Smith SE, Gogol M, Unruh JR, Slaughter BD, Jaspersen SL. Genetics. 2015;201:1479-1495
The Origin and Evolution of G Protein-Coupled Receptor Kinases.
Mushegian A, Gurevich VV, Gurevich EV. PLoS One. 2012;7:e33806.
Grand challenges in bioinformatics and computational biology.
Mushegian A. Front Genet. 2011;2:60.
Computational methods for Gene Orthology inference.
Kristensen DM, Wolf YI, Mushegian AR, Koonin EV. Brief Bioinform. 2011;12:379-391.
Thematic minireview series on computational systems biology.
Mushegian A, Conaway JW. J Biol Chem. 2011;286:23621-23622.
