URMC / Labs / Hayes Lab / Publications Recent Publications Fang HWei SLee THHayes JJ (2016 Nov 02). Chromatin structure-dependent conformations of the H1 CTD. Nucleic acids research. Mishra LNPepenella SRogge RHansen JCHayes JJ (2016 Oct 06). Acetylation Mimics Within a Single Nucleosome Alter Local DNA Accessibility In Compacted Nucleosome Arrays. Scientific reports. Black PJMiller ASHayes JJ (2016 Jun 27). Radioresistance of GGG sequences to prompt strand break formation from direct-type radiation damage. Radiation and environmental biophysics. Yue HFang HWei SHayes JJLee TH (2016 Apr 12). Single-Molecule Studies of the Linker Histone H1 Binding to DNA and the Nucleosome. Biochemistry. Balliano AJHayes JJ (2015 Dec). Base excision repair in chromatin: Insights from reconstituted systems. DNA repair. Cutter ARHayes JJ (2015 Oct 7). A brief review of nucleosome structure. FEBS letters. Pepenella SMurphy KJHayes JJ (2014 Sep 26). A distinct switch in interactions of the histone H4 tail domain upon salt-dependent folding of nucleosome arrays. The Journal of biological chemistry. Pepenella SMurphy KJHayes JJ (2014 Mar). Intra- and inter-nucleosome interactions of the core histone tail domains in higher-order chromatin structure. Chromosoma. Raghuram NStrickfaden HMcDonald DWilliams KFang HMizzen CHayes JJTh'ng JHendzel MJ (2013 Oct 14). Pin1 promotes histone H1 dephosphorylation and stabilizes its binding to chromatin. The Journal of cell biology. Elliott GOMurphy KJHayes JJThiriet C (2013 Feb 1). Replication-independent nucleosome exchange is enhanced by local and specific acetylation of histone H4. Nucleic acids research. Fang HClark DJHayes JJ (2012 Feb). DNA and nucleosomes direct distinct folding of a linker histone H1 C-terminal domain. Nucleic acids research. Liu NHayes JJ (2012). Preparation of nucleosomes containing a specific H2A-H2A cross-link forming a DNA-constraining loop structure. Methods in molecular biology (Clifton, N.J.). Yang ZHayes JJ (2011 Nov 22). The divalent cations Ca2+ and Mg2+ play specific roles in stabilizing histone-DNA interactions within nucleosomes that are partially redundant with the core histone tail domains. Biochemistry. Meyer SBecker NBSyed SHGoutte-Gattat DShukla MSHayes JJAngelov DBednar JDimitrov SEveraers R (2011 Nov). From crystal and NMR structures, footprints and cryo-electron-micrographs to large and soft structures: nanoscale modeling of the nucleosomal stem. Nucleic acids research. Liu NPeterson CLHayes JJ (2011 Oct). SWI/SNF- and RSC-catalyzed nucleosome mobilization requires internal DNA loop translocation within nucleosomes. Molecular and cellular biology. Almouzni GHayes JJ (2011 Jul). International symposium on the physicochemical field for genetic activities. Awaji Island, Japan, January 24–26, 2011. Nucleus (Austin, Tex.). Caterino TLFang HHayes JJ (2011 Jun). Nucleosome linker DNA contacts and induces specific folding of the intrinsically disordered H1 carboxyl-terminal domain. Molecular and cellular biology. Jagannathan IPepenella SHayes JJ (2011 May 20). Activity of FEN1 endonuclease on nucleosome substrates is dependent upon DNA sequence but not flap orientation. The Journal of biological chemistry. Shukla MSSyed SHGoutte-Gattat DRichard JLMontel FHamiche ATravers AFaivre-Moskalenko CBednar JHayes JJAngelov DDimitrov S (2011 Apr). The docking domain of histone H2A is required for H1 binding and RSC-mediated nucleosome remodeling. Nucleic acids research. Caterino TLHayes JJ (2011 Feb). Structure of the H1 C-terminal domain and function in chromatin condensation. Biochemistry and cell biology = Biochimie et biologie cellulaire. Liu NBalliano AHayes JJ (2011 Jan 24). Mechanism(s) of SWI/SNF-induced nucleosome mobilization. Chembiochem : a European journal of chemical biology. Liu NHayes JJ (2010 May 28). When push comes to shove: SWI/SNF uses a nucleosome to get rid of a nucleosome. Molecular cell. Syed SHGoutte-Gattat DBecker NMeyer SShukla MSHayes JJEveraers RAngelov DBednar JDimitrov S (2010 May 25). Single-base resolution mapping of H1-nucleosome interactions and 3D organization of the nucleosome. Proceedings of the National Academy of Sciences of the United States of America. Cole HATabor-Godwin JMHayes JJ (2010 Jan 22). Uracil DNA glycosylase activity on nucleosomal DNA depends on rotational orientation of targets. The Journal of biological chemistry. Thiriet CHayes JJ (2009 Jan 30). Linker histone phosphorylation regulates global timing of replication origin firing. The Journal of biological chemistry. Kan PYCaterino TLHayes JJ (2009 Jan). The H4 tail domain participates in intra- and internucleosome interactions with protein and DNA during folding and oligomerization of nucleosome arrays. Molecular and cellular biology. Jagannathan IHayes JJ (2009). Hydroxyl radical footprinting of protein-DNA complexes. Methods in molecular biology (Clifton, N.J.). Chafin DRHayes JJ (2009). Site-directed cleavage of DNA by protein-Fe(II) EDTA conjugates within model chromatin complexes. Methods in molecular biology (Clifton, N.J.). Wang XHayes JJ (2008 Jan). Acetylation mimics within individual core histone tail domains indicate distinct roles in regulating the stability of higher-order chromatin structure. Molecular and cellular biology. Wang XHayes JJ (2007 Nov 9). Site-specific binding affinities within the H2B tail domain indicate specific effects of lysine acetylation. The Journal of biological chemistry. Caterino TLHayes JJ (2007 Nov). Chromatin structure depends on what's in the nucleosome's pocket. Nature structural & molecular biology. Yang ZZheng CHayes JJ (2007 Mar 16). The core histone tail domains contribute to sequence-dependent nucleosome positioning. The Journal of biological chemistry. Kan PYHayes JJ (2007 Mar). Detection of interactions between nucleosome arrays mediated by specific core histone tail domains. Methods (San Diego, Calif.). Kan PYLu XHansen JCHayes JJ (2007 Mar). The H3 tail domain participates in multiple interactions during folding and self-association of nucleosome arrays. Molecular and cellular biology. Wang XHayes JJ (2006 Aug). Physical methods used to study core histone tail structures and interactions in solution. Biochemistry and cell biology = Biochimie et biologie cellulaire. Jagannathan ICole HAHayes JJ (2006). Base excision repair in nucleosome substrates. Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology. Thiriet CHayes JJ (2006). Histone dynamics during transcription: exchange of H2A/H2B dimers and H3/H4 tetramers during pol II elongation. Results and problems in cell differentiation. Zheng CLu XHansen JCHayes JJ (2005 Sep 30). Salt-dependent intra- and internucleosomal interactions of the H3 tail domain in a model oligonucleosomal array. The Journal of biological chemistry. Owen BAYang ZLai MGajec MGajek MBadger JDHayes JJEdelmann WKucherlapati RWilson TMMcMurray CT (2005 Aug). (CAG)(n)-hairpin DNA binds to Msh2-Msh3 and changes properties of mismatch recognition. Nature structural & molecular biology. Thiriet CHayes JJ (2005 Jun 10). Chromatin in need of a fix: phosphorylation of H2AX connects chromatin to DNA repair. Molecular cell. Thiriet CHayes JJ (2005 Mar 15). Replication-independent core histone dynamics at transcriptionally active loci in vivo. Genes & development. Yang ZZheng CThiriet CHayes JJ (2005 Jan). The core histone N-terminal tail domains negatively regulate binding of transcription factor IIIA to a nucleosome containing a 5S RNA gene via a novel mechanism. Molecular and cellular biology. Hayes JJ (2004 May). In vitro analysis of chromatin structure in model systems. Methods (San Diego, Calif.). Yang ZHayes JJ (2004 May). Large scale preparation of nucleosomes containing site-specifically chemically modified histones lacking the core histone tail domains. Methods (San Diego, Calif.). Vitolo JMYang ZBasavappa RHayes JJ (2004 Jan). Structural features of transcription factor IIIA bound to a nucleosome in solution. Molecular and cellular biology. Zheng CHayes JJ (2004). Probing core histone tail-DNA interactions in a model dinucleosome system. Methods in enzymology. Aoyagi SWade PAHayes JJ (2003 Aug 15). Nucleosome sliding induced by the xMi-2 complex does not occur exclusively via a simple twist-diffusion mechanism. The Journal of biological chemistry. Zheng CHayes JJ (2003 Jun 27). Intra- and inter-nucleosomal protein-DNA interactions of the core histone tail domains in a model system. The Journal of biological chemistry. Yang ZHayes JJ (2003 Jun). Xenopus transcription factor IIIA and the 5S nucleosome: development of a useful in vitro system. Biochemistry and cell biology = Biochimie et biologie cellulaire. Zheng CHayes JJ (2003 Apr). Structures and interactions of the core histone tail domains. Biopolymers.