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Jeffrey J. Hayes, Ph.D.

Jeffrey J. Hayes, Ph.D.

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About Me

Faculty Appointments

Professor - Department of Biochemistry and Biophysics (SMD)

Chair - Department of Biochemistry and Biophysics (SMD)

Credentials

Education

PhD | Johns Hopkins University. Chemistry. 1990

MS | Bowling Green University. Chemistry. 1986

BS | Bowling Green University. Chemistry. 1983

Research

Each eukaryotic cell must execute a complex program of specific gene expression. The DNA of the genome is intimately complexed with proteins into an assembly known as chromatin. Compaction and storage of genomic DNA has long been viewed as the main function of this assembly; however, recent work has...
Each eukaryotic cell must execute a complex program of specific gene expression. The DNA of the genome is intimately complexed with proteins into an assembly known as chromatin. Compaction and storage of genomic DNA has long been viewed as the main function of this assembly; however, recent work has demonstrated that in some instances, chromatin structure play an important role in bringing about this pattern of specific expression, and it is likely that the structural elements of chromatin have been integrated into many transcriptional control mechanisms.

The goal of the research in this laboratory is to provide detailed structure information on the protein-DNA interactions and DNA organization within chromatin, and to correlate this information with simple functional assays of the consequences of this organization. Model chromatin complexes will be prepared in vitro and structurally analyzed with chemical approaches. In addition, cloning expression of histone proteins with specific mutations will be useful in the determination of relevant domains within these proteins while facilitating the creation of site-specific probes of protein and DNA structure with chromatin.

Publications

Journal Articles

The Influence of State Restrictions on Opioid Prescribing: 2006-2018.

Cosler LE, Midence L, Hayes JJ, Gondeck JT, Moy K, Chen MH, Hogan JD

Journal of public health management and practice : JPHMP.. 2024 September 24 Epub 09/24/2024.

Histone H3 Tail Modifications Alter Structure and Dynamics of the H1 C-Terminal Domain Within Nucleosomes.

Kanti Das S, Kumar A, Hao F, Cutter DiPiazza AR, Fang H, Lee TH, Hayes JJ

Journal of molecular biology.. 2023 October 1435 (19):168242. Epub 08/23/2023.

Histone H3 tail modifications regulate structure and dynamics of the H1 C-terminal domain within nucleosomes.

Das SK, Kumar A, Hao F, DiPiazza ARC, Lee TH, Hayes JJ

bioRxiv : the preprint server for biology.. 2023 May 12 Epub 05/12/2023.

Post-Translation Modifications and Mutations of Human Linker Histone Subtypes: Their Manifestation in Disease.

Kumar A, Maurya P, Hayes JJ

International journal of molecular sciences.. 2023 January 1124 (2)Epub 01/11/2023.

Strains Adapted to Caspofungin Due to Aneuploidy Become Highly Tolerant under Continued Drug Pressure.

Husain F, Yadav A, Sah SK, Hayes JJ, Rustchenko E

Microorganisms.. 2022 December 2111 (1)Epub 12/21/2022.

Multiple Genes of Candida albicans Influencing Echinocandin Susceptibility in Caspofungin-Adapted Mutants.

Sah SK, Bhattacharya S, Yadav A, Husain F, Ndiaye ABKT, Kruppa MD, Hayes JJ, Rustchenko E

Antimicrobial agents and chemotherapy.. 2022 December 2066 (12):e0097722. Epub 11/10/2022.

Histone protein surface accessibility dictates direction of RSC-dependent nucleosome mobilization.

Bhat JA, Balliano AJ, Hayes JJ

Nucleic acids research.. 2022 October 1450 (18):10376-10384. Epub 1900 01 01.

Identification and Analysis of Six Phosphorylation Sites Within the Xenopus laevis Linker Histone H1.0 C-Terminal Domain Indicate Distinct Effects on Nucleosome Structure.

Hao F, Mishra L, Jaya P, Jones R, Hayes JJ

Molecular & cellular proteomics : MCP.. 2022 July 21 (7):100250. Epub 05/23/2022.

Whole-genome methods to define DNA and histone accessibility and long-range interactions in chromatin.

Marr LT, Jaya P, Mishra LN, Hayes JJ

Biochemical Society transactions.. 2022 February 2850 (1):199-212. Epub 1900 01 01.

Unraveling linker histone interactions in nucleosomes.

Hao F, Kale S, Dimitrov S, Hayes JJ

Current opinion in structural biology.. 2021 December 71 :87-93. Epub 07/08/2021.

Identification and characterization of histones in evidence a phylogenetic vicinity of Mycetozoans to the animal kingdom.

Poulet A, Mishra LN, Téletchéa S, Hayes JJ, Jacob Y, Thiriet C, Duc C

NAR genomics and bioinformatics.. 2021 December 3 (4):lqab107. Epub 11/17/2021.

The role of aneuploidy in the emergence of echinocandin resistance in human fungal pathogen Candida albicans.

Sah SK, Hayes JJ, Rustchenko E

PLoS pathogens.. 2021 May 17 (5):e1009564. Epub 05/27/2021.

Global histone protein surface accessibility in yeast indicates a uniformly loosely packed genome with canonical nucleosomes.

Marr LT, Ocampo J, Clark DJ, Hayes JJ

Epigenetics & chromatin.. 2021 January 1114 (1):5. Epub 01/11/2021.

A method for assessing histone surface accessibility genome-wide.

Marr LT, Clark DJ, Hayes JJ

Methods : a companion to Methods in enzymology.. 2020 December 1184 :61-69. Epub 12/09/2019.

Acetylation-modulated communication between the H3 N-terminal tail domain and the intrinsically disordered H1 C-terminal domain.

Hao F, Murphy KJ, Kujirai T, Kamo N, Kato J, Koyama M, Okamato A, Hayashi G, Kurumizaka H, Hayes JJ

Nucleic acids research.. 2020 November 1848 (20):11510-11520. Epub 1900 01 01.

Creating superhydrophobic and antibacterial surfaces on gold by femtosecond laser pulses.

Jalil SA, Akram M, Bhat JA, Hayes JJ, Singh SC, ElKabbash M, Guo C

Applied surface science.. 2020 March 15506 :144952. Epub 1900 01 01.

Author Correction: Transcriptional Regulation on Aneuploid Chromosomes in Diverse Candida albicans Mutants.

Tucker C, Bhattacharya S, Wakabayashi H, Bellaousov S, Kravets A, Welle SL, Myers J, Hayes JJ, Bulger M, Rustchenko E

Scientific reports.. 2019 July 59 (1):10019. Epub 07/05/2019.

A nucleosome-free region locally abrogates histone H1-dependent restriction of linker DNA accessibility in chromatin.

Mishra LN, Hayes JJ

The Journal of biological chemistry.. 2018 December 14293 (50):19191-19200. Epub 10/29/2018.

Transcriptional Regulation on Aneuploid Chromosomes in Divers Candida albicans Mutants.

Tucker C, Bhattacharya S, Wakabayashi H, Bellaousov S, Kravets A, Welle SL, Myers J, Hayes JJ, Bulger M, Rustchenko E

Scientific reports.. 2018 January 268 (1):1630. Epub 01/26/2018.

Accessibility of the histone H3 tail in the nucleosome for binding of paired readers.

Gatchalian J, Wang X, Ikebe J, Cox KL, Tencer AH, Zhang Y, Burge NL, Di L, Gibson MD, Musselman CA, Poirier MG, Kono H, Hayes JJ, Kutateladze TG

Nature communications.. 2017 November 148 (1):1489. Epub 11/14/2017.

Correction to: NuA4 histone acetyltransferase activity is required for H4 acetylation on a dosage-compensated monosomic chromosome that confers resistance to fungal toxins.

Wakabayashi H, Tucker C, Bethlendy G, Kravets A, Welle SL, Bulger M, Hayes JJ, Rustchenko E

Epigenetics & chromatin.. 2017 November 710 (1):52. Epub 11/07/2017.

NuA4 histone acetyltransferase activity is required for H4 acetylation on a dosage-compensated monosomic chromosome that confers resistance to fungal toxins.

Wakabayashi H, Tucker C, Bethlendy G, Kravets A, Welle SL, Bulger M, Hayes J, Rustchenko E

Epigenetics & chromatin.. 2017 October 2310 (1):49. Epub 10/23/2017.

Covalent Modifications of Histone H3K9 Promote Binding of CHD3.

Tencer AH, Cox KL, Di L, Bridgers JB, Lyu J, Wang X, Sims JK, Weaver TM, Allen HF, Zhang Y, Gatchalian J, Darcy MA, Gibson MD, Ikebe J, Li W, Wade PA, Hayes JJ, Strahl BD, Kono H, Poirier MG, Musselman CA, Kutateladze TG

Cell reports.. 2017 October 1021 (2):455-466. Epub 1900 01 01.

HMGN1 and 2 remodel core and linker histone tail domains within chromatin.

Murphy KJ, Cutter AR, Fang H, Postnikov YV, Bustin M, Hayes JJ

Nucleic acids research.. 2017 September 2945 (17):9917-9930. Epub 1900 01 01.

Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1.

Bednar J, Garcia-Saez I, Boopathi R, Cutter AR, Papai G, Reymer A, Syed SH, Lone IN, Tonchev O, Crucifix C, Menoni H, Papin C, Skoufias DA, Kurumizaka H, Lavery R, Hamiche A, Hayes JJ, Schultz P, Angelov D, Petosa C, Dimitrov S

Molecular cell.. 2017 June 166 (5):729. Epub 1900 01 01.

Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1.

Bednar J, Garcia-Saez I, Boopathi R, Cutter AR, Papai G, Reymer A, Syed SH, Lone IN, Tonchev O, Crucifix C, Menoni H, Papin C, Skoufias DA, Kurumizaka H, Lavery R, Hamiche A, Hayes JJ, Schultz P, Angelov D, Petosa C, Dimitrov S

Molecular cell.. 2017 May 466 (3):384-397.e8. Epub 1900 01 01.

Linker histones: novel insights into structure-specific recognition of the nucleosome.

Cutter AR, Hayes JJ

Biochemistry and cell biology = Biochimie et biologie cellulaire.. 2017 April 95 (2):171-178. Epub 06/29/2016.

HMGB1 Stimulates Activity of Polymerase ? on Nucleosome Substrates.

Balliano A, Hao F, Njeri C, Balakrishnan L, Hayes JJ

Biochemistry.. 2017 January 3156 (4):647-656. Epub 01/18/2017.

Chromatin structure-dependent conformations of the H1 CTD.

Fang H, Wei S, Lee TH, Hayes JJ

Nucleic acids research.. 2016 November 244 (19):9131-9141. Epub 06/30/2016.

Radioresistance of GGG sequences to prompt strand break formation from direct-type radiation damage.

Black PJ, Miller AS, Hayes JJ

Radiation and environmental biophysics.. 2016 November 55 (4):411-422. Epub 06/27/2016.

Acetylation Mimics Within a Single Nucleosome Alter Local DNA Accessibility In Compacted Nucleosome Arrays.

Mishra LN, Pepenella S, Rogge R, Hansen JC, Hayes JJ

Scientific reports.. 2016 October 66 :34808. Epub 10/06/2016.

Single-Molecule Studies of the Linker Histone H1 Binding to DNA and the Nucleosome.

Yue H, Fang H, Wei S, Hayes JJ, Lee TH

Biochemistry.. 2016 April 1255 (14):2069-77. Epub 03/29/2016.

Base excision repair in chromatin: Insights from reconstituted systems.

Balliano AJ, Hayes JJ

DNA repair.. 2015 December 36 :77-85. Epub 09/16/2015.

A brief review of nucleosome structure.

Cutter A, Hayes JJ

FEBS letters.. 2015 October 7589 (20 Pt A):2914-22. Epub 05/14/2015.

A distinct switch in interactions of the histone H4 tail domain upon salt-dependent folding of nucleosome arrays.

Pepenella S, Murphy KJ, Hayes JJ

The Journal of biological chemistry.. 2014 September 26289 (39):27342-27351. Epub 08/13/2014.

Intra- and inter-nucleosome interactions of the core histone tail domains in higher-order chromatin structure.

Pepenella S, Murphy KJ, Hayes JJ

Chromosoma. 2014 March 123 (1-2):3-13. Epub 08/31/2013.

Pin1 promotes histone H1 dephosphorylation and stabilizes its binding to chromatin.

Raghuram N, Strickfaden H, McDonald D, Williams K, Fang H, Mizzen C, Hayes JJ, Th'ng J, Hendzel MJ

The Journal of cell biology.. 2013 October 14203 (1):57-71. Epub 10/07/2013.

Replication-independent nucleosome exchange is enhanced by local and specific acetylation of histone H4.

Elliott GO, Murphy KJ, Hayes JJ, Thiriet C

Nucleic acids research.. 2013 February 141 (4):2228-38. Epub 01/08/2013.

DNA and nucleosomes direct distinct folding of a linker histone H1 C-terminal domain.

Fang H, Clark DJ, Hayes JJ

Nucleic acids research.. 2012 February 40 (4):1475-84. Epub 10/22/2011.

Preparation of nucleosomes containing a specific H2A-H2A cross-link forming a DNA-constraining loop structure.

Liu N, Hayes JJ

Methods in molecular biology.. 2012 833 :351-71. Epub 1900 01 01.

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.

Yang Z, Hayes JJ

Biochemistry.. 2011 November 2250 (46):9973-81. Epub 10/31/2011.

From crystal and NMR structures, footprints and cryo-electron-micrographs to large and soft structures: nanoscale modeling of the nucleosomal stem.

Meyer S, Becker NB, Syed SH, Goutte-Gattat D, Shukla MS, Hayes JJ, Angelov D, Bednar J, Dimitrov S, Everaers R

Nucleic acids research.. 2011 November 39 (21):9139-54. Epub 08/10/2011.

SWI/SNF- and RSC-catalyzed nucleosome mobilization requires internal DNA loop translocation within nucleosomes.

Liu N, Peterson C, Hayes JJ

Molecular and cellular biology.. 2011 October 31 (20):4165-75. Epub 08/22/2011.

Nucleosome linker DNA contacts and induces specific folding of the intrinsically disordered H1 carboxyl-terminal domain.

Caterino TL, Fang H, Hayes JJ

Molecular and cellular biology.. 2011 June 31 (11):2341-8. Epub 04/04/2011.

Activity of FEN1 endonuclease on nucleosome substrates is dependent upon DNA sequence but not flap orientation.

Jagannathan I, Pepenella S, Hayes JJ

The Journal of biological chemistry.. 2011 May 20286 (20):17521-9. Epub 03/31/2011.

The docking domain of histone H2A is required for H1 binding and RSC-mediated nucleosome remodeling.

Shukla MS, Syed SH, Goutte-Gattat D, Richard JL, Montel F, Hamiche A, Travers A, Faivre-Moskalenko C, Bednar J, Hayes JJ, Angelov D, Dimitrov S

Nucleic acids research.. 2011 April 39 (7):2559-70. Epub 12/03/2010.

Structure of the H1 C-terminal domain and function in chromatin condensation.

Caterino TL, Hayes JJ

Biochemistry and cell biology = Biochimie et biologie cellulaire.. 2011 February 89 (1):35-44. Epub 1900 01 01.

Mechanism(s) of SWI/SNF-induced nucleosome mobilization.

Liu N, Balliano A, Hayes JJ

Chembiochem : a European journal of chemical biology.. 2011 January 2412 (2):196-204. Epub 10/28/2010.

International symposium on the physicochemical field for genetic activities. Awaji Island, Japan, January 24–26, 2011.

Almouzni G, Hayes JJ

Nucleus (Austin, Tex.). 2011 2 (4):253-7. Epub 07/01/2011.

Mechanism(s) of SWI/SNF-Induced Nucleosome Mobilization.

Liu N, Balliano A, Hayes JJ

Chembiochem : a European journal of chemical biology.. 2010 October 28 Epub 10/28/2010.

When push comes to shove: SWI/SNF uses a nucleosome to get rid of a nucleosome.

Liu N, Hayes JJ

Molecular cell.. 2010 May 2838 (4):484-6. Epub 1900 01 01.

Single-base resolution mapping of H1-nucleosome interactions and 3D organization of the nucleosome.

Syed SH, Goutte-Gattat D, Becker N, Meyer S, Shukla MS, Hayes JJ, Everaers R, Angelov D, Bednar J, Dimitrov S

Proceedings of the National Academy of Sciences of the United States of America.. 2010 May 25107 (21):9620-5. Epub 05/10/2010.

Uracil DNA glycosylase activity on nucleosomal DNA depends on rotational orientation of targets.

Cole H, Tabor-Godwin JM, Hayes JJ

The Journal of biological chemistry.. 2010 January 22285 (4):2876-85. Epub 11/19/2009.

Linker histone phosphorylation regulates global timing of replication origin firing.

Thiriet C, Hayes JJ

The Journal of biological chemistry.. 2009 January 30284 (5):2823-2829. Epub 11/17/2008.

The H4 tail domain participates in intra- and internucleosome interactions with protein and DNA during folding and oligomerization of nucleosome arrays.

Kan PY, Caterino TL, Hayes JJ

Molecular and cellular biology.. 2009 January 29 (2):538-46. Epub 11/10/2008.

Hydroxyl radical footprinting of protein-DNA complexes.

Jagannathan I, Hayes JJ

Methods in molecular biology.. 2009 543 :57-71. Epub 1900 01 01.

Site-directed cleavage of DNA by protein-Fe(II) EDTA conjugates within model chromatin complexes.

Chafin DR, Hayes JJ

Methods in molecular biology.. 2009 543 :121-38. Epub 1900 01 01.

Acetylation mimics within individual core histone tail domains indicate distinct roles in regulating the stability of higher-order chromatin structure.

Wang X, Hayes JJ

Molecular and cellular biology.. 2008 January 28 (1):227-36. Epub 10/15/2007.

Site-specific binding affinities within the H2B tail domain indicate specific effects of lysine acetylation.

Wang X, Hayes JJ

The Journal of biological chemistry.. 2007 November 9282 (45):32867-76. Epub 08/21/2007.

Chromatin structure depends on what's in the nucleosome's pocket.

Caterino TL, Hayes JJ

Nature structural & molecular biology.. 2007 November 14 (11):1056-8. Epub 1900 01 01.

The core histone tail domains contribute to sequence-dependent nucleosome positioning.

Yang Z, Zheng C, Hayes JJ

The Journal of biological chemistry.. 2007 March 16282 (11):7930-8. Epub 01/17/2007.

The H3 tail domain participates in multiple interactions during folding and self-association of nucleosome arrays.

Kan PY, Lu X, Hansen JC, Hayes JJ

Molecular and cellular biology.. 2007 March 27 (6):2084-91. Epub 01/22/2007.

Detection of interactions between nucleosome arrays mediated by specific core histone tail domains.

Kan PY, Hayes JJ

Methods : a companion to Methods in enzymology.. 2007 March 41 (3):278-85. Epub 1900 01 01.

Physical methods used to study core histone tail structures and interactions in solution.

Wang X, Hayes JJ

Biochemistry and cell biology = Biochimie et biologie cellulaire.. 2006 August 84 (4):578-88. Epub 1900 01 01.

Base excision repair in nucleosome substrates.

Jagannathan I, Cole HA, Hayes JJ

Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology.. 2006 14 (1):27-37. Epub 03/03/2006.

Histone dynamics during transcription: exchange of H2A/H2B dimers and H3/H4 tetramers during pol II elongation.

Thiriet C, Hayes JJ

Results and problems in cell differentiation.. 2006 41 :77-90. Epub 1900 01 01.

Salt-dependent intra- and internucleosomal interactions of the H3 tail domain in a model oligonucleosomal array.

Zheng C, Lu X, Hansen JC, Hayes JJ

The Journal of biological chemistry.. 2005 September 30280 (39):33552-7. Epub 08/02/2005.

(CAG)(n)-hairpin DNA binds to Msh2-Msh3 and changes properties of mismatch recognition.

Owen BA, Yang Z, Lai M, Gajec M, Gajek M, Badger JD, Hayes JJ, Edelmann W, Kucherlapati R, Wilson TM, McMurray CT

Nature structural & molecular biology.. 2005 August 12 (8):663-70. Epub 07/17/2005.

Chromatin in need of a fix: phosphorylation of H2AX connects chromatin to DNA repair.

Thiriet C, Hayes JJ

Molecular cell.. 2005 June 1018 (6):617-22. Epub 1900 01 01.

Replication-independent core histone dynamics at transcriptionally active loci in vivo.

Thiriet C, Hayes JJ

Genes & development.. 2005 March 1519 (6):677-82. Epub 1900 01 01.

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.

Yang Z, Zheng C, Thiriet C, Hayes JJ

Molecular and cellular biology.. 2005 January 25 (1):241-9. Epub 1900 01 01.

In vitro analysis of chromatin structure in model systems.

Hayes JJ

Methods : a companion to Methods in enzymology.. 2004 May 33 (1):1-2. Epub 1900 01 01.

Large scale preparation of nucleosomes containing site-specifically chemically modified histones lacking the core histone tail domains.

Yang Z, Hayes JJ

Methods : a companion to Methods in enzymology.. 2004 May 33 (1):25-32. Epub 1900 01 01.

Structural features of transcription factor IIIA bound to a nucleosome in solution.

Vitolo JM, Yang Z, Basavappa R, Hayes JJ

Molecular and cellular biology.. 2004 January 24 (2):697-707. Epub 1900 01 01.

Probing core histone tail-DNA interactions in a model dinucleosome system.

Zheng C, Hayes JJ

Methods in enzymology.. 2004 375 :179-93. Epub 1900 01 01.

Nucleosome sliding induced by the xMi-2 complex does not occur exclusively via a simple twist-diffusion mechanism.

Aoyagi S, Wade PA, Hayes JJ

The Journal of biological chemistry.. 2003 August 15278 (33):30562-8. Epub 05/26/2003.

Intra- and inter-nucleosomal protein-DNA interactions of the core histone tail domains in a model system.

Zheng C, Hayes JJ

The Journal of biological chemistry.. 2003 June 27278 (26):24217-24. Epub 04/15/2003.

Xenopus transcription factor IIIA and the 5S nucleosome: development of a useful in vitro system.

Yang Z, Hayes JJ

Biochemistry and cell biology = Biochimie et biologie cellulaire.. 2003 June 81 (3):177-84. Epub 1900 01 01.

Structures and interactions of the core histone tail domains.

Zheng C, Hayes JJ

Biopolymers.. 2003 April 68 (4):539-46. Epub 1900 01 01.

R2 retrotransposition on assembled nucleosomes depends on the translational position of the target site.

Ye J, Yang Z, Hayes JJ, Eickbush TH

The EMBO journal.. 2002 December 1621 (24):6853-64. Epub 1900 01 01.

hSWI/SNF-catalyzed nucleosome sliding does not occur solely via a twist-diffusion mechanism.

Aoyagi S, Hayes JJ

Molecular and cellular biology.. 2002 November 22 (21):7484-90. Epub 1900 01 01.

Flap endonuclease 1 efficiently cleaves base excision repair and DNA replication intermediates assembled into nucleosomes.

Huggins CF, Chafin DR, Aoyagi S, Henricksen LA, Bambara RA, Hayes JJ

Molecular cell.. 2002 November 10 (5):1201-11. Epub 1900 01 01.

Nucleosome remodeling by the human SWI/SNF complex requires transient global disruption of histone-DNA interactions.

Aoyagi S, Narlikar G, Zheng C, Sif S, Kingston RE, Hayes JJ

Molecular and cellular biology.. 2002 June 22 (11):3653-62. Epub 1900 01 01.

Nucleotide excision repair and chromatin remodeling.

Ura K, Hayes JJ

European journal of biochemistry. 2002 May 269 (9):2288-93. Epub 1900 01 01.

Changing chromatin from the inside.

Hayes JJ

Nature structural biology.. 2002 March 9 (3):161-3. Epub 1900 01 01.

New insights into unwrapping DNA from the nucleosome from a single-molecule optical tweezers method.

Hayes JJ, Hansen JC

Proceedings of the National Academy of Sciences of the United States of America.. 2002 February 1999 (4):1752-4. Epub 1900 01 01.

A novel labeling technique reveals a function for histone H2A/H2B dimer tail domains in chromatin assembly in vivo.

Thiriet C, Hayes JJ

Genes & development.. 2001 August 1515 (16):2048-53. Epub 1900 01 01.

Preferential interaction of the core histone tail domains with linker DNA.

Angelov D, Vitolo JM, Mutskov V, Dimitrov S, Hayes JJ

Proceedings of the National Academy of Sciences of the United States of America.. 2001 June 598 (12):6599-604. Epub 05/29/2001.

DNase I and hydroxyl radical characterization of chromatin complexes.

Vitolo JM, Thiriet C, Hayes JJ

Current protocols in molecular biology. 2001 May Chapter 21 :Unit 21.4. Epub 1900 01 01.

Nucleosomes and the chromatin fiber.

Hayes JJ, Hansen JC

Current opinion in genetics & development.. 2001 April 11 (2):124-9. Epub 1900 01 01.

Assembly into chromatin and subtype-specific transcriptional effects of exogenous linker histones directly introduced into a living Physarum cell.

Thiriet C, Hayes JJ

Journal of cell science.. 2001 March 114 (Pt 5):965-73. Epub 1900 01 01.

Site-directed cleavage of DNA by linker histone-Fe(II) EDTA conjugates.

Chafin DR, Hayes JJ

Methods in molecular biology.. 2001 148 :275-90. Epub 1900 01 01.

Human DNA ligase I efficiently seals nicks in nucleosomes.

Chafin DR, Vitolo JM, Henricksen LA, Bambara RA, Hayes JJ

The EMBO journal.. 2000 October 1619 (20):5492-501. Epub 1900 01 01.

DNA sequence-dependent contributions of core histone tails to nucleosome stability: differential effects of acetylation and proteolytic tail removal.

Widlund HR, Vitolo JM, Thiriet C, Hayes JJ

Biochemistry.. 2000 April 439 (13):3835-41. Epub 1900 01 01.

The H3-H4 N-terminal tail domains are the primary mediators of transcription factor IIIA access to 5S DNA within a nucleosome.

Vitolo JM, Thiriet C, Hayes JJ

Molecular and cellular biology.. 2000 March 20 (6):2167-75. Epub 1900 01 01.

Identification of additional genes belonging to the LexA regulon in Escherichia coli.

Fernández De Henestrosa AR, Ogi T, Aoyagi S, Chafin D, Hayes JJ, Ohmori H, Woodgate R

Molecular microbiology.. 2000 March 35 (6):1560-72. Epub 1900 01 01.

DNase I and Hydroxyl Radical Characterization of Chromatin Complexes

Vitolo, J.; Thiriet, C.; Hayes, J. J.;.

Curr. Prot. Mol. Biol. 2000; .

hSWI/SNF disrupts interactions between the H2A N-terminal tail and nucleosomal DNA.

Lee KM, Sif S, Kingston RE, Hayes JJ

Biochemistry.. 1999 June 2938 (26):8423-9. Epub 1900 01 01.

Chromatin remodeling by cell cycle stage-specific extracts from Physarum polycephalum.

Thiriet C, Hayes JJ

European journal of cell biology.. 1999 March 78 (3):214-20. Epub 1900 01 01.

Chromatin disruption and modification.

Wolffe AP, Hayes JJ

Nucleic acids research.. 1999 February 127 (3):711-20. Epub 1900 01 01.

Histone proteins in vivo: cell-cycle-dependent physiological effects of exogenous linker histones incorporated into Physarum polycephalum.

Thiriet C, Hayes JJ

Methods : a companion to Methods in enzymology.. 1999 February 17 (2):140-50. Epub 1900 01 01.

Targeted cross-linking and DNA cleavage within model chromatin complexes.

Lee KM, Chafin DR, Hayes JJ

Methods in enzymology.. 1999 304 :231-51. Epub 1900 01 01.

Site-directed chemical probing of histone-DNA interactions.

Chafin DR, Lee KM, Hayes JJ

Methods in molecular biology.. 1999 119 :27-43. Epub 1900 01 01.

Functionally relevant histone-DNA interactions extend beyond the classically defined nucleosome core region.

Thiriet C, Hayes JJ

The Journal of biological chemistry.. 1998 August 14273 (33):21352-8. Epub 1900 01 01.

Linker DNA and H1-dependent reorganization of histone-DNA interactions within the nucleosome.

Lee KM, Hayes JJ

Biochemistry.. 1998 June 1637 (24):8622-8. Epub 1900 01 01.

(1,4,7-trimethyl-1,4,7-triazacyclononane)iron (III)-mediated cleavage of DNA: detection of selected protein-DNA interactions.

Ehmann A, Chafin D, Lee KM, Hayes JJ

Nucleic acids research.. 1998 May 126 (9):2086-91. Epub 1900 01 01.

The Bacillus subtilis DinR binding site: redefinition of the consensus sequence.

Winterling KW, Chafin D, Hayes JJ, Sun J, Levine AS, Yasbin RE, Woodgate R

Journal of bacteriology.. 1998 April 180 (8):2201-11. Epub 1900 01 01.

The N-terminal tail of histone H2A binds to two distinct sites within the nucleosome core.

Lee KM, Hayes JJ

Proceedings of the National Academy of Sciences of the United States of America.. 1997 August 1994 (17):8959-64. Epub 1900 01 01.

Antisera directed against anti-histone H4 antibodies recognize linker histones. Novel immunological probes to detect histone interactions.

Thiriet C, Hayes JJ

The Journal of biological chemistry.. 1997 July 25272 (30):18740-5. Epub 1900 01 01.

In vitro reconstitution and analysis of mononucleosomes containing defined DNAs and proteins.

Hayes JJ, Lee KM

Methods : a companion to Methods in enzymology.. 1997 May 12 (1):2-9. Epub 1900 01 01.

DNA Twisting and Writhing in the Nucleosome

Hayes, J. J. ;.

(invited review)Chemtracks. 1997; 10(3): 29-41.

An asymmetric model for the nucleosome: a binding site for linker histones inside the DNA gyres.

Pruss D, Bartholomew B, Persinger J, Hayes J, Arents G, Moudrianakis EN, Wolffe AP

Science.. 1996 October 25274 (5287):614-7. Epub 1900 01 01.

A putative DNA binding surface in the globular domain of a linker histone is not essential for specific binding to the nucleosome.

Hayes JJ, Kaplan R, Ura K, Pruss D, Wolffe A

The Journal of biological chemistry.. 1996 October 18271 (42):25817-22. Epub 1900 01 01.

Site-directed cleavage of DNA by a linker histone--Fe(II) EDTA conjugate: localization of a globular domain binding site within a nucleosome.

Hayes JJ

Biochemistry.. 1996 September 1735 (37):11931-7. Epub 1900 01 01.

A positive role for nucleosome mobility in the transcriptional activity of chromatin templates: restriction by linker histones.

Ura K, Hayes JJ, Wolffe AP

The EMBO journal.. 1995 August 114 (15):3752-65. Epub 1900 01 01.

DNA binding specificity of the Mu Ner protein.

Strzelecka TE, Hayes JJ, Clore GM, Gronenborn AM

Biochemistry.. 1995 March 734 (9):2946-55. Epub 1900 01 01.

Chemical probes of DNA structure in chromatin.

Hayes JJ

Chemistry & biology.. 1995 March 2 (3):127-35. Epub 1900 01 01.

Nucleosomal anatomy--where are the histones?

Pruss D, Hayes JJ, Wolffe AP

BioEssays : news and reviews in molecular, cellular and developmental biology.. 1995 February 17 (2):161-70. Epub 1900 01 01.

Core histone acetylation does not block linker histone binding to a nucleosome including a Xenopus borealis 5 S rRNA gene.

Ura K, Wolffe AP, Hayes JJ

The Journal of biological chemistry.. 1994 November 4269 (44):27171-4. Epub 1900 01 01.

Contacts of the globular domain of histone H5 and core histones with DNA in a "chromatosome".

Hayes JJ, Pruss D, Wolffe AP

Proceedings of the National Academy of Sciences of the United States of America.. 1994 August 291 (16):7817-21. Epub 1900 01 01.

Nucleosome structural changes due to acetylation.

Bauer WR, Hayes JJ, White JH, Wolffe AP

Journal of molecular biology.. 1994 February 25236 (3):685-90. Epub 1900 01 01.

The footprint of chromosomal proteins HMG-14 and HMG-17 on chromatin subunits.

Alfonso PJ, Crippa MP, Hayes JJ, Bustin M

Journal of molecular biology.. 1994 February 11236 (1):189-98. Epub 1900 01 01.

Chromatin Structure and Function

Pruss, D.; Hayes, J. J.; Wolffe, A. P.;.

Adv. in Mol. and Cell. Biol. 1994; 17(3): 304-327.

Preferential and asymmetric interaction of linker histones with 5S DNA in the nucleosome.

Hayes JJ, Wolffe AP

Proceedings of the National Academy of Sciences of the United States of America.. 1993 July 1590 (14):6415-9. Epub 1900 01 01.

Structure of DNA in a nucleosome core at high salt concentration and at high temperature.

Bashkin J, Hayes JJ, Tullius TD, Wolffe AP

Biochemistry.. 1993 March 232 (8):1895-8. Epub 1900 01 01.

A positive role for histone acetylation in transcription factor access to nucleosomal DNA.

Lee DY, Hayes JJ, Pruss D, Wolffe AP

Cell.. 1993 January 1572 (1):73-84. Epub 1900 01 01.

The Analysis of Transcription Factor Interactions with Model Nucleosomal Templates

Wolffe, A. P.; Hayes, J. J.;.

Meth Mol. Genetics. 1993; 2(3): 314-330.

TFIIIA-DNA Interactions

Hayes, J. J.; Tullius, T. D. ;.

Nuc. Acids and Mol. Biol., Eds. F. Eckstein and D. J. M. Lilley, Springer-Verlag. 1993; 7(3): 106-119.

Transcription factor access to DNA in the nucleosome.

Wolffe AP, Almouzni G, Ura K, Pruss D, Hayes JJ

Cold Spring Harbor symposia on quantitative biology.. 1993 58 :225-35. Epub 1900 01 01.

Locations of contacts between individual zinc fingers of Xenopus laevis transcription factor IIIA and the internal control region of a 5S RNA gene.

Hayes JJ, Clemens KR

Biochemistry.. 1992 November 2431 (46):11600-5. Epub 1900 01 01.

Structure of the TFIIIA-5 S DNA complex.

Hayes JJ, Tullius TD

Journal of molecular biology.. 1992 September 20227 (2):407-17. Epub 1900 01 01.

The interaction of transcription factors with nucleosomal DNA.

Hayes JJ, Wolffe AP

BioEssays : news and reviews in molecular, cellular and developmental biology.. 1992 September 14 (9):597-603. Epub 1900 01 01.

Experimental determination of DNA helical repeats.

Hayes JJ, Wolffe AP

Trends in biochemical sciences.. 1992 July 17 (7):250. Epub 1900 01 01.

Histones H2A/H2B inhibit the interaction of transcription factor IIIA with the Xenopus borealis somatic 5S RNA gene in a nucleosome.

Hayes JJ, Wolffe AP

Proceedings of the National Academy of Sciences of the United States of America.. 1992 February 1589 (4):1229-33. Epub 1900 01 01.

Contributions of Histones H2A/H2B and the Histone Tails to the Structure of DNA in the Nucleosome

Hayes, J. J.; Clark, D. J.; Wolffe, A. P.;.

Structure and Function, R. H. Sarma, ed. 1992; 2(3): 121-128.

The histone core exerts a dominant constraint on the structure of DNA in a nucleosome.

Hayes JJ, Bashkin J, Tullius TD, Wolffe AP

Biochemistry.. 1991 August 2730 (34):8434-40. Epub 1900 01 01.

Histone contributions to the structure of DNA in the nucleosome.

Hayes JJ, Clark DJ, Wolffe AP

Proceedings of the National Academy of Sciences of the United States of America.. 1991 August 188 (15):6829-33. Epub 1900 01 01.

cis-diamminedichloroplatinum (II) modified chromatin and nucleosomal core particle.

Hayes J, Scovell WM

Biochimica et biophysica acta.. 1991 July 231089 (3):377-85. Epub 1900 01 01.

cis-Diamminedichloroplatinum (II) modified chromatin and nucleosomal core particle probed with DNase I.

Hayes JJ, Scovell WM

Biochimica et biophysica acta.. 1991 March 261088 (3):413-8. Epub 1900 01 01.

Hydroxyl radical footprinting.

Dixon WJ, Hayes JJ, Levin JR, Weidner MF, Dombroski BA, Tullius TD

Methods in enzymology.. 1991 208 :380-413. Epub 1900 01 01.

The structure of DNA in a nucleosome.

Hayes JJ, Tullius TD, Wolffe AP

Proceedings of the National Academy of Sciences of the United States of America.. 1990 October 87 (19):7405-9. Epub 1900 01 01.

Detection of drug binding to DNA by hydroxyl radical footprinting. Relationship of distamycin binding sites to DNA structure and positioned nucleosomes on 5S RNA genes of Xenopus.

Churchill ME, Hayes JJ, Tullius TD

Biochemistry.. 1990 June 2629 (25):6043-50. Epub 1900 01 01.

Footprinting protein-DNA complexes with gamma-rays.

Hayes JJ, Kam L, Tullius TD

Methods in enzymology.. 1990 186 :545-9. Epub 1900 01 01.

The missing nucleoside experiment: a new technique to study recognition of DNA by protein.

Hayes JJ, Tullius TD

Biochemistry.. 1989 November 2828 (24):9521-7. Epub 1900 01 01.

A protein-protein interaction is essential for stable complex formation on a 5 S RNA gene.

Hayes J, Tullius TD, Wolffe AP

The Journal of biological chemistry.. 1989 April 15264 (11):6009-12. Epub 1900 01 01.