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Connection

Craig Peterson to Nucleosomes

This is a "connection" page, showing publications Craig Peterson has written about Nucleosomes.
Connection Strength

10.837
  1. Baier AS, Gioacchini N, Eek P, Leith EM, Tan S, Peterson CL. Dual engagement of the nucleosomal acidic patches is essential for deposition of histone H2A.Z by SWR1C. Elife. 2024 May 29; 13.
    View in: PubMed
    Score: 0.813
  2. Baier AS, Peterson CL. Fluorescence approaches for biochemical analysis of ATP-dependent chromatin remodeling enzymes. Methods Enzymol. 2022; 673:1-17.
    View in: PubMed
    Score: 0.700
  3. Singh RK, Fan J, Gioacchini N, Watanabe S, Bilsel O, Peterson CL. Transient Kinetic Analysis of SWR1C-Catalyzed H2A.Z Deposition Unravels the Impact of Nucleosome Dynamics and the Asymmetry of Histone Exchange. Cell Rep. 2019 04 09; 27(2):374-386.e4.
    View in: PubMed
    Score: 0.570
  4. Clapier CR, Iwasa J, Cairns BR, Peterson CL. Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes. Nat Rev Mol Cell Biol. 2017 07; 18(7):407-422.
    View in: PubMed
    Score: 0.500
  5. Adkins NL, Swygert SG, Kaur P, Niu H, Grigoryev SA, Sung P, Wang H, Peterson CL. Nucleosome-like, Single-stranded DNA (ssDNA)-Histone Octamer Complexes and the Implication for DNA Double Strand Break Repair. J Biol Chem. 2017 Mar 31; 292(13):5271-5281.
    View in: PubMed
    Score: 0.491
  6. Watanabe S, Peterson CL. Response to Comment on "A histone acetylation switch regulates H2A.Z deposition by the SWR-C remodeling enzyme". Science. 2016 Jul 22; 353(6297):358.
    View in: PubMed
    Score: 0.472
  7. Manning BJ, Peterson CL. Direct interactions promote eviction of the Sir3 heterochromatin protein by the SWI/SNF chromatin remodeling enzyme. Proc Natl Acad Sci U S A. 2014 Dec 16; 111(50):17827-32.
    View in: PubMed
    Score: 0.421
  8. Swygert SG, Manning BJ, Senapati S, Kaur P, Lindsay S, Demeler B, Peterson CL. Solution-state conformation and stoichiometry of yeast Sir3 heterochromatin fibres. Nat Commun. 2014 Aug 28; 5:4751.
    View in: PubMed
    Score: 0.414
  9. Peterson CL, Almouzni G. Nucleosome dynamics as modular systems that integrate DNA damage and repair. Cold Spring Harb Perspect Biol. 2013 Sep 01; 5(9).
    View in: PubMed
    Score: 0.386
  10. Watanabe S, Peterson CL. Chromatin dynamics: flipping the switch on a chromatin remodeling machine. Cell Cycle. 2013 Aug 01; 12(15):2337-8.
    View in: PubMed
    Score: 0.383
  11. Adkins NL, Niu H, Sung P, Peterson CL. Nucleosome dynamics regulates DNA processing. Nat Struct Mol Biol. 2013 Jul; 20(7):836-42.
    View in: PubMed
    Score: 0.380
  12. Watanabe S, Radman-Livaja M, Rando OJ, Peterson CL. A histone acetylation switch regulates H2A.Z deposition by the SWR-C remodeling enzyme. Science. 2013 Apr 12; 340(6129):195-9.
    View in: PubMed
    Score: 0.376
  13. Manning BJ, Peterson CL. Releasing the brakes on a chromatin-remodeling enzyme. Nat Struct Mol Biol. 2013 Jan; 20(1):5-7.
    View in: PubMed
    Score: 0.369
  14. Peterson CL. Reconstitution of nucleosomal arrays using recombinant Drosophila ACF and NAP1. Cold Spring Harb Protoc. 2009 Apr; 2009(4):pdb.prot5114.
    View in: PubMed
    Score: 0.284
  15. Sinha M, Peterson CL. A Rad51 presynaptic filament is sufficient to capture nucleosomal homology during recombinational repair of a DNA double-strand break. Mol Cell. 2008 Jun 20; 30(6):803-10.
    View in: PubMed
    Score: 0.269
  16. Carruthers LM, Marton LJ, Peterson CL. Polyamine analogues: potent inducers of nucleosomal array oligomerization and inhibitors of yeast cell growth. Biochem J. 2007 Aug 01; 405(3):541-5.
    View in: PubMed
    Score: 0.253
  17. Fry CJ, Norris A, Cosgrove M, Boeke JD, Peterson CL. The LRS and SIN domains: two structurally equivalent but functionally distinct nucleosomal surfaces required for transcriptional silencing. Mol Cell Biol. 2006 Dec; 26(23):9045-59.
    View in: PubMed
    Score: 0.239
  18. Shogren-Knaak M, Ishii H, Sun JM, Pazin MJ, Davie JR, Peterson CL. Histone H4-K16 acetylation controls chromatin structure and protein interactions. Science. 2006 Feb 10; 311(5762):844-7.
    View in: PubMed
    Score: 0.229
  19. Chio US, Rechiche O, Bryll AR, Zhu J, Leith EM, Feldman JL, Peterson CL, Tan S, Armache JP. Cryo-EM structure of the human Sirtuin 6-nucleosome complex. Sci Adv. 2023 04 14; 9(15):eadf7586.
    View in: PubMed
    Score: 0.188
  20. Shogren-Knaak MA, Fry CJ, Peterson CL. A native peptide ligation strategy for deciphering nucleosomal histone modifications. J Biol Chem. 2003 May 02; 278(18):15744-8.
    View in: PubMed
    Score: 0.186
  21. Fan J, Moreno AT, Baier AS, Loparo JJ, Peterson CL. H2A.Z deposition by SWR1C involves multiple ATP-dependent steps. Nat Commun. 2022 11 17; 13(1):7052.
    View in: PubMed
    Score: 0.183
  22. Horn PJ, Peterson CL. Molecular biology. Chromatin higher order folding--wrapping up transcription. Science. 2002 Sep 13; 297(5588):1824-7.
    View in: PubMed
    Score: 0.181
  23. Fry CJ, Peterson CL. Transcription. Unlocking the gates to gene expression. Science. 2002 Mar 08; 295(5561):1847-8.
    View in: PubMed
    Score: 0.174
  24. Horn PJ, Crowley KA, Carruthers LM, Hansen JC, Peterson CL. The SIN domain of the histone octamer is essential for intramolecular folding of nucleosomal arrays. Nat Struct Biol. 2002 Mar; 9(3):167-71.
    View in: PubMed
    Score: 0.174
  25. Oberbeckmann E, Niebauer V, Watanabe S, Farnung L, Moldt M, Schmid A, Cramer P, Peterson CL, Eustermann S, Hopfner KP, Korber P. Ruler elements in chromatin remodelers set nucleosome array spacing and phasing. Nat Commun. 2021 05 28; 12(1):3232.
    View in: PubMed
    Score: 0.165
  26. Liu WH, Zheng J, Feldman JL, Klein MA, Kuznetsov VI, Peterson CL, Griffin PR, Denu JM. Multivalent interactions drive nucleosome binding and efficient chromatin deacetylation by SIRT6. Nat Commun. 2020 10 16; 11(1):5244.
    View in: PubMed
    Score: 0.158
  27. Topal S, Vasseur P, Radman-Livaja M, Peterson CL. Distinct transcriptional roles for Histone H3-K56 acetylation during the cell cycle in Yeast. Nat Commun. 2019 09 26; 10(1):4372.
    View in: PubMed
    Score: 0.147
  28. Gioacchini N, Peterson CL. Chromatin remodeling: a complex affair. EMBO Rep. 2017 10; 18(10):1673-1674.
    View in: PubMed
    Score: 0.127
  29. Azmi IF, Watanabe S, Maloney MF, Kang S, Belsky JA, MacAlpine DM, Peterson CL, Bell SP. Nucleosomes influence multiple steps during replication initiation. Elife. 2017 03 21; 6.
    View in: PubMed
    Score: 0.124
  30. Echtenkamp FJ, Gvozdenov Z, Adkins NL, Zhang Y, Lynch-Day M, Watanabe S, Peterson CL, Freeman BC. Hsp90 and p23 Molecular Chaperones Control Chromatin Architecture by Maintaining the Functional Pool of the RSC Chromatin Remodeler. Mol Cell. 2016 12 01; 64(5):888-899.
    View in: PubMed
    Score: 0.120
  31. Krietenstein N, Wal M, Watanabe S, Park B, Peterson CL, Pugh BF, Korber P. Genomic Nucleosome Organization Reconstituted with Pure Proteins. Cell. 2016 Oct 20; 167(3):709-721.e12.
    View in: PubMed
    Score: 0.120
  32. Rege M, Subramanian V, Zhu C, Hsieh TH, Weiner A, Friedman N, Clauder-M?nster S, Steinmetz LM, Rando OJ, Boyer LA, Peterson CL. Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis. Cell Rep. 2015 Nov 24; 13(8):1610-22.
    View in: PubMed
    Score: 0.112
  33. Liu N, Peterson CL, Hayes JJ. SWI/SNF- and RSC-catalyzed nucleosome mobilization requires internal DNA loop translocation within nucleosomes. Mol Cell Biol. 2011 Oct; 31(20):4165-75.
    View in: PubMed
    Score: 0.084
  34. Wippo CJ, Israel L, Watanabe S, Hochheimer A, Peterson CL, Korber P. The RSC chromatin remodelling enzyme has a unique role in directing the accurate positioning of nucleosomes. EMBO J. 2011 Apr 06; 30(7):1277-88.
    View in: PubMed
    Score: 0.081
  35. Papamichos-Chronakis M, Watanabe S, Rando OJ, Peterson CL. Global regulation of H2A.Z localization by the INO80 chromatin-remodeling enzyme is essential for genome integrity. Cell. 2011 Jan 21; 144(2):200-13.
    View in: PubMed
    Score: 0.081
  36. Watanabe S, Resch M, Lilyestrom W, Clark N, Hansen JC, Peterson C, Luger K. Structural characterization of H3K56Q nucleosomes and nucleosomal arrays. Biochim Biophys Acta. 2010 May-Jun; 1799(5-6):480-6.
    View in: PubMed
    Score: 0.075
  37. Fu Y, Sinha M, Peterson CL, Weng Z. The insulator binding protein CTCF positions 20 nucleosomes around its binding sites across the human genome. PLoS Genet. 2008 Jul 25; 4(7):e1000138.
    View in: PubMed
    Score: 0.068
  38. Yang X, Zaurin R, Beato M, Peterson CL. Swi3p controls SWI/SNF assembly and ATP-dependent H2A-H2B displacement. Nat Struct Mol Biol. 2007 Jun; 14(6):540-7.
    View in: PubMed
    Score: 0.062
  39. Zhang Y, Smith CL, Saha A, Grill SW, Mihardja S, Smith SB, Cairns BR, Peterson CL, Bustamante C. DNA translocation and loop formation mechanism of chromatin remodeling by SWI/SNF and RSC. Mol Cell. 2006 Nov 17; 24(4):559-68.
    View in: PubMed
    Score: 0.060
  40. Shundrovsky A, Smith CL, Lis JT, Peterson CL, Wang MD. Probing SWI/SNF remodeling of the nucleosome by unzipping single DNA molecules. Nat Struct Mol Biol. 2006 Jun; 13(6):549-54.
    View in: PubMed
    Score: 0.058
  41. Smith CL, Peterson CL. A conserved Swi2/Snf2 ATPase motif couples ATP hydrolysis to chromatin remodeling. Mol Cell Biol. 2005 Jul; 25(14):5880-92.
    View in: PubMed
    Score: 0.055
  42. Smith CL, Peterson CL. ATP-dependent chromatin remodeling. Curr Top Dev Biol. 2005; 65:115-48.
    View in: PubMed
    Score: 0.053
  43. Vicent GP, Nacht AS, Smith CL, Peterson CL, Dimitrov S, Beato M. DNA instructed displacement of histones H2A and H2B at an inducible promoter. Mol Cell. 2004 Nov 05; 16(3):439-52.
    View in: PubMed
    Score: 0.052
  44. Peterson CL, C?t? J. Cellular machineries for chromosomal DNA repair. Genes Dev. 2004 Mar 15; 18(6):602-16.
    View in: PubMed
    Score: 0.050
  45. Gaillard H, Fitzgerald DJ, Smith CL, Peterson CL, Richmond TJ, Thoma F. Chromatin remodeling activities act on UV-damaged nucleosomes and modulate DNA damage accessibility to photolyase. J Biol Chem. 2003 May 16; 278(20):17655-63.
    View in: PubMed
    Score: 0.047
  46. Jaskelioff M, Van Komen S, Krebs JE, Sung P, Peterson CL. Rad54p is a chromatin remodeling enzyme required for heteroduplex DNA joint formation with chromatin. J Biol Chem. 2003 Mar 14; 278(11):9212-8.
    View in: PubMed
    Score: 0.046
  47. Peterson CL. Chromatin remodeling: nucleosomes bulging at the seams. Curr Biol. 2002 Apr 02; 12(7):R245-7.
    View in: PubMed
    Score: 0.044
  48. Brower-Toland BD, Smith CL, Yeh RC, Lis JT, Peterson CL, Wang MD. Mechanical disruption of individual nucleosomes reveals a reversible multistage release of DNA. Proc Natl Acad Sci U S A. 2002 Feb 19; 99(4):1960-5.
    View in: PubMed
    Score: 0.043
  49. Peterson CL. ATP-dependent chromatin remodeling: going mobile. FEBS Lett. 2000 Jun 30; 476(1-2):68-72.
    View in: PubMed
    Score: 0.039
  50. Wang A, Kolhe JA, Gioacchini N, Baade I, Brieher WM, Peterson CL, Freeman BC. Mechanism of Long-Range Chromosome Motion Triggered by Gene Activation. Dev Cell. 2020 02 10; 52(3):309-320.e5.
    View in: PubMed
    Score: 0.037
  51. Jeronimo C, Watanabe S, Kaplan CD, Peterson CL, Robert F. The Histone Chaperones FACT and Spt6 Restrict H2A.Z from Intragenic Locations. Mol Cell. 2015 Jun 18; 58(6):1113-23.
    View in: PubMed
    Score: 0.027
  52. Carey MF, Peterson CL, Smale ST. In vivo DNase I, MNase, and restriction enzyme footprinting via ligation-mediated polymerase chain reaction (LM-PCR). Cold Spring Harb Protoc. 2009 Sep; 2009(9):pdb.prot5277.
    View in: PubMed
    Score: 0.018
  53. Dechassa ML, Zhang B, Horowitz-Scherer R, Persinger J, Woodcock CL, Peterson CL, Bartholomew B. Architecture of the SWI/SNF-nucleosome complex. Mol Cell Biol. 2008 Oct; 28(19):6010-21.
    View in: PubMed
    Score: 0.017
  54. Hill DA, Peterson CL, Imbalzano AN. Effects of HMGN1 on chromatin structure and SWI/SNF-mediated chromatin remodeling. J Biol Chem. 2005 Dec 16; 280(50):41777-83.
    View in: PubMed
    Score: 0.014
  55. Cheung WL, Turner FB, Krishnamoorthy T, Wolner B, Ahn SH, Foley M, Dorsey JA, Peterson CL, Berger SL, Allis CD. Phosphorylation of histone H4 serine 1 during DNA damage requires casein kinase II in S. cerevisiae. Curr Biol. 2005 Apr 12; 15(7):656-60.
    View in: PubMed
    Score: 0.014
Connection Strength

The connection strength for concepts is the sum of the scores for each matching publication.

Publication scores are based on many factors, including how long ago they were written and whether the person is a first or senior author.