All Stories

  1. Selective chemical tracking of DNA methylomes in live cells

    Article • Epigenomics, May 2025, Taylor & Francis

    Professor Saulius Klimašauskas

  2. Engineered Methionine Adenosyltransferase Cascades for Metabolic Labeling of Individual DNA Methylomes in Live Cells

    Article • Journal of the American Chemical Society, June 2024, American Chemical Society (ACS)

    Professor Saulius Klimašauskas

  3. One-pot trimodal mapping of unmethylated, hydroxymethylated, and open chromatin sites unveils distinctive 5hmC roles at dynamic chromatin loci

    Article • Cell Chemical Biology, March 2024, Elsevier

    Professor Saulius Klimašauskas

  4. 5-Hydroxymethylcytosine: the many faces of the sixth base of mammalian DNA

    Article • Chemical Society Reviews, January 2024, Royal Society of Chemistry

    Professor Saulius Klimašauskas

  5. Chemical Expansion of the Methyltransferase Reaction: Tools for DNA Labeling and Epigenome Analysis

    Article • Accounts of Chemical Research, October 2023, American Chemical Society (ACS)

    Professor Saulius Klimašauskas

  6. Synthesis of S‐Adenosyl‐L‐Methionine Analogs with Extended Transferable Groups for Methyltransferase‐Directed Labeling of DNA and RNA

    Article • Current Protocols, June 2023, Wiley

    Professor Saulius Klimašauskas

  7. Enhanced nucleosome assembly at CpG sites containing an extended 5-methylcytosine analogue

    Article • Nucleic Acids Research, June 2022, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  8. FANCD2 maintains replication fork stability during misincorporation of the DNA demethylation products 5-hydroxymethyl-2’-deoxycytidine and 5-hydroxymethyl-2’-deoxyuridine

    Article • Cell Death and Disease, May 2022, Springer Science + Business Media

    Professor Saulius Klimašauskas

  9. Distribution and regulatory roles of oxidized 5-methylcytosines in DNA and RNA of the basidiomycete fungi Laccaria bicolor and Coprinopsis cinerea

    Article • Open Biology, March 2022, Royal Society Publishing

    Professor Saulius Klimašauskas

  10. Selective chemical tracking of Dnmt1 catalytic activity in live cells

    Article • Molecular Cell, March 2022, Elsevier

    Professor Saulius Klimašauskas

  11. DNA Labeling Using DNA Methyltransferases

    Article • January 2022, Springer Science + Business Media

    Professor Saulius Klimašauskas

  12. Alleviation of C⋅C Mismatches in DNA by the Escherichia coli Fpg Protein

    Article • Frontiers in Microbiology, June 2021, Frontiers

    Professor Saulius Klimašauskas

  13. Methyltransferase-directed orthogonal tagging and sequencing of miRNAs and bacterial small RNAs

    Article • BMC Biology, June 2021, Springer Science + Business Media

    Professor Saulius Klimašauskas

  14. Selective immunocapture and light-controlled traceless release of transiently caged proteins

    Article • STAR Protocols, June 2021, Elsevier

    Professor Saulius Klimašauskas

  15. Photocage-Selective Capture and Light-Controlled Release of Target Proteins

    Article • iScience, December 2020, Elsevier

    Professor Saulius Klimašauskas

  16. Enzymatic Hydroxylation and Excision of Extended 5-Methylcytosine Analogues

    Article • Journal of Molecular Biology, November 2020, Elsevier

    Professor Saulius Klimašauskas

  17. Precise genomic mapping of 5-hydroxymethylcytosine via covalent tether-directed sequencing

    Article • PLoS Biology, April 2020, PLOS

    Professor Saulius Klimašauskas

  18. An Adversarial DNA N6-Methyladenine-Sensor Network Preserves Polycomb Silencing

    Article • Molecular Cell, April 2019, Elsevier

    Professor Saulius Klimašauskas

  19. Repurposing enzymatic transferase reactions for targeted labeling and analysis of DNA and RNA

    Article • Current Opinion in Biotechnology, February 2019, Elsevier

    Professor Saulius Klimašauskas

  20. Editorial overview: Current advances in analytical biotechnology: from single molecules to whole organisms

    Article • Current Opinion in Biotechnology, February 2019, Elsevier

    Professor Saulius Klimašauskas

  21. Animal Hen1 2′-O-methyltransferases as tools for 3′-terminal functionalization and labelling of single-stranded RNAs

    Article • Nucleic Acids Research, June 2018, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  22. Excision of the doubly methylated base N 4 ,5-dimethylcytosine from DNA by Escherichia coli Nei and Fpg proteins

    Article • Philosophical Transactions of the Royal Society B Biological Sciences, April 2018, Royal Society Publishing

    Professor Saulius Klimašauskas

  23. Phenotyping cognitive impairment in dialysis patients: insights from experimental mouse models

    Article • Acta Neuropathologica, October 2017, Springer Science + Business Media

    Professor Saulius Klimašauskas

  24. Archaeal fibrillarin-Nop5 heterodimer 2’-O-methylates RNA independently of the C/D guide RNP particle

    Article • RNA, June 2017, Cold Spring Harbor Laboratory Press

    Professor Saulius Klimašauskas

  25. Oligonucleotide-Addressed Covalent 3′-Terminal Derivatization of Small RNA Strands for Enrichment and Visualization

    Article • Angewandte Chemie, May 2017, Wiley

    Professor Saulius Klimašauskas

  26. Tethered Oligonucleotide-Primed Sequencing, TOP-Seq: A High-Resolution Economical Approach for DNA Epigenome Profiling

    Article • Molecular Cell, January 2017, Elsevier

    Professor Saulius Klimašauskas

  27. Tandem virtual screening targeting the SRA domain of UHRF1 identifies a novel chemical tool modulating DNA methylation

    Article • European Journal of Medicinal Chemistry, May 2016, Elsevier

    Professor Saulius Klimašauskas

  28. Synthesis of S ‐Adenosyl‐L‐Methionine Analogs with Extended Transferable Groups for Methyltransferase‐Directed Labeling of DNA and RNA

    Article • Current Protocols in Nucleic Acid Chemistry, March 2016, Wiley

    Professor Saulius Klimašauskas

  29. Lineage-specific variations in the trigger loop modulate RNA proofreading by bacterial RNA polymerases

    Article • Nucleic Acids Research, January 2016, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  30. Functional mapping of the plant small RNA methyltransferase: HEN1 physically interacts with HYL1 and DICER-LIKE 1 proteins

    Article • Nucleic Acids Research, February 2015, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  31. Biosynthetic selenoproteins with genetically-encoded photocaged selenocysteines

    Article • Chemical Communications, January 2015, Royal Society of Chemistry

    Professor Saulius Klimašauskas

  32. Selective Covalent Labeling of miRNA and siRNA Duplexes Using HEN1 Methyltransferase

    Article • Journal of the American Chemical Society, October 2014, American Chemical Society (ACS)

    Professor Saulius Klimašauskas

  33. Direct Decarboxylation of 5-Carboxylcytosine by DNA C5- Methyltransferases

    Article • Journal of the American Chemical Society, April 2014, American Chemical Society (ACS)

    Professor Saulius Klimašauskas

  34. Interplay between the trigger loop and the F loop during RNA polymerase catalysis

    Article • Nucleic Acids Research, October 2013, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  35. DNA unmethylome profiling by covalent capture of CpG sites

    Article • Nature Communications, July 2013, Springer Science + Business Media

    Professor Saulius Klimašauskas

  36. Mechanistic insights into small RNA recognition and modification by the HEN1 methyltransferase

    Article • Biochemical Journal, July 2013, Portland Press Ltd.

    Professor Saulius Klimašauskas

  37. Enhanced Chemical Stability of AdoMet Analogues for Improved Methyltransferase-Directed Labeling of DNA

    Article • ACS Chemical Biology, June 2013, American Chemical Society (ACS)

    Professor Saulius Klimašauskas

  38. Engineering the DNA cytosine-5 methyltransferase reaction for sequence-specific labeling of DNA

    Article • Nucleic Acids Research, October 2012, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  39. 5-hmC in the brain is abundant in synaptic genes and shows differences at the exon-intron boundary

    Article • Nature Structural & Molecular Biology, September 2012, Springer Science + Business Media

    Professor Saulius Klimašauskas

  40. Recognition of guanosine by dissimilar tRNA methyltransferases

    Article • RNA, July 2012, Cold Spring Harbor Laboratory Press

    Professor Saulius Klimašauskas

  41. Programmable sequence-specific click-labeling of RNA using archaeal box C/D RNP methyltransferases

    Article • Nucleic Acids Research, May 2012, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  42. Usage of rRNA-methyltransferase for site-specific fluorescent labeling

    Article • Moscow University Chemistry Bulletin, March 2012, Allerton Press

    Professor Saulius Klimašauskas

  43. 5-Hydroxymethylcytosine – the elusive epigenetic mark in mammalian DNA

    Article • Chemical Society Reviews, January 2012, Royal Society of Chemistry

    Professor Saulius Klimašauskas

  44. Methyltransferase-Directed Derivatization of 5-Hydroxymethylcytosine in DNA

    Article • Angewandte Chemie, January 2011, Wiley

    Professor Saulius Klimašauskas

  45. Methyltransferase-Directed Derivatization of 5-Hydroxymethylcytosine in DNA

    Article • Angewandte Chemie, January 2011, Wiley

    Professor Saulius Klimašauskas

  46. Direct observation of cytosine flipping and covalent catalysis in a DNA methyltransferase

    Article • Nucleic Acids Research, January 2011, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  47. Modulation of RNA polymerase activity through the trigger loop folding

    Article • Transcription, September 2010, Taylor & Francis

    Professor Saulius Klimašauskas

  48. Kinetic and functional analysis of the small RNA methyltransferase HEN1: The catalytic domain is essential for preferential modification of duplex RNA

    Article • RNA, August 2010, Cold Spring Harbor Laboratory Press

    Professor Saulius Klimašauskas

  49. DNA fluorocode: A single molecule, optical map of DNA with nanometre resolution

    Article • Chemical Science, January 2010, Royal Society of Chemistry

    Professor Saulius Klimašauskas, Dr Robert K Neely

  50. Allosteric control of catalysis by the F loop of RNA polymerase

    Article • Proceedings of the National Academy of Sciences, November 2009, Proceedings of the National Academy of Sciences

    Professor Saulius Klimašauskas

  51. A directed evolution design of a GCG-specific DNA hemimethylase

    Article • Nucleic Acids Research, September 2009, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  52. Cytosine-5-methyltransferases add aldehydes to DNA

    Article • May 2009, Nature

    Professor Saulius Klimašauskas

  53. Biophysical Approaches To Study Dna Base Flipping

    Article • January 2009, Springer Science + Business Media

    Professor Saulius Klimašauskas

  54. AdoMet-Dependent Methyltransferases, Chemistry of

    Article • May 2008, Wiley

    Professor Saulius Klimašauskas

  55. Chemical mapping of cytosines enzymatically flipped out of the DNA helix

    Article • Nucleic Acids Research, April 2008, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  56. Specific Recognition of the -10 Promoter Element by the Free RNA Polymerase   Subunit

    Article • Journal of Biological Chemistry, May 2007, American Society for Biochemistry & Molecular Biology (ASBMB)

    Professor Saulius Klimašauskas

  57. The stereochemistry of benzo[a]pyrene-2′-deoxyguanosine adducts affects DNA methylation by SssI and HhaI DNA methyltransferases

    Article • European Journal of Biochemistry, March 2007, Wiley

    Professor Saulius Klimašauskas

  58. Targeted Labeling of DNA by Methyltransferase-Directed Transfer of Activated Groups (mTAG)

    Article • Journal of the American Chemical Society, March 2007, American Chemical Society (ACS)

    Professor Saulius Klimašauskas

  59. A new tool for biotechnology: AdoMet-dependent methyltransferases

    Article • Trends in Biotechnology, March 2007, Elsevier

    Professor Saulius Klimašauskas

  60. Approaches for Studying MicroRNA and Small Interfering RNA Methylation In Vitro and In Vivo

    Article • January 2007, Elsevier

    Professor Saulius Klimašauskas, Xuemei Chen

  61. Synthesis of S-adenosyl-L-methionine analogs and their use for sequence-specific transalkylation of DNA by methyltransferases

    Article • Nature Protocols, November 2006, Springer Science + Business Media

    Professor Saulius Klimašauskas

  62. A Basal Promoter Element Recognized by Free RNA Polymerase σ Subunit Determines Promoter Recognition by RNA Polymerase Holoenzyme

    Article • Molecular Cell, July 2006, Elsevier

    Professor Saulius Klimašauskas

  63. HhaI DNA methyltransferase complex with oligonucleotide containing 2- aminopurine opposite to the target base (GCGC:GMPC) and SAH

    Article • December 2005, Protein Data Bank, Rutgers University

    Professor Saulius Klimašauskas

  64. Time-resolved fluorescence of 2-aminopurine as a probe of base flipping in M.HhaI-DNA complexes

    Article • Nucleic Acids Research, December 2005, Oxford University Press (OUP)

    Professor Saulius Klimašauskas, Dr Robert K Neely

  65. Direct transfer of extended groups from synthetic cofactors by DNA methyltransferases

    Article • Nature Chemical Biology, November 2005, Nature

    Professor Saulius Klimašauskas

  66. Probing a rate-limiting step by mutational perturbation of AdoMet binding in the HhaI methyltransferase

    Article • Nucleic Acids Research, January 2005, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  67. Processive Methylation of Hemimethylated CpG Sites by Mouse Dnmt1 DNA Methyltransferase

    Article • Journal of Biological Chemistry, October 2004, American Society for Biochemistry & Molecular Biology (ASBMB)

    Professor Saulius Klimašauskas

  68. HhaI DNA Methyltransferase Uses the Protruding Gln237 for Active Flipping of Its Target Cytosine

    Article • Structure, June 2004, Elsevier

    Professor Saulius Klimašauskas

  69. Solubility engineering of the HhaI methyltransferase

    Article • Protein Engineering Design and Selection, April 2003, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  70. N4,5-dimethylcytosine, a novel hypermodified base in DNA

    Article • Nucleic Acids Symposium Series, November 2002, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  71. Circular permutation of DNA cytosine-N4 methyltransferases: in vivo coexistence in the BcnI system and in vitro probing by hybrid formation

    Article • Nucleic Acids Research, April 2002, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  72. The Mechanism of DNA Cytosine-5 Methylation: KINETIC AND MUTATIONAL DISSECTION OF HhaI METHYLTRANSFERASE

    Article • Journal of Biological Chemistry, March 2001, American Society for Biochemistry & Molecular Biology (ASBMB)

    Professor Saulius Klimašauskas

  73. Affinity photo-crosslinking study of the DNA base flipping pathway by HhaI methyltransferase

    Article • Nucleic Acids Symposium Series, October 2000, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  74. Bisulfite Sequencing Protocol Displays both 5-Methylcytosine and N4-Methylcytosine

    Article • Analytical Biochemistry, June 1999, Elsevier

    Professor Saulius Klimašauskas

  75. Chemical display of thymine residues flipped out by DNA methyltransferases

    Article • Nucleic Acids Research, August 1998, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  76. 2-Aminopurine as a fluorescent probe for DNA base flipping by methyltransferases

    Article • Nucleic Acids Research, February 1998, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  77. Dynamic modes of the flipped-out cytosine during HhaI methyltransferase-DNA interactions in solution

    Article • The EMBO Journal, January 1998, Wiley

    Professor Saulius Klimašauskas

  78. Enzymatic C5-Cytosine Methylation of DNA: Mechanistic Implications of New Crystal Structures forHhaI Methyltransferase-DNA-AdoHcy Complexes

    Article • Journal of Molecular Biology, September 1996, Elsevier

    Professor Saulius Klimašauskas

  79. Sequence similarity among type-II restriction endonucleases, related by their recognized 6-bp target and tetranucleotide-overhang cleavage

    Article • Gene, May 1995, Elsevier

    Professor Saulius Klimašauskas

  80. Disruption of the target G-C base-pair by the HhaI methyltransferase

    Article • Gene, May 1995, Elsevier

    Professor Saulius Klimašauskas

  81. M Hha l binds tightly to substrates containing mismatches at the target base

    Article • Nucleic Acids Research, January 1995, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  82. Hhal methyltransferase flips its target base out of the DNA helix

    Article • Cell, January 1994, Elsevier

    Professor Saulius Klimašauskas

  83. The DNA (cytosine-5) methyltransferases

    Article • Nucleic Acids Research, January 1994, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  84. Crystal Structure of the HhaI DNA Methyltransferase

    Article • Cold Spring Harbor Symposia on Quantitative Biology, January 1993, Cold Spring Harbor Laboratory Press

    Professor Saulius Klimašauskas

  85. Purification and properties of the Eco57l restriction endonuclease and methylas—prototypes of a new class (type IV)

    Article • Nucleic Acids Research, January 1992, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  86. Cloning and sequence analysis of the genes coding for Eco57l type IV restriction-modification enzymes

    Article • Nucleic Acids Research, January 1992, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  87. Alw 26l, Eco 31l and Esp 3l-type Ils methyltransferases modifying cytosine and adenine in complementary strands of the target DNA

    Article • Nucleic Acids Research, January 1992, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  88. The sequence specificity domain of cytosine-C5 methylases

    Article • Nucleic Acids Research, January 1991, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  89. M. Sma l is an N4-methylcytosine specific DNA-methylase

    Article • Nucleic Acids Research, January 1990, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  90. Sequence motifs characteristic of DNA[cytosine-N4]methyltransferases: similarity to adenine and cytosine-C5 DNA-methylases

    Article • Nucleic Acids Research, January 1989, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  91. Restriction endonucleases of a new type

    Article • Gene, December 1988, Elsevier

    Professor Saulius Klimašauskas

  92. Interaction of AluI, Cfr6I and PvuII restriction-modification enzymes with substrates containing either N4-methylcytosine or 5-methylcytosine

    Article • Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression, August 1987, Elsevier

    Professor Saulius Klimašauskas

  93. Synthesis and physical characterization of DNA fragments containing N4-methylcytosine and 5-methylcytosine

    Article • Nucleic Acids Research, January 1987, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  94. Cleavage of methylated CCCGGG sequences containing either N4-methylcytosine or 5-methytcytosine with Mspl, Hpall, Smal, Xmal and Cfr9I restriction endonudeases

    Article • Nucleic Acids Research, January 1987, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  95. Analysis of products of DNA modification by methylases: A procedure for the determination of 5- and N4-methylcytosines in DNA

    Article • Analytical Biochemistry, July 1985, Elsevier

    Professor Saulius Klimašauskas

  96. Characterization of restriction-modification enzymes Cfr13 I fromCitrobacter freundiiRFL13

    Article • FEBS Letters, March 1985, Wiley

    Professor Saulius Klimašauskas

  97. Investigation of restriction-modification enzymes from M. varians RFL19 with a new type of specificity toward modification of substrate

    Article • Nucleic Acids Research, January 1985, Oxford University Press (OUP)

    Professor Saulius Klimašauskas

  98. Cytosine modification in DNA by Bcn I methylase yields N 4 -methylcytosine

    Article • FEBS Letters, September 1983, Wiley

    Professor Saulius Klimašauskas