Published in Proc Natl Acad Sci U S A on February 06, 2007
How chromatin-binding modules interpret histone modifications: lessons from professional pocket pickers. Nat Struct Mol Biol (2007) 10.98
Multivalent engagement of chromatin modifications by linked binding modules. Nat Rev Mol Cell Biol (2007) 8.14
CBP-mediated acetylation of histone H3 lysine 27 antagonizes Drosophila Polycomb silencing. Development (2009) 3.34
A method for genetically installing site-specific acetylation in recombinant histones defines the effects of H3 K56 acetylation. Mol Cell (2009) 3.11
Cathepsin L proteolytically processes histone H3 during mouse embryonic stem cell differentiation. Cell (2008) 3.09
The generating function of CID, ETD, and CID/ETD pairs of tandem mass spectra: applications to database search. Mol Cell Proteomics (2010) 2.64
Decoding protein modifications using top-down mass spectrometry. Nat Methods (2007) 2.62
High throughput characterization of combinatorial histone codes. Mol Cell Proteomics (2009) 2.52
Mass spectrometry identifies and quantifies 74 unique histone H4 isoforms in differentiating human embryonic stem cells. Proc Natl Acad Sci U S A (2008) 2.29
RNAi-dependent H3K27 methylation is required for heterochromatin formation and DNA elimination in Tetrahymena. Genes Dev (2007) 2.26
A proteomics grade electron transfer dissociation-enabled hybrid linear ion trap-orbitrap mass spectrometer. J Proteome Res (2008) 1.92
Methods for analyzing peptides and proteins on a chromatographic timescale by electron-transfer dissociation mass spectrometry. Nat Protoc (2008) 1.87
Tissue-specific expression and post-translational modification of histone H3 variants. J Proteome Res (2008) 1.84
Dynamic changes in histone acetylation regulate origins of DNA replication. Nat Struct Mol Biol (2010) 1.82
Interpreting the language of histone and DNA modifications. Biochim Biophys Acta (2014) 1.80
Modification-specific proteomics: strategies for characterization of post-translational modifications using enrichment techniques. Proteomics (2009) 1.66
Collisions or electrons? Protein sequence analysis in the 21st century. Anal Chem (2009) 1.62
ChAP-MS: a method for identification of proteins and histone posttranslational modifications at a single genomic locus. Cell Rep (2012) 1.42
SIRT1-dependent regulation of chromatin and transcription: linking NAD(+) metabolism and signaling to the control of cellular functions. Biochim Biophys Acta (2009) 1.41
Breaking the histone code with quantitative mass spectrometry. Expert Rev Proteomics (2011) 1.39
Quantitative proteomic analysis of histone modifications. Chem Rev (2015) 1.32
A histone demethylase is necessary for regeneration in zebrafish. Proc Natl Acad Sci U S A (2009) 1.31
Dynamic acetylation of all lysine-4 trimethylated histone H3 is evolutionarily conserved and mediated by p300/CBP. Proc Natl Acad Sci U S A (2011) 1.30
Quantitative assessment of chromatin immunoprecipitation grade antibodies directed against histone modifications reveals patterns of co-occurring marks on histone protein molecules. Mol Cell Proteomics (2012) 1.27
Identification and verification of lysine propionylation and butyrylation in yeast core histones using PTMap software. J Proteome Res (2009) 1.25
Defining the budding yeast chromatin-associated interactome. Mol Syst Biol (2010) 1.19
Epigenetics of ciliates. Cold Spring Harb Perspect Biol (2013) 1.14
A method for systematic mapping of protein lysine methylation identifies functions for HP1β in DNA damage response. Mol Cell (2013) 1.14
Analysis of proteins and peptides on a chromatographic timescale by electron-transfer dissociation MS. FEBS J (2007) 1.14
Balancing histone methylation activities in psychiatric disorders. Trends Mol Med (2011) 1.14
Analysis of histones in Xenopus laevis. II. mass spectrometry reveals an index of cell type-specific modifications on H3 and H4. J Biol Chem (2008) 1.12
High-throughput middle-down analysis using an orbitrap. J Proteome Res (2010) 1.10
Saccharomyces cerevisiae Yta7 regulates histone gene expression. Genetics (2008) 1.09
Unbiased proteomic screen for binding proteins to modified lysines on histone H3. Proteomics (2009) 1.08
An Interactive Database for the Assessment of Histone Antibody Specificity. Mol Cell (2015) 1.07
The structural and functional signatures of proteins that undergo multiple events of post-translational modification. Protein Sci (2014) 1.05
Bioinformatic analysis and post-translational modification crosstalk prediction of lysine acetylation. PLoS One (2011) 1.04
A noncanonical bromodomain in the AAA ATPase protein Yta7 directs chromosomal positioning and barrier chromatin activity. Mol Cell Biol (2009) 1.00
Spatial and temporal plasticity of chromatin during programmed DNA-reorganization in Stylonychia macronuclear development. Epigenetics Chromatin (2008) 1.00
Modulation of 14-3-3 interaction with phosphorylated histone H3 by combinatorial modification patterns. Cell Cycle (2008) 0.99
Large scale analysis of co-existing post-translational modifications in histone tails reveals global fine structure of cross-talk. Mol Cell Proteomics (2014) 0.97
Early life adversity and the epigenetic programming of hypothalamic-pituitary-adrenal function. Dialogues Clin Neurosci (2014) 0.97
Mass spectrometry-based proteomics for the analysis of chromatin structure and dynamics. Int J Mol Sci (2013) 0.97
CR Cistrome: a ChIP-Seq database for chromatin regulators and histone modification linkages in human and mouse. Nucleic Acids Res (2013) 0.95
Identification of lysine 37 of histone H2B as a novel site of methylation. PLoS One (2011) 0.94
The proteomic investigation of chromatin functional domains reveals novel synergisms among distinct heterochromatin components. Mol Cell Proteomics (2013) 0.93
Differential epigenetic modifications of histones at the myosin heavy chain genes in fast and slow skeletal muscle fibers and in response to muscle unloading. Am J Physiol Cell Physiol (2009) 0.93
The ChroP approach combines ChIP and mass spectrometry to dissect locus-specific proteomic landscapes of chromatin. J Vis Exp (2014) 0.87
Phosphoproteomics by mass spectrometry: insights, implications, applications and limitations. Expert Rev Proteomics (2009) 0.86
Unraveling the histone's potential: a proteomics perspective. Epigenetics (2008) 0.86
Azalysine analogues as probes for protein lysine deacetylation and demethylation. J Am Chem Soc (2012) 0.84
Methods for Activity Analysis of the Proteins that Regulate Histone Methylation. Curr Chem Genomics (2011) 0.84
Efficient readout of posttranslational codes on the 50-residue tail of histone H3 by high-resolution MS/MS. Anal Biochem (2009) 0.84
Genetic and genomewide analysis of simultaneous mutations in acetylated and methylated lysine residues in histone H3 in Saccharomyces cerevisiae. Genetics (2008) 0.84
Histone H3K27 trimethylation inhibits H3 binding and function of SET1-like H3K4 methyltransferase complexes. Mol Cell Biol (2013) 0.83
Class I histone deacetylase Thd1p promotes global chromatin condensation in Tetrahymena thermophila. Eukaryot Cell (2007) 0.83
A Genome-Wide Chronological Study of Gene Expression and Two Histone Modifications, H3K4me3 and H3K9ac, during Developmental Leaf Senescence. Plant Physiol (2015) 0.83
Methylation of histone H3K23 blocks DNA damage in pericentric heterochromatin during meiosis. Elife (2014) 0.83
Initial characterization of histone H3 serine 10 O-acetylation. Epigenetics (2013) 0.82
A novel functional site in the PB2 subunit of influenza A virus essential for acetyl-CoA interaction, RNA polymerase activity, and viral replication. J Biol Chem (2014) 0.82
Nucleosome competition reveals processive acetylation by the SAGA HAT module. Proc Natl Acad Sci U S A (2015) 0.79
Lysine acetylation: elucidating the components of an emerging global signaling pathway in trypanosomes. J Biomed Biotechnol (2012) 0.79
Multiple levels of epigenetic control for bone biology and pathology. Bone (2015) 0.78
Genomics and proteomics in stem cell research: the road ahead. Anat Cell Biol (2010) 0.77
H3K36ac Is an Evolutionary Conserved Plant Histone Modification That Marks Active Genes. Plant Physiol (2016) 0.77
Progress in epigenetic histone modification analysis by mass spectrometry for clinical investigations. Expert Rev Proteomics (2015) 0.77
A quantitative analysis of histone methylation and acetylation isoforms from their deuteroacetylated derivatives: application to a series of knockout mutants. J Mass Spectrom (2013) 0.77
Quantitative Histone Mass Spectrometry Identifies Elevated Histone H3 Lysine 27 (Lys27) Trimethylation in Melanoma. Mol Cell Proteomics (2015) 0.76
Engram formation in psychiatric disorders. Front Neurosci (2014) 0.76
Separation and purification of multiply acetylated proteins using cation-exchange chromatography. Methods Mol Biol (2013) 0.76
Characterization of Complete Histone Tail Proteoforms Using Differential Ion Mobility Spectrometry. Anal Chem (2017) 0.75
Toward an Optimized Workflow for Middle-Down Proteomics. Anal Chem (2017) 0.75
Coordination of Cell Cycle Progression and Mitotic Spindle Assembly Involves Histone H3 Lysine 4 Methylation by Set1/COMPASS. Genetics (2016) 0.75
Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature (1970) 1528.65
Translating the histone code. Science (2001) 56.77
A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell (2006) 48.80
The language of covalent histone modifications. Nature (2000) 44.92
Crystal structure of the nucleosome core particle at 2.8 A resolution. Nature (1997) 44.55
Mass spectrometry-based proteomics. Nature (2003) 28.94
Genome-wide map of nucleosome acetylation and methylation in yeast. Cell (2005) 15.08
Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry. Proc Natl Acad Sci U S A (2004) 13.14
Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription. Cell (2005) 10.68
ING2 PHD domain links histone H3 lysine 4 methylation to active gene repression. Nature (2006) 9.30
Histone acetylation and an epigenetic code. Bioessays (2000) 8.84
Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. Cell (2005) 7.21
Regulation of HP1-chromatin binding by histone H3 methylation and phosphorylation. Nature (2005) 6.40
Isolation of micro- and macronuclei of Tetrahymena pyriformis. Methods Cell Biol (1975) 6.06
Methylation of histone H3 at lysine 4 is highly conserved and correlates with transcriptionally active nuclei in Tetrahymena. Proc Natl Acad Sci U S A (1999) 5.33
Chd1 chromodomain links histone H3 methylation with SAGA- and SLIK-dependent acetylation. Nature (2005) 5.15
ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation. Mol Cell (2006) 5.01
Eaf3 chromodomain interaction with methylated H3-K36 links histone deacetylation to Pol II elongation. Mol Cell (2005) 4.77
Reading protein modifications with interaction domains. Nat Rev Mol Cell Biol (2006) 4.55
Novel linear quadrupole ion trap/FT mass spectrometer: performance characterization and use in the comparative analysis of histone H3 post-translational modifications. J Proteome Res (2004) 4.32
Yng1 PHD finger binding to H3 trimethylated at K4 promotes NuA3 HAT activity at K14 of H3 and transcription at a subset of targeted ORFs. Mol Cell (2006) 3.87
Organismal differences in post-translational modifications in histones H3 and H4. J Biol Chem (2006) 3.84
Protein identification using sequential ion/ion reactions and tandem mass spectrometry. Proc Natl Acad Sci U S A (2005) 3.77
Methylation of histone h3 at lysine 9 targets programmed DNA elimination in tetrahymena. Cell (2002) 3.16
Top-down proteomics. Anal Chem (2004) 3.01
Expression patterns and post-translational modifications associated with mammalian histone H3 variants. J Biol Chem (2005) 3.00
Genome-wide patterns of histone modifications in yeast. Nat Rev Mol Cell Biol (2006) 2.88
Phosphorylation of histone H3 at serine 10 is correlated with chromosome condensation during mitosis and meiosis in Tetrahymena. Proc Natl Acad Sci U S A (1998) 2.60
Histone variants specific to the transcriptionally active, amitotically dividing macronucleus of the unicellular eucaryote, Tetrahymena thermophila. Cell (1980) 2.52
Differential histone H3 Lys-9 and Lys-27 methylation profiles on the X chromosome. Mol Cell Biol (2004) 2.43
Shotgun annotation of histone modifications: a new approach for streamlined characterization of proteins by top down mass spectrometry. J Am Chem Soc (2004) 2.36
It takes a PHD to read the histone code. Cell (2006) 2.34
The Yng1p plant homeodomain finger is a methyl-histone binding module that recognizes lysine 4-methylated histone H3. Mol Cell Biol (2006) 2.29
Mass spectrometric characterization of human histone H3: a bird's eye view. J Proteome Res (2006) 2.29
Precise characterization of human histones in the H2A gene family by top down mass spectrometry. J Proteome Res (2006) 2.09
Regulation of histone acetylation in Tetrahymena macro- and micronuclei. J Biol Chem (1982) 1.67
Proteolytic processing of histone H3 in chromatin: a physiologically regulated event in Tetrahymena micronuclei. Cell (1980) 1.62
Whole protein dissociation in a quadrupole ion trap: identification of an a priori unknown modified protein. Anal Chem (2004) 1.57
Analysis of intact proteins on a chromatographic time scale by electron transfer dissociation tandem mass spectrometry. Int J Mass Spectrom (2007) 1.56
Dynamic acetylation of all lysine 4-methylated histone H3 in the mouse nucleus: analysis at c-fos and c-jun. PLoS Biol (2005) 1.53
Gene-specific characterization of human histone H2B by electron capture dissociation. J Proteome Res (2006) 1.53
Characterization of Tetrahymena histone H2B variants and posttranslational populations by electron capture dissociation (ECD) Fourier transform ion cyclotron mass spectrometry (FT-ICR MS). Mol Cell Proteomics (2004) 1.50
A mass spectrometric "Western blot" to evaluate the correlations between histone methylation and histone acetylation. Proteomics (2004) 1.47
Analysis of histone subtypes and their modified forms by polyacrylamide gel electrophoresis. Methods Enzymol (1989) 1.41
Protein identification using 2D-LC-MS/MS. Methods (2005) 1.30
Mass spectrometric analysis of histone posttranslational modifications. Methods (2005) 1.27
Comprehensive phosphoprotein analysis of linker histone H1 from Tetrahymena thermophila. Mol Cell Proteomics (2006) 1.26
The use of mass spectrometry for the analysis of histone modifications. Methods Enzymol (2004) 1.04
X-ray structure of a voltage-dependent K+ channel. Nature (2003) 14.50
Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry. Proc Natl Acad Sci U S A (2004) 13.14
DNMT3L connects unmethylated lysine 4 of histone H3 to de novo methylation of DNA. Nature (2007) 11.14
A PHD finger of NURF couples histone H3 lysine 4 trimethylation with chromatin remodelling. Nature (2006) 10.73
Crystal structure and mechanism of a calcium-gated potassium channel. Nature (2002) 10.03
X-ray structure of a ClC chloride channel at 3.0 A reveals the molecular basis of anion selectivity. Nature (2002) 9.96
Methylation of lysine 4 on histone H3: intricacy of writing and reading a single epigenetic mark. Mol Cell (2007) 9.73
Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map. Nature (2007) 9.25
The open pore conformation of potassium channels. Nature (2002) 9.09
Sequence and structural convergence of broad and potent HIV antibodies that mimic CD4 binding. Science (2011) 9.00
WDR5 associates with histone H3 methylated at K4 and is essential for H3 K4 methylation and vertebrate development. Cell (2005) 8.86
Distinct factors control histone variant H3.3 localization at specific genomic regions. Cell (2010) 8.79
Histone and chromatin cross-talk. Curr Opin Cell Biol (2003) 8.69
Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae. Nat Biotechnol (2002) 8.37
Epigenetics: a landscape takes shape. Cell (2007) 8.29
MLL targets SET domain methyltransferase activity to Hox gene promoters. Mol Cell (2002) 8.17
Multivalent engagement of chromatin modifications by linked binding modules. Nat Rev Mol Cell Biol (2007) 8.14
Molecular basis for the discrimination of repressive methyl-lysine marks in histone H3 by Polycomb and HP1 chromodomains. Genes Dev (2003) 7.91
Molecular basis for site-specific read-out of histone H3K4me3 by the BPTF PHD finger of NURF. Nature (2006) 7.70
Ubiquitination of histone H2B regulates H3 methylation and gene silencing in yeast. Nature (2002) 7.54
The molecular architecture of the nuclear pore complex. Nature (2007) 6.93
Distinct regulation of autophagic activity by Atg14L and Rubicon associated with Beclin 1-phosphatidylinositol-3-kinase complex. Nat Cell Biol (2009) 6.69
Histone methyltransferases direct different degrees of methylation to define distinct chromatin domains. Mol Cell (2003) 6.44
Regulation of HP1-chromatin binding by histone H3 methylation and phosphorylation. Nature (2005) 6.40
Proteomic analysis of the mammalian nuclear pore complex. J Cell Biol (2002) 6.38
Inhibition of PRC2 activity by a gain-of-function H3 mutation found in pediatric glioblastoma. Science (2013) 6.29
Covalent histone modifications--miswritten, misinterpreted and mis-erased in human cancers. Nat Rev Cancer (2010) 6.27
Extraction, purification and analysis of histones. Nat Protoc (2007) 6.25
A large nucleolar U3 ribonucleoprotein required for 18S ribosomal RNA biogenesis. Nature (2002) 6.19
Physical association and coordinate function of the H3 K4 methyltransferase MLL1 and the H4 K16 acetyltransferase MOF. Cell (2005) 6.12
Regulation of MLL1 H3K4 methyltransferase activity by its core components. Nat Struct Mol Biol (2006) 6.03
Mouse polycomb proteins bind differentially to methylated histone H3 and RNA and are enriched in facultative heterochromatin. Mol Cell Biol (2006) 5.99
Epigenetic dynamics of imprinted X inactivation during early mouse development. Science (2003) 5.80
Ezh2 controls B cell development through histone H3 methylation and Igh rearrangement. Nat Immunol (2002) 5.67
RNA meets chromatin. Genes Dev (2005) 5.66
PR-Set7 is a nucleosome-specific methyltransferase that modifies lysine 20 of histone H4 and is associated with silent chromatin. Mol Cell (2002) 5.59
Human PAD4 regulates histone arginine methylation levels via demethylimination. Science (2004) 5.46
Set9, a novel histone H3 methyltransferase that facilitates transcription by precluding histone tail modifications required for heterochromatin formation. Genes Dev (2002) 5.43
Set2 is a nucleosomal histone H3-selective methyltransferase that mediates transcriptional repression. Mol Cell Biol (2002) 5.42
New nomenclature for chromatin-modifying enzymes. Cell (2007) 5.34
Histone hypercitrullination mediates chromatin decondensation and neutrophil extracellular trap formation. J Cell Biol (2009) 5.27
Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry. Proc Natl Acad Sci U S A (2007) 5.09
Determining the architectures of macromolecular assemblies. Nature (2007) 4.94
MicroRNAs in the miR-106b family regulate p21/CDKN1A and promote cell cycle progression. Mol Cell Biol (2008) 4.76
Binary switches and modification cassettes in histone biology and beyond. Nature (2003) 4.75
Daxx is an H3.3-specific histone chaperone and cooperates with ATRX in replication-independent chromatin assembly at telomeres. Proc Natl Acad Sci U S A (2010) 4.73
Trimethylated lysine 9 of histone H3 is a mark for DNA methylation in Neurospora crassa. Nat Genet (2003) 4.56
Mitotic phosphorylation of histone H3: spatio-temporal regulation by mammalian Aurora kinases. Mol Cell Biol (2002) 4.50
Crossover homeostasis in yeast meiosis. Cell (2006) 4.42
Novel linear quadrupole ion trap/FT mass spectrometer: performance characterization and use in the comparative analysis of histone H3 post-translational modifications. J Proteome Res (2004) 4.32
Aurora B phosphorylates centromeric MCAK and regulates its localization and microtubule depolymerization activity. Curr Biol (2004) 4.20
Apoptotic phosphorylation of histone H2B is mediated by mammalian sterile twenty kinase. Cell (2003) 4.13
The N-CoR-HDAC3 nuclear receptor corepressor complex inhibits the JNK pathway through the integral subunit GPS2. Mol Cell (2002) 3.99
Analyzing a bioterror attack on the food supply: the case of botulinum toxin in milk. Proc Natl Acad Sci U S A (2005) 3.93
Essential role for autophagy protein Atg7 in the maintenance of axonal homeostasis and the prevention of axonal degeneration. Proc Natl Acad Sci U S A (2007) 3.92
Yng1 PHD finger binding to H3 trimethylated at K4 promotes NuA3 HAT activity at K14 of H3 and transcription at a subset of targeted ORFs. Mol Cell (2006) 3.87
Organismal differences in post-translational modifications in histones H3 and H4. J Biol Chem (2006) 3.84
Chemical derivatization of histones for facilitated analysis by mass spectrometry. Nat Protoc (2007) 3.78
Gene silencing: trans-histone regulatory pathway in chromatin. Nature (2002) 3.77
Protein identification using sequential ion/ion reactions and tandem mass spectrometry. Proc Natl Acad Sci U S A (2005) 3.77
Identification of the beta cell antigen targeted by a prevalent population of pathogenic CD8+ T cells in autoimmune diabetes. Proc Natl Acad Sci U S A (2003) 3.75
Differentially methylated forms of histone H3 show unique association patterns with inactive human X chromosomes. Nat Genet (2001) 3.63
Methylation of a histone mimic within the histone methyltransferase G9a regulates protein complex assembly. Mol Cell (2007) 3.51
Mitotic-specific methylation of histone H4 Lys 20 follows increased PR-Set7 expression and its localization to mitotic chromosomes. Genes Dev (2002) 3.37
Crystal structure of a Kir3.1-prokaryotic Kir channel chimera. EMBO J (2007) 3.31
ABI5 acts downstream of ABI3 to execute an ABA-dependent growth arrest during germination. Plant J (2002) 3.28
Induction of autophagy in axonal dystrophy and degeneration. J Neurosci (2006) 3.28
POT1-interacting protein PIP1: a telomere length regulator that recruits POT1 to the TIN2/TRF1 complex. Genes Dev (2004) 3.25
Decoding the epigenetic language of neuronal plasticity. Neuron (2008) 3.23
Methylation of histone h3 at lysine 9 targets programmed DNA elimination in tetrahymena. Cell (2002) 3.16
Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger. Nature (2009) 3.13
Cathepsin L proteolytically processes histone H3 during mouse embryonic stem cell differentiation. Cell (2008) 3.09