Proteins and Proteoforms: New Separation Challenges

Translating the Histone Code

Jenuwein, T., & Allis, C. D. (2001) · Science · doi:10.1126/science.1063127 · Cited by 9,756 · see citing works

Lanthanum Chloride Inhibits LPS Mediated Expressions of Pro-Inflammatory Cytokines and Adhesion Molecules in HUVECs: Involvement of NF-κB-Jmjd3 Signaling

Chen, X., Xiu, M., Xing, J., Yu, S., Min, D., & Guo, F. (2017) · Cellular Physiology and Biochemistry · doi:10.1159/000479439 · Cited by 5,759 · see citing works

Finishing the euchromatic sequence of the human genome

International Human Genome Sequencing Consortium (2004) · Nature · doi:10.1038/nature03001 · Cited by 4,971 · see citing works

ACETYLATION AND METHYLATION OF HISTONES AND THEIR POSSIBLE ROLE IN THE REGULATION OF RNA SYNTHESIS

Allfrey, V. G., Faulkner, R. D., & Mirsky, A. E. (1964) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.51.5.786 · Cited by 2,649 · see citing works

Combinatorial patterns of histone acetylations and methylations in the human genome

Wang, Z., Zang, C., Rosenfeld, J. A., Schones, D. E., Barski, A., Cuddapah, S., Cui, K., Roh, T.-Y., Peng, W., Zhang, M. Q., et al. (2008) · Nature Genetics · doi:10.1038/ng.154 · Cited by 2,331 · see citing works

Histone Recognition and Large-Scale Structural Analysis of the Human Bromodomain Family

Filippakopoulos, P., Picaud, S., Mangos, M., Keates, T., Lambert, J., Baršytė-Lovejoy, D., Felletár, I., Volkmer, R., Müller, S., Pawson, T. J., et al. (2012) · Cell · doi:10.1016/j.cell.2012.02.013 · Cited by 1,719 · see citing works

Proteoform: a single term describing protein complexity

The Consortium for Top Down Proteomics, Smith, L. M., & Kelleher, N. L. (2013) · Nature Methods · doi:10.1038/nmeth.2369 · Cited by 1,528 · see citing works

Epigenetic protein families: a new frontier for drug discovery

Arrowsmith, C. H., Bountra, C., Fish, P. V., Lee, K., & Schapira, M. (2012) · Nature Reviews Drug Discovery · doi:10.1038/nrd3674 · Cited by 1,327 · see citing works

Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins

Anderson, L., & Hunter, C. L. (2006) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m500331-mcp200 · Cited by 1,230 · see citing works

Nucleolar proteome dynamics

Andersen, J., Lam, Y. W., Leung, A. K. L., Ong, S., Lyon, C. E., Lamond, A. I., & Mann, M. (2005) · Nature · doi:10.1038/nature03207 · Cited by 1,152 · see citing works

Mass Spectrometric Quantitation of Peptides and Proteins Using Stable Isotope Standards and Capture by Anti-Peptide Antibodies (SISCAPA)

Anderson, N. L., Anderson, N. G., Haines, L. R., Hardie, D. B., Olafson, R. W., & Pearson, T. W. (2004) · Journal of Proteome Research · doi:10.1021/pr034086h · Cited by 806 · see citing works

Improved visualization of protein consensus sequences by iceLogo

Colaert, N., Helsens, K., Martens, L., Vandekerckhove, J. S., & Gevaert, K. (2009) · Nature Methods · doi:10.1038/nmeth1109-786 · Cited by 746 · see citing works

What is a gene, post-ENCODE? History and updated definitionPreprint

Gerstein, M., Bruce, C., Rozowsky, J. S., Zheng, D., Du, J., Korbel, J. O., Emanuelsson, O., Zhang, Z. D., Weissman, S. M., & Snyder, M. P. (2007) · Genome Research · doi:10.1101/gr.6339607 · Cited by 699 · see citing works

Molecular Biologist's Guide to Proteomics

Graves, P. R., & Haystead, T. (2002) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.66.1.39-63.2002 · Cited by 691 · see citing works

Transgenerational epigenetic inheritance of longevity in Caenorhabditis elegans

Greer, E. L., Maures, T. J., Ucar, D., Hauswirth, A. G., Mancini, E., Lim, J. P., Benayoun, B. A., Shi, Y., & Brunet, A. (2011) · Nature · doi:10.1038/nature10572 · Cited by 660 · see citing works

Progress in Top-Down Proteomics and the Analysis of Proteoforms

Toby, T. K., Fornelli, L., & Kelleher, N. L. (2016) · Annual Review of Analytical Chemistry · doi:10.1146/annurev-anchem-071015-041550 · Cited by 576 · see citing works

The DNA replication FoSTeS/MMBIR mechanism can generate genomic, genic and exonic complex rearrangements in humans

Zhang, F., Khajavi, M., Connolly, A. M., Towne, C. F., Batish, S. D., & Lupski, J. R. (2009) · Nature Genetics · doi:10.1038/ng.399 · Cited by 526 · see citing works

Identifying and quantifying in vivo methylation sites by heavy methyl SILAC

Ong, S., Mittler, G., & Mann, M. (2004) · Nature Methods · doi:10.1038/nmeth715 · Cited by 458 · see citing works

Transgenerational transmission of environmental information in <i>C. elegans</i>

Klosin, A., Casas, E., Hidalgo-Carcedo, C., Vavouri, T., & Lehner, B. (2017) · Science · doi:10.1126/science.aah6412 · Cited by 456 · see citing works

Therapeutic targeting of polycomb and BET bromodomain proteins in diffuse intrinsic pontine gliomas

Piunti, A., Hashizume, R., Morgan, M. A., Bartom, E. T., Horbinski, C. M., Marshall, S. A., Rendleman, E. J., Ma, Q., Takahashi, Y.-H., Woodfin, A. R., et al. (2017) · Nature Medicine · doi:10.1038/nm.4296 · Cited by 445 · see citing works

Interferences from blood collection tube components on clinical chemistry assays

Bowen, R. A. R., & Remaley, A. T. (2014) · Biochemia Medica · doi:10.11613/bm.2014.006 · Cited by 321 · see citing works

High Throughput Characterization of Combinatorial Histone Codes

Young, N. L., DiMaggio, P. A., Plazas-Mayorca, M. D., Baliban, R. C., Floudas, C. A., & Garcia, B. A. (2009) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m900238-mcp200 · Cited by 312 · see citing works

Selective Phosphorylations of the SRC-3/AIB1 Coactivator Integrate Genomic Reponses to Multiple Cellular Signaling Pathways

Wu, R., Qin, J., Yi, P., Wong, J., Tsai, S. Y., Tsai, M., & O’Malley, B. W. (2004) · Molecular Cell · doi:10.1016/j.molcel.2004.08.019 · Cited by 297 · see citing works

Enrichment of phosphorylated proteins and peptides from complex mixtures using metal oxide/hydroxide affinity chromatography (MOAC)

Wolschin, F., Wienkoop, S., & Weckwerth, W. (2005) · PROTEOMICS · doi:10.1002/pmic.200402049 · Cited by 295 · see citing works

Certain and Progressive Methylation of Histone H4 at Lysine 20 during the Cell Cycle

Pesavento, J. J., Yang, H., Kelleher, N. L., & Mizzen, C. A. (2007) · Molecular and Cellular Biology · doi:10.1128/mcb.01517-07 · Cited by 288 · see citing works

Phosphoprotein Analysis Using Antibodies Broadly Reactive against Phosphorylated Motifs

Zhang, H., Zha, X., Tan, Y., Hornbeck, P. V., Mastrangelo, A. J., Alessi, D. R., Polakiewicz, R. D., & Comb, M. J. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m206399200 · Cited by 271 · see citing works

Epigenetic modifications of GABAergic interneurons are associated with the schizophrenia-like phenotype induced by prenatal stress in mice

Matrisciano, F., Tueting, P., Dalal, I., Kadriu, B., Grayson, D. R., Davis, J. M., Nicoletti, F., & Guidotti, A. (2013) · Neuropharmacology · doi:10.1016/j.neuropharm.2012.04.013 · Cited by 271 · see citing works

The Size of the Human Proteome: The Width and Depth

Ponomarenko, E. A., Poverennaya, E. V., Ilgisonis, E. V., Pyatnitskiy, M. A., Kopylov, A. T., Zgoda, V. G., Lisitsa, A. V., & Archakov, A. I. (2016) · International Journal of Analytical Chemistry · doi:10.1155/2016/7436849 · Cited by 267 · see citing works

Variable Control of Ets-1 DNA Binding by Multiple Phosphates in an Unstructured Region

Pufall, M. A., Lee, G. M., Nelson, M. L., Kang, H.-S., Velyvis, A., Kay, L. E., McIntosh, L. P., & Graves, B. J. (2005) · Science · doi:10.1126/science.1111915 · Cited by 246 · see citing works

Pervasive combinatorial modification of histone H3 in human cells

Garcia, B. A., Pesavento, J. J., Mizzen, C. A., & Kelleher, N. L. (2007) · Nature Methods · doi:10.1038/nmeth1052 · Cited by 242 · see citing works

Quantitative Analysis of Modified Proteins and Their Positional Isomers by Tandem Mass Spectrometry: Human Histone H4

Pesavento, J. J., Mizzen, C. A., & Kelleher, N. L. (2006) · Analytical Chemistry · doi:10.1021/ac0600050 · Cited by 240 · see citing works

Unlimited multistability in multisite phosphorylation systems

Thomson, M., & Gunawardena, J. (2009) · Nature · doi:10.1038/nature08102 · Cited by 238 · see citing works

Techniques for phosphopeptide enrichment prior to analysis by mass spectrometry

Dunn, J. D., Reid, G. E., & Bruening, M. L. (2009) · Mass Spectrometry Reviews · doi:10.1002/mas.20219 · Cited by 213 · see citing works

Enrichment techniques employed in phosphoproteomics

Fíla, J., & Honys, D. (2011) · Amino Acids · doi:10.1007/s00726-011-1111-z · Cited by 198 · see citing works

Histone deacetylases: structural determinants of inhibitor selectivity

Micelli, C., & Rastelli, G. (2015) · Drug Discovery Today · doi:10.1016/j.drudis.2015.01.007 · Cited by 196 · see citing works

Transgenerational epigenetic inheritance in mammals: How good is the evidence?

van Otterdijk, S. D., & Michels, K. B. (2016) · The FASEB Journal · doi:10.1096/fj.201500083 · Cited by 191 · see citing works

Combinatorial Modification of Human Histone H4 Quantitated by Two-dimensional Liquid Chromatography Coupled with Top Down Mass Spectrometry

博一, 長., Bullock, C. R., LeDuc, R. D., Mizzen, C. A., & Kelleher, N. L. (2008) · Journal of Biological Chemistry · doi:10.1074/jbc.m709796200 · Cited by 185 · see citing works

Phosphoproteomic Analysis of the Mouse Brain Cytosol Reveals a Predominance of Protein Phosphorylation in Regions of Intrinsic Sequence Disorder

Collins, M. O., Yu, L., Campuzano, I. D. G., Grant, S. G. N., & Choudhary, J. S. (2008) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m700564-mcp200 · Cited by 184 · see citing works

Organic solvent extraction of proteins and peptides from serum as an effective sample preparation for detection and identification of biomarkers by mass spectrometry

Chertov, O., Biragyn, A., Kwak, L. W., Simpson, J. T., Boronina, T. N., Hoang, V. M., Prieto, D. A., Conrads, T. P., Veenstra, T. D., & Fisher, R. J. (2004) · PROTEOMICS · doi:10.1002/pmic.200300677 · Cited by 168 · see citing works

Spliceosomal DEAH-Box ATPases Remodel Pre-mRNA to Activate Alternative Splice Sites

Semlow, D. R., Blanco, M. R., Walter, N. G., et al. (2016) · Cell · doi:10.1016/j.cell.2016.01.025 · Cited by 166 · see citing works

Brain-Derived Neurotrophic Factor Epigenetic Modifications Associated with Schizophrenia-like Phenotype Induced by Prenatal Stress in Mice

Dong, E., Dzitoyeva, S., Matrisciano, F., Tueting, P. A., Grayson, D. R., & Guidotti, A. (2014) · Biological Psychiatry · doi:10.1016/j.biopsych.2014.08.012 · Cited by 162 · see citing works

Proteome-wide lysine acetylation profiling of the human pathogen Mycobacterium tuberculosis

Xie, L., Wang, X., Zeng, J., Zhou, M., Duan, X., Li, Q., Zhang, Z., Luo, H., Pang, L., Li, W., et al. (2014) · The International Journal of Biochemistry & Cell Biology · doi:10.1016/j.biocel.2014.11.010 · Cited by 159 · see citing works

Structure of the mammalian oligosaccharyl-transferase complex in the native ER protein translocon

Pfeffer, S., Dudek, J., Gogala, M., Schorr, S., Linxweiler, J., Lang, S., Becker, T. A., Beckmann, R., Zimmermann, R., & Förster, F. G. (2014) · Nature Communications · doi:10.1038/ncomms4072 · Cited by 146 · see citing works

Combining Protein-Based IMAC, Peptide-Based IMAC, and MudPIT for Efficient Phosphoproteomic Analysis

Cantin, G. T., Yi, W., Lu, B., Park, S. K., Xu, T., Lee, J., & Yates, J. R. (2008) · Journal of Proteome Research · doi:10.1021/pr0705441 · Cited by 145 · see citing works

Top-Down Proteomics of Large Proteins up to 223 kDa Enabled by Serial Size Exclusion Chromatography Strategy

Cai, W., Tucholski, T., Chen, B., Alpert, A. J., McIlwain, S., Kohmoto, T., Jin, S., & Ge, Y. (2017) · Analytical Chemistry · doi:10.1021/acs.analchem.7b00380 · Cited by 135 · see citing works

The molecular genetics of blood group polymorphism

Daniels, G. L. (2005) · Transplant Immunology · doi:10.1016/j.trim.2005.03.003 · Cited by 127 · see citing works

Comparative analysis of three-dimensional chromosomal architecture identifies a novel fetal hemoglobin regulatory element

Huang, P., Keller, C. A., Giardine, B., Grevet, J. D., Davies, J. O. J., Hughes, J. R., Kurita, R., Nakamura, Y., Hardison, R. C., & Blobel, G. A. (2017) · Genes &amp; Development · doi:10.1101/gad.303461.117 · Cited by 127 · see citing works

Enhanced top-down characterization of histone post-translational modifications

Tian, Z., Tolić, N., Zhao, R., Moore, R., Hengel, S. M., Robinson, E. W., Stenoien, D. L., Wu, S., Smith, R. D., & Paša‐Tolić, L. (2012) · Genome biology · doi:10.1186/gb-2012-13-10-r86 · Cited by 126 · see citing works

The role of more than 40 years of improvement in protein A chromatography in the growth of the therapeutic antibody industry

Bolton, G., & Mehta, K. K. (2016) · Biotechnology Progress · doi:10.1002/btpr.2324 · Cited by 118 · see citing works

Bromodomain and extra-terminal (BET) family proteins: New therapeutic targets in major diseases

Padmanabhan, B., Mathur, S., Manjula, R., & Tripathi, S. K. (2016) · Journal of Biosciences · doi:10.1007/s12038-016-9600-6 · Cited by 113 · see citing works

Optimized IMAC−IMAC Protocol for Phosphopeptide Recovery from Complex Biological Samples

Ye, J., Zhang, X., Young, C., Zhao, X., Hao, Q., Cheng, L., & Jensen, O. N. (2010) · Journal of Proteome Research · doi:10.1021/pr100075x · Cited by 112 · see citing works

The molecular genetics of blood group polymorphism

Daniels, G. L. (2009) · Human Genetics · doi:10.1007/s00439-009-0738-2 · Cited by 112 · see citing works

Bromodomain Histone Readers and Cancer

Jain, A. K., & Barton, M. C. (2016) · Journal of Molecular Biology · doi:10.1016/j.jmb.2016.11.020 · Cited by 112 · see citing works

Genome-wide Characterization of a Viral Cytotoxic T Lymphocyte Epitope Repertoire

Zhong, W., Reche, P. A., Lai, C., et al. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m307417200 · Cited by 107 · see citing works

Beyond histones – the expanding roles of protein lysine methylation

Wu, Z., Connolly, J., & Biggar, K. K. (2017) · FEBS Journal · doi:10.1111/febs.14056 · Cited by 105 · see citing works

Serum Peptidome Profiling Revealed Platelet Factor 4 as a Potential Discriminating Peptide Associated with Pancreatic Cancer

Fiedler, M., Leichtle, A. B., Kase, J., et al. (2009) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-08-2701 · Cited by 103 · see citing works

Death of a dogma: eukaryotic mRNAs can code for more than one protein

Mouilleron, H., Delcourt, V., & Roucou, X. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv1218 · Cited by 103 · see citing works

Temporal and Spatial Changes in Transcription Factor Binding and Histone Modifications at the Steroidogenic Acute Regulatory Protein (StAR) Locus Associated withStARTranscription

Hiroi, H., Christenson, L. K., Chang, L., Sammel, M. D., Berger, S. L., & Strauss, J. F. (2004) · Molecular Endocrinology · doi:10.1210/me.2003-0305 · Cited by 101 · see citing works

A novel Bxb1 integrase RMCE system for high fidelity site‐specific integration of mAb expression cassette in CHO Cells

Inniss, M. C., Bandara, K., Jusiak, B., Lu, T. K., Weiss, R., Wróblewska, L., & Zhang, L. (2017) · Biotechnology and Bioengineering · doi:10.1002/bit.26268 · Cited by 98 · see citing works

Lysine Methylation and Functional Modulation of Androgen Receptor by Set9 Methyltransferase

Ko, S., Ahn, J., Song, C. S., Kim, S.-Y., Knapczyk‐Stwora, K., & Chatterjee, B. (2011) · Molecular Endocrinology · doi:10.1210/me.2010-0482 · Cited by 97 · see citing works

Identification and Characterization of Human Proteoforms by Top-Down LC-21 Tesla FT-ICR Mass Spectrometry

Anderson, L. C., DeHart, C. J., Kaiser, N. K., Fellers, R. T., Smith, D. F., Greer, J. B., LeDuc, R. D., Blakney, G. T., Thomas, P. M., Kelleher, N. L., et al. (2017) · Journal of Proteome Research · doi:10.1021/acs.jproteome.6b00696 · Cited by 94 · see citing works

The Histone Chaperone Anti-silencing Function 1 Stimulates the Acetylation of Newly Synthesized Histone H3 in S-phase

Adkins, M. W., Carson, J. J., English, C. M., Ramey, C. J., & Tyler, J. K. (2006) · Journal of Biological Chemistry · doi:10.1074/jbc.m608025200 · Cited by 91 · see citing works

Automated Analytical System for the Examination of Protein Primary Structure

Hsieh, Y., Wang, H., Elicone, C., Mark, J., Martin, S. A., & Regnier, F. E. (1996) · Analytical Chemistry · doi:10.1021/ac950421c · Cited by 88 · see citing works

A Structural Perspective on Readout of Epigenetic Histone and DNA Methylation MarksPreprint

Patel, D. J. (2016) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a018754 · Cited by 87 · see citing works

RNA Editing, ADAR1, and the Innate Immune Response

Wang, Q., Li, X., Qi, R., & Billiar, T. R. (2017) · Genes · doi:10.3390/genes8010041 · Cited by 84 · see citing works

Albendazole as a promising molecule for tumor control

Castro, L. S. E. P. W., Kviecinski, M. R., Ourique, F., Parisotto, E. B., Grinevicius, V. M. A. S., Correia, J. F. G., Wilhelm Filho, D., & Pedrosa, R. C. (2016) · Redox Biology · doi:10.1016/j.redox.2016.09.013 · Cited by 81 · see citing works

Use of mixed-mode, high-performance liquid chromatography for the separation of peptide and protein mixtures

Hancock, W. S., & Sparrow, J. T. (1981) · Journal of Chromatography A · doi:10.1016/s0021-9673(00)82606-0 · Cited by 79 · see citing works

Biospecific irreversible fishing coupled with atomic force microscopy for detection of extremely low‐abundant proteins

Archakov, A. I., Ivanov, Y. D., Lisitsa, A., & Zgoda, V. G. (2009) · PROTEOMICS · doi:10.1002/pmic.200800598 · Cited by 79 · see citing works

Ribosomal Natural Products, Tailored To Fit

Funk, M. A., & van der Donk, W. A. (2017) · Accounts of Chemical Research · doi:10.1021/acs.accounts.7b00175 · Cited by 77 · see citing works

Epiproteomics: quantitative analysis of histone marks and codes by mass spectrometry

Zheng, Y., Huang, X., & Kelleher, N. L. (2016) · Current Opinion in Chemical Biology · doi:10.1016/j.cbpa.2016.06.007 · Cited by 73 · see citing works

Emerging Technologies to Map the Protein Methylome

Carlson, S. M., & Gozani, O. (2014) · Journal of Molecular Biology · doi:10.1016/j.jmb.2014.04.024 · Cited by 72 · see citing works

Analyzing Protein Micro-Heterogeneity in Chicken Ovalbumin by High-Resolution Native Mass Spectrometry Exposes Qualitatively and Semi-Quantitatively 59 Proteoforms

Yang, Y., Barendregt, A., Kamerling, J. P., & Heck, A. J. R. (2013) · Analytical Chemistry · doi:10.1021/ac403057y · Cited by 68 · see citing works

Proteomics to study DNA-bound and chromatin-associated gene regulatory complexes

Wierer, M., & Mann, M. (2016) · Human Molecular Genetics · doi:10.1093/hmg/ddw208 · Cited by 66 · see citing works

Tyrosine-Phosphorylated Extracellular Signal–Regulated Kinase Associates with the Golgi Complex during G2/M Phase of the Cell Cycle

Cha, H., & Shapiro, P. S. (2001) · The Journal of Cell Biology · doi:10.1083/jcb.153.7.1355 · Cited by 64 · see citing works

Alteration of the specificity of subtilisin BPN' by site-directed mutagenesis in its S1 and S1' binding sites

Bonneau, P. R., Graycar, T. P., Estell, D. A., et al. (1991) · Journal of the American Chemical Society · doi:10.1021/ja00003a043 · Cited by 59 · see citing works

Purification of phosphoproteins by immobilized metal affinity chromatography and its application to phosphoproteome analysis

Machida, M., Kosako, H., Shirakabe, K., Kobayashi, M., Ushiyama, M., Inagawa, J., Hirano, J., Nakano, T., Bando, Y., Nishida, E., et al. (2007) · FEBS Journal · doi:10.1111/j.1742-4658.2007.05705.x · Cited by 58 · see citing works

Natural recognition repertoire and the evolutionary emergence of the combinatorial immune system

Marchalonis, J. J., Kaveri, S. V., Lacroix‐Desmazes, S., & Kazatchkine, M. D. (2002) · The FASEB Journal · doi:10.1096/fj.01-0953hyp · Cited by 58 · see citing works

The 4G10, pY20 and p-TYR-100 antibody specificity: profiling by peptide microarrays

Tinti, M., Nardozza, A. P., Ferrari, E., Sacco, F., Corallino, S., Castagnoli, L., & Cesareni, G. (2011) · New Biotechnology · doi:10.1016/j.nbt.2011.12.001 · Cited by 55 · see citing works

High‐sensitivity HLA class I peptidome analysis enables a precise definition of peptide motifs and the identification of peptides from cell lines and patients’ sera

Ritz, D., Gloger, A., Weide, B., Garbe, C., Neri, D., & Fugmann, T. (2016) · PROTEOMICS · doi:10.1002/pmic.201500445 · Cited by 55 · see citing works

From the Human Genome to the Human Proteome

Muñoz, J., & Heck, A. J. R. (2014) · Angewandte Chemie International Edition · doi:10.1002/anie.201406545 · Cited by 54 · see citing works

Improving Depth in Phosphoproteomics by Using a Strong Cation Exchange-Weak Anion Exchange-Reversed Phase Multidimensional Separation Approach

Hennrich, M. L., Groenewold, V., Kops, G. J. P. L., Heck, A. J. R., & Mohammed, S. (2011) · Analytical Chemistry · doi:10.1021/ac2015068 · Cited by 54 · see citing works

Characterization of Biases in Phosphopeptide Enrichment by Ti 4+ -Immobilized Metal Affinity Chromatography and TiO 2 Using a Massive Synthetic Library and Human Cell Digests

Mathéron, L., van den Toorn, H., Heck, A. J. R., et al. (2014) · Analytical Chemistry · doi:10.1021/ac501803z · Cited by 53 · see citing works

Chemical Approaches to Investigate Labile Peptide and Protein Phosphorylation

Hauser, A., Penkert, M., & Hackenberger, C. P. R. (2017) · Accounts of Chemical Research · doi:10.1021/acs.accounts.7b00170 · Cited by 53 · see citing works

S-adenosylmethionine modifies cocaine-induced DNA methylation and increases locomotor sensitization in mice

Anier, K., Zharkovsky, A., & Kalda, A. (2013) · The International Journal of Neuropsychopharmacology · doi:10.1017/s1461145713000394 · Cited by 52 · see citing works

Crosstalk between Signaling Pathways Provided by Single and Multiple Protein Phosphorylation Sites

Nishi, H., Demir, E., & Panchenko, A. R. (2014) · Journal of Molecular Biology · doi:10.1016/j.jmb.2014.11.001 · Cited by 49 · see citing works

Detection of Total and A1c-Glycosylated Hemoglobin in Human Whole Blood Using Sandwich Immunoassays on Polydimethylsiloxane-Based Antibody Microarrays

Chen, H.-H., Wu, C., Tsai, M.-L., et al. (2012) · Analytical Chemistry · doi:10.1021/ac301756d · Cited by 49 · see citing works

Targeting the cancer epigenome: synergistic therapy with bromodomain inhibitors

Ramadoss, M., & Mahadevan, V. (2017) · Drug Discovery Today · doi:10.1016/j.drudis.2017.09.011 · Cited by 49 · see citing works

Efficient Separations of Intact Proteins Using Slip-Flow with Nano-Liquid Chromatography–Mass Spectrometry

Wu, Z. J., Wei, B., Zhang, X., & Wirth, M. J. (2014) · Analytical Chemistry · doi:10.1021/ac403233d · Cited by 47 · see citing works

Lysine acetylproteome analysis suggests its roles in primary and secondary metabolism in Saccharopolyspora erythraea

Huang, D., Li, Z.-H., You, D., Zhou, Y. Q., & Ye, B. (2014) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-014-6144-2 · Cited by 47 · see citing works

Chromosome 18 Transcriptoproteome of Liver Tissue and HepG2 Cells and Targeted Proteome Mapping in Depleted Plasma: Update 2013

Ponomarenko, E. A., Kopylov, A. T., Лисица, А. В., Radko, S. P., Kiseleva, Y. Y., Kurbatov, L. K., Ptitsyn, K. G., Tikhonova, O. V., Moisa, A. A., Novikova, S. E., et al. (2013) · Journal of Proteome Research · doi:10.1021/pr400883x · Cited by 47 · see citing works

Is isolation of comprehensive human plasma peptidomes an achievable quest?

Mahboob, S., Mohamedali, A., Ahn, S. B., Schulz‐Knappe, P., Nice, E. C., & Baker, M. S. (2015) · Journal of Proteomics · doi:10.1016/j.jprot.2015.05.010 · Cited by 46 · see citing works

Comparative analysis of Erk phosphorylation suggests a mixed strategy for measuring phospho‐form distributions

Prabakaran, S., Everley, R. A., Landrieu, I., Wieruszeski, J., Lippens, G. M., Steen, H., & Gunawardena, J. (2011) · Molecular Systems Biology · doi:10.1038/msb.2011.15 · Cited by 44 · see citing works

Use of Glycan Targeting Antibodies To Identify Cancer-Associated Glycoproteins in Plasma of Breast Cancer Patients

Cho, W., Jung, K.-Y., & Regnier, F. E. (2008) · Analytical Chemistry · doi:10.1021/ac8008675 · Cited by 43 · see citing works

Approaches to Define Antigen Receptor-induced Serine Kinase Signal Transduction Pathways

Astoul, E., Laurence, A. D. J., Totty, N., et al. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m211252200 · Cited by 42 · see citing works

Proteoforms in Peripheral Blood Mononuclear Cells as Novel Rejection Biomarkers in Liver Transplant Recipients

Toby, T. K., Abecassis, M., Kim, K., Thomas, P. M., Fellers, R. T., LeDuc, R. D., Kelleher, N. L., Demetris, J., & Levitsky, J. (2017) · American Journal of Transplantation · doi:10.1111/ajt.14359 · Cited by 42 · see citing works

Comprehensive profiling of accessible surface glycans of mammalian sperm using a lectin microarray

Xin, A., Cheng, L. T., Diao, H., et al. (2014) · Clinical Proteomics · doi:10.1186/1559-0275-11-10 · Cited by 42 · see citing works

Germline-specific H1 variants: the “sexy” linker histones

Pérez-Montero, S., Carbonell, A., & Azorı́n, F. (2015) · Chromosoma · doi:10.1007/s00412-015-0517-x · Cited by 41 · see citing works

Malonylome analysis in developing rice (Oryza sativa) seeds suggesting that protein lysine malonylation is well-conserved and overlaps with acetylation and succinylation substantially

Mujahid, H., Meng, X., Xing, S., Peng, X., Wang, C., & Peng, Z. (2017) · Journal of Proteomics · doi:10.1016/j.jprot.2017.08.021 · Cited by 41 · see citing works

Supramolecular Affinity Labeling of Histone Peptides Containing Trimethyllysine and Its Application to Histone Deacetylase Assays

Gober, I. N., & Waters, M. L. (2016) · Journal of the American Chemical Society · doi:10.1021/jacs.6b02836 · Cited by 40 · see citing works

Quantitative Analysis of Global Proteome and Lysine Acetylome Reveal the Differential Impacts of VPA and SAHA on HL60 Cells

Zhu, X., Liu, X., Cheng, Z., Zhu, J., Xu, L., Wang, F., Qi, W., Yan, J., Liu, N., Sun, Z., et al. (2016) · Scientific Reports · doi:10.1038/srep19926 · Cited by 39 · see citing works

Boronate-Modified Interdigitated Electrode Array for Selective Impedance-Based Sensing of Glycated Hemoglobin

Boonyasit, Y., Laiwattanapaisal, W., Chailapakul, O., Emnéus, J., & Heiskanen, A. R. (2016) · Analytical Chemistry · doi:10.1021/acs.analchem.6b02234 · Cited by 36 · see citing works

Characterization of Intact Neo-Glycoproteins by Hydrophilic Interaction Liquid Chromatography

Pedrali, A., Tengattini, S., Marrubini, G., Bavaro, T., Hemström, P., Massolini, G., Terreni, M., & Temporini, C. (2014) · Molecules · doi:10.3390/molecules19079070 · Cited by 35 · see citing works

Regulation of USP37 Expression by REST-Associated G9a-Dependent Histone Methylation

Dobson, T., Hatcher, R. J., Swaminathan, J., et al. (2017) · Molecular Cancer Research · doi:10.1158/1541-7786.mcr-16-0424 · Cited by 35 · see citing works

Single amino acid contributions to protein retention in cation-exchange chromatography: resolution of genetically engineered subtilisin variants

Chicz, R. M., & Regnier, F. E. (1989) · Analytical Chemistry · doi:10.1021/ac00193a012 · Cited by 34 · see citing works

Integrated Transcriptomic-Proteomic Analysis Using a Proteogenomic Workflow Refines Rat Genome Annotation

Kumar, D., Yadav, A. K., Jia, X., Mulvenna, J. P., & Dash, D. (2015) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m114.047126 · Cited by 34 · see citing works

ZrO2 Nanofiber as a Versatile Tool for Protein Analysis

Wang, H., Duan, Y., & Zhong, W. (2015) · ACS Applied Materials & Interfaces · doi:10.1021/acsami.5b09348 · Cited by 34 · see citing works

Monoclonal Antibody Cocktail as an Enrichment Tool for Acetylome Analysis

Shaw, P. G., Chaerkady, R., Zhang, Z., Davidson, N. E., & Pandey, A. (2011) · Analytical Chemistry · doi:10.1021/ac1026176 · Cited by 33 · see citing works

Crosstalk among proteome, acetylome and succinylome in colon cancer HCT116 cell treated with sodium dichloroacetate

Zhu, D., Hou, L., Hu, B., Zhao, H., Sun, J., Wang, J., & Meng, X. (2016) · Scientific Reports · doi:10.1038/srep37478 · Cited by 32 · see citing works

Yin–Yang Actions of Histone Methylation Regulatory Complexes in the Brain

Garay, P. M., Wallner, M. A., & Iwase, S. (2016) · Epigenomics · doi:10.2217/epi-2016-0090 · Cited by 32 · see citing works

Intricate Effects of α‑Amino and Lysine Modifications on Arginine Methylation of the N‑Terminal Tail of Histone H4

Fulton, M. D., Zhang, J., He, M., Ho, M., & Zheng, Y. G. (2017) · Biochemistry · doi:10.1021/acs.biochem.7b00450 · Cited by 32 · see citing works

Evolution of immune chemoreceptors into sensors of the outside world

Dietschi, Q., Tuberosa, J., Rösingh, L., Loichot, G., Rüedi, M., Carleton, A., & Rodríguez, I. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1704009114 · Cited by 31 · see citing works

Proteomic identification of hippocampal proteins vulnerable to oxidative stress in excitotoxin-induced acute neuronal injury

Furukawa, A., Kawamoto, Y., Chiba, Y., Takei, S., Hasegawa‐Ishii, S., Kawamura, N., Yoshikawa, K., Hosokawa, M., Oikawa, S., Kato, M., et al. (2011) · Neurobiology of Disease · doi:10.1016/j.nbd.2011.05.024 · Cited by 28 · see citing works

Improving data quality and preserving HCD-generated reporter ions with EThcD for isobaric tag-based quantitative proteomics and proteome-wide PTM studies

Yu, Q., Shi, X., Yu, F., Kent, K. C., & Li, L. (2017) · Analytica Chimica Acta · doi:10.1016/j.aca.2017.03.003 · Cited by 28 · see citing works

Evolution, functional divergence and conserved exon–intron structure of bHLH/PAS gene family

Yan, J., Ma, Z., Xu, X., & Guo, A.-Y. (2013) · Molecular Genetics and Genomics · doi:10.1007/s00438-013-0786-0 · Cited by 25 · see citing works

Protein expression and fucosylated glycans of the serum haptoglobin-β subunit in hepatitis B virus-based liver diseases

Shu, H., Zhang, S., Kang, X., et al. (2011) · Acta Biochimica et Biophysica Sinica · doi:10.1093/abbs/gmr038 · Cited by 25 · see citing works

Toward a comprehensive characterization of the phosphotyrosine proteome

Lind, S. B., Artemenko, K. A., Elfineh, L., Mayrhofer, C., Zubarev, R. A., Bergquist, J., & Pettersson, U. (2011) · Cellular Signalling · doi:10.1016/j.cellsig.2011.03.021 · Cited by 24 · see citing works

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Chistiakov, D. A., Myasoedova, V. A., Orekhov, A. N., et al. (2016) · Current Pharmaceutical Design · doi:10.2174/1381612822666161021110827 · Cited by 24 · see citing works

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Yu, X., McCarthy, P. J., Wang, Z., et al. (2012) · Journal of Virology · doi:10.1128/jvi.00234-12 · Cited by 23 · see citing works

Supramolecular Affinity Chromatography for Methylation-Targeted Proteomics

Garnett, G. A. E., Starke, M. J., Shaurya, A., et al. (2016) · Analytical Chemistry · doi:10.1021/acs.analchem.5b04508 · Cited by 23 · see citing works

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Jostock, T., & Knopf, H. (2012) · Methods in molecular biology · doi:10.1007/978-1-61779-921-1_15 · Cited by 22 · see citing works

Haplotype specific homology scanning algorithim to predict T‐cell epitopes from protein sequences

Guillet, J. ‐., Hoebeke, J., Lengagne, R., et al. (1991) · Journal of Molecular Recognition · doi:10.1002/jmr.300040104 · Cited by 22 · see citing works

Immobilized-metal affinity and hydroxyapatite chromatography of genetically engineered subtilisin

Chicz, R. M., & Regnier, F. E. (1989) · Analytical Chemistry · doi:10.1021/ac00190a030 · Cited by 22 · see citing works

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O’Connor, B., Monaghan, D., & Cawley, J. (2016) · Methods in molecular biology · doi:10.1007/978-1-4939-6412-3_23 · Cited by 21 · see citing works

Molecular basis for specificity of the Met1-linked polyubiquitin signal

Elliott, P. R. (2016) · Biochemical Society Transactions · doi:10.1042/bst20160227 · Cited by 20 · see citing works

Optimization of immunoaffinity enrichment and detection: toward a comprehensive characterization of the phosphotyrosine proteome of K562 cells by liquid chromatography-mass spectrometry

Artemenko, K. A., Lind, S. B., Elfineh, L., et al. (2011) · The Analyst · doi:10.1039/c0an00649a · Cited by 19 · see citing works

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Archakov, A. I., Lisitsa, A., Ponomarenko, E. A., & Zgoda, V. G. (2015) · Expert Review of Proteomics · doi:10.1586/14789450.2015.1018895 · Cited by 18 · see citing works

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Chen, Q., Pan, X., & Huang, B. (2017) · RSC Advances · doi:10.1039/c7ra04967f · Cited by 18 · see citing works

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Nilsson, C. L., Mostovenko, E., Lichti, C. F., Ruggles, K. V., Fenyö, D., Rosenbloom, K. R., Hancock, W. S., Paik, Y., Omenn, G. S., LaBaer, J., et al. (2014) · Journal of Proteome Research · doi:10.1021/pr500564q · Cited by 17 · see citing works

Microenvironmental contributions to the chromatographic behavior of subtilisin in hydrophobic-interaction and reversed-phase chromatography

Chicz, R. M., & Regnier, F. E. (1990) · Journal of Chromatography A · doi:10.1016/s0021-9673(00)96088-6 · Cited by 17 · see citing works

Characterization of HIV Tat modifications using novel methyl-lysine-specific antibodies

Pagans, S., Sakane, N., Schnölzer, M., & Ott, M. (2010) · Methods · doi:10.1016/j.ymeth.2010.07.001 · Cited by 17 · see citing works

Screening antibody and immunosorbent selectivity by two‐dimensional liquid chromatography‐MS/MS (2‐D LC‐MS/MS)

Cho, W., Jung, K.-Y., & Regnier, F. E. (2010) · Journal of Separation Science · doi:10.1002/jssc.200900860 · Cited by 16 · see citing works

Recent Advances in the Chromosome-Centric Human Proteome Project: Missing Proteins in the Spot Light

Paik, Y., Omenn, G. S., Overall, C. M., Deutsch, E. W., & Hancock, W. S. (2015) · Journal of Proteome Research · doi:10.1021/acs.jproteome.5b00785 · Cited by 15 · see citing works

In silico prediction and characterization of protein post-translational modifications

Gianazza, E., Parravicini, C., Primi, R., Miller, I., & Eberini, I. (2015) · Journal of Proteomics · doi:10.1016/j.jprot.2015.09.026 · Cited by 14 · see citing works

Polymorphisms of Lewis and Secretor genes are related to breast cancer and metastasis in axillary lymph nodes

Teresa, D. B., dos Santos, R. A., Takahashi, C. S., et al. (2010) · Tumor Biology · doi:10.1007/s13277-010-0048-2 · Cited by 14 · see citing works

Global proteomic analysis of protein acetylation affecting metabolic regulation in Daphnia pulex

Kwon, O. K., Sim, J., Kim, S., Oh, H. R., Nam, D. H., & Lee, S. (2015) · Biochimie · doi:10.1016/j.biochi.2015.12.007 · Cited by 14 · see citing works

Peptide Microarrays for Profiling of Modification State-Specific Antibodies

Zerweck, J., Masch, A., & Schutkowski, M. (2009) · Methods in molecular biology · doi:10.1007/978-1-59745-450-6_12 · Cited by 13 · see citing works

Conformational equilibria in the gamma chain COOH terminus of human fibrinogen.

Cierniewski, C. S., & Budzynski, A. Z. (1987) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)47878-7 · Cited by 12 · see citing works

Separomics applied to the proteomics and peptidomics of low-abundance proteins: choice of methods and challenges - a review

Baracat‐Pereira, M. C., Barbosa, M. D. O., Júnior, M. J. M., et al. (2012) · Genetics and Molecular Biology · doi:10.1590/s1415-47572012000200009 · Cited by 12 · see citing works

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Bryson, B. D., Rosario, A. M. D., Gootenberg, J. S., Yaffe, M. B., & White, F. M. (2015) · PROTEOMICS · doi:10.1002/pmic.201400401 · Cited by 11 · see citing works

Should pharmacologists care about alternative splicing? IUPHAR Review 4

Bonner, T. I. (2013) · British Journal of Pharmacology · doi:10.1111/bph.12526 · Cited by 10 · see citing works

Chromatographic efficiency and selectivity in top-down proteomics of histones

Zhou, Y., Zhang, X., Fornelli, L., Compton, P. D., Kelleher, N. L., & Wirth, M. J. (2016) · Journal of Chromatography B · doi:10.1016/j.jchromb.2016.12.027 · Cited by 10 · see citing works

Acetylome Analysis Identifies SIRT1 Targets in mRNA-Processing and Chromatin-Remodeling in Mouse Liver

Kim, S.-Y., Sim, C. K., Tang, H. R., Han, W., Zhang, K., & Xu, F. (2015) · PLoS ONE · doi:10.1371/journal.pone.0140619 · Cited by 10 · see citing works

An Alternative Strategy for Pan-acetyl-lysine Antibody Generation

Kim, S.-Y., Sim, C. K., Zhang, Q., et al. (2016) · PLoS ONE · doi:10.1371/journal.pone.0162528 · Cited by 10 · see citing works

SIRT1 Interacts with and Deacetylates ATP6V1B2 in Mature Adipocytes

Kim, S.-Y., Zhang, Q., Brunmeir, R., Han, W., & Xu, F. (2015) · PLoS ONE · doi:10.1371/journal.pone.0133448 · Cited by 9 · see citing works

Glycoproteome Study in Myocardial Lesions Serum by Integrated Mass Spectrometry Approach: Preliminary Insights

Carpentieri, A., Giangrande, C., Pucci, P., et al. (2010) · European Journal of Mass Spectrometry · doi:10.1255/ejms.1035 · Cited by 9 · see citing works

Affinity Peptidomics: Peptide Selection and Affinity Capture on Hydrogels and Microarrays

Zhang, F., Dulneva, A., Bailes, J., et al. (2009) · Methods in molecular biology · doi:10.1007/978-1-60761-535-4_23 · Cited by 9 · see citing works

Importance of Conformational Variability in Protein Engineering of Subtilisin

Bott, R., Ultsch, M. H., Wells, J. A., et al. (1987) · ACS symposium series · doi:10.1021/bk-1987-0334.ch011 · Cited by 9 · see citing works

Lysine conjugate of acrylonitrile as antigenic sites in hemoglobin adducts

Wong, J.-W., Liu, D. Z., & Zheng, Y. (2004) · Journal of Peptide Research · doi:10.1111/j.1399-3011.2003.00119.x · Cited by 7 · see citing works

A high-throughput method for measurement of glycohemoglobin in blood samples utilizing laser-accelerated proteolysis and MALDI-TOF MS

Li, L., Wenjuan, Z., & Zhang, X. (2015) · Analytical and Bioanalytical Chemistry · doi:10.1007/s00216-015-9258-1 · Cited by 7 · see citing works

Tandem affinity purification of histones, coupled to mass spectrometry, identifies associated proteins and new sites of post-translational modification in Saccharomyces cerevisiae

Valero, M. L., Sendra, R., & Pamblanco, M. (2016) · Journal of Proteomics · doi:10.1016/j.jprot.2016.01.004 · Cited by 7 · see citing works

Characterization of Membrane-Associated Glycoproteins Using Lectin Affinity Chromatography and Mass Spectrometry

Liu, Y., He, J., & Lubman, D. M. (2012) · Methods in molecular biology · doi:10.1007/978-1-62703-146-2_6 · Cited by 7 · see citing works

Integration of proteomic analyses to monitor the activity status of phosphorylation signaling

Nagano, K., Shinkawa, T., Yabuki, N., Mutoh, H., Inomata, N., Watanabe, Y., Ashihara, M., Nagahashi, S., Ishii, N., Aoki, Y., et al. (2010) · Journal of Proteomics · doi:10.1016/j.jprot.2010.11.008 · Cited by 5 · see citing works

Critical roles of Astrin in the mitosis of immature rat Sertoli cells

Tochigi, Y., Iwasaki, Y., Sano, M., Yasuda, H., Katayama, K., & Suzuki, H. (2017) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2017.03.137 · Cited by 4 · see citing works

Immunochemical Methods for the Peptidomic Analysis of Tachykinin Peptides and Their Precursors

Page, N., & Weston-Bell, N. J. (2009) · Methods in molecular biology · doi:10.1007/978-1-60761-535-4_22 · Cited by 3 · see citing works

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Sen, R. (2017) · The Journal of Immunology · doi:10.4049/jimmunol.1700680 · Cited by 3 · see citing works

Mass Spectrometric Characterization of Peptides Associated with Molecules of the Major Histocompatibility Complex

Pisano, M. R., & Ford, M. (2017) · BioTechniques · doi:10.2144/000114579 · Cited by 1 · see citing works

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Brown, K. A., Melby, J. A., Roberts, D. S., & Ge, Y. (2020) · Expert Review of Proteomics · doi:10.1080/14789450.2020.1855982 · Cited by 152 · see citing works

Reproducible large-scale synthesis of surface silanized nanoparticles as an enabling nanoproteomics platform: Enrichment of the human heart phosphoproteome

Roberts, D. S., Chen, B., Tiambeng, T. N., Wu, Z., Ge, Y., & Jin, S. (2019) · Nano Research · doi:10.1007/s12274-019-2418-4 · Cited by 33 · see citing works

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