Benjamin Garcia, Ph.D. - Publications

Affiliations: 
2005-2007 University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
 2008-2012 Princeton University, Princeton, NJ 
 2012- University of Pennsylvania Medical School, Philadelphia, PA, United States 
Area:
Epigenetics
Website:
http://www.med.upenn.edu/biocbiop/faculty/garcia/

181 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any innacuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Sen P, Lan Y, Li CY, Sidoli S, Donahue G, Dou Z, Frederick B, Chen Q, Luense LJ, Garcia BA, Dang W, Johnson FB, Adams PD, Schultz DC, Berger SL. Histone Acetyltransferase p300 Induces De Novo Super-Enhancers to Drive Cellular Senescence. Molecular Cell. PMID 30773298 DOI: 10.1016/j.molcel.2019.01.021  0.32
2019 Nicetto D, Donahue G, Jain T, Peng T, Sidoli S, Sheng L, Montavon T, Becker JS, Grindheim JM, Blahnik K, Garcia BA, Tan K, Bonasio R, Jenuwein T, Zaret KS. H3K9me3-heterochromatin loss at protein-coding genes enables developmental lineage specification. Science (New York, N.Y.). PMID 30606806 DOI: 10.1126/science.aau0583  0.32
2018 Schon SB, Luense LJ, Wang X, Bartolomei MS, Coutifaris C, Garcia BA, Berger SL. Histone modification signatures in human sperm distinguish clinical abnormalities. Journal of Assisted Reproduction and Genetics. PMID 30397898 DOI: 10.1007/s10815-018-1354-7  0.32
2018 Karch KR, Coradin M, Zandarashvili L, Kan ZY, Gerace M, Englander SW, Black BE, Garcia BA. Hydrogen-Deuterium Exchange Coupled to Top- and Middle-Down Mass Spectrometry Reveals Histone Tail Dynamics before and after Nucleosome Assembly. Structure (London, England : 1993). PMID 30293810 DOI: 10.1016/j.str.2018.08.006  0.48
2018 Oksuz O, Narendra V, Lee CH, Descostes N, LeRoy G, Raviram R, Blumenberg L, Karch K, Rocha PP, Garcia BA, Skok JA, Reinberg D. Capturing the Onset of PRC2-Mediated Repressive Domain Formation. Molecular Cell. 70: 1149-1162.e5. PMID 29932905 DOI: 10.1016/j.molcel.2018.05.023  0.36
2018 Zhang X, Xue C, Lin J, Ferguson JF, Weiner A, Liu W, Han Y, Hinkle C, Li W, Jiang H, Gosai S, Hachet M, Garcia BA, Gregory BD, Soccio RE, et al. Interrogation of nonconserved human adipose lincRNAs identifies a regulatory role of in adipocyte metabolism. Science Translational Medicine. 10. PMID 29925637 DOI: 10.1126/scitranslmed.aar5987  0.64
2018 Lee CH, Yu JR, Kumar S, Jin Y, LeRoy G, Bhanu N, Kaneko S, Garcia BA, Hamilton AD, Reinberg D. Allosteric Activation Dictates PRC2 Activity Independent of Its Recruitment to Chromatin. Molecular Cell. PMID 29681499 DOI: 10.1016/j.molcel.2018.03.020  0.36
2018 Aebersold R, Agar JN, Amster IJ, Baker MS, Bertozzi CR, Boja ES, Costello CE, Cravatt BF, Fenselau C, Garcia BA, Ge Y, Gunawardena J, Hendrickson RC, Hergenrother PJ, Huber CG, et al. How many human proteoforms are there? Nature Chemical Biology. 14: 206-214. PMID 29443976 DOI: 10.1038/nchembio.2576  0.84
2018 Lin-Shiao E, Lan Y, Coradin M, Anderson A, Donahue G, Simpson CL, Sen P, Saffie R, Busino L, Garcia BA, Berger SL, Capell BC. KMT2D regulates p63 target enhancers to coordinate epithelial homeostasis. Genes & Development. PMID 29440247 DOI: 10.1101/gad.306241.117  0.32
2017 Becker JS, McCarthy RL, Sidoli S, Donahue G, Kaeding KE, He Z, Lin S, Garcia BA, Zaret KS. Genomic and Proteomic Resolution of Heterochromatin and Its Restriction of Alternate Fate Genes. Molecular Cell. 68: 1023-1037.e15. PMID 29272703 DOI: 10.1016/j.molcel.2017.11.030  0.32
2017 Berson A, Sartoris A, Nativio R, Van Deerlin V, Toledo JB, Porta S, Liu S, Chung CY, Garcia BA, Lee VM, Trojanowski JQ, Johnson FB, Berger SL, Bonini NM. TDP-43 Promotes Neurodegeneration by Impairing Chromatin Remodeling. Current Biology : Cb. PMID 29153328 DOI: 10.1016/j.cub.2017.10.024  0.32
2017 Karch KR, Langelier MF, Pascal JM, Garcia BA. The nucleosomal surface is the main target of histone ADP-ribosylation in response to DNA damage. Molecular Biosystems. PMID 29058739 DOI: 10.1039/c7mb00498b  0.48
2017 Dou Z, Ghosh K, Vizioli MG, Zhu J, Sen P, Wangensteen KJ, Simithy J, Lan Y, Lin Y, Zhou Z, Capell BC, Xu C, Xu M, Kieckhaefer JE, Jiang T, ... ... Garcia BA, et al. Cytoplasmic chromatin triggers inflammation in senescence and cancer. Nature. PMID 28976970 DOI: 10.1038/nature24050  0.32
2017 Alečković M, Wei Y, LeRoy G, Sidoli S, Liu DD, Garcia BA, Kang Y. Identification of Nidogen 1 as a lung metastasis protein through secretome analysis. Genes & Development. PMID 28827399 DOI: 10.1101/gad.301937.117  0.36
2017 Gospocic J, Shields EJ, Glastad KM, Lin Y, Penick CA, Yan H, Mikheyev AS, Linksvayer TA, Garcia BA, Berger SL, Liebig J, Reinberg D, Bonasio R. The Neuropeptide Corazonin Controls Social Behavior and Caste Identity in Ants. Cell. 170: 748-759.e12. PMID 28802044 DOI: 10.1016/j.cell.2017.07.014  0.32
2017 Ebata KT, Mesh K, Liu S, Bilenky M, Fekete A, Acker MG, Hirst M, Garcia BA, Ramalho-Santos M. Vitamin C induces specific demethylation of H3K9me2 in mouse embryonic stem cells via Kdm3a/b. Epigenetics & Chromatin. 10: 36. PMID 28706564 DOI: 10.1186/s13072-017-0143-3  0.32
2017 Kim J, Bamlet WR, Oberg AL, Chaffee KG, Donahue G, Cao XJ, Chari S, Garcia BA, Petersen GM, Zaret KS. Detection of early pancreatic ductal adenocarcinoma with thrombospondin-2 and CA19-9 blood markers. Science Translational Medicine. 9. PMID 28701476 DOI: 10.1126/scitranslmed.aah5583  0.44
2017 Ebata KT, Mesh K, Liu S, Bilenky M, Fekete A, Acker MG, Hirst M, Garcia BA, Ramalho-Santos M. Vitamin C induces specific demethylation of H3K9me2 in mouse embryonic stem cells via Kdm3a/b. Epigenetics & Chromatin. 10: 36. PMID 28701172 DOI: 10.1186/s13072-017-0143-3  0.32
2017 Sidoli S, Lu C, Coradin M, Wang X, Karch KR, Ruminowicz C, Garcia BA. Metabolic labeling in middle-down proteomics allows for investigation of the dynamics of the histone code. Epigenetics & Chromatin. 10: 34. PMID 28683815 DOI: 10.1186/s13072-017-0139-z  0.48
2017 Wang R, Cao XJ, Kulej K, Liu W, Ma T, MacDonald M, Chiang CM, Garcia BA, You J. Uncovering BRD4 hyperphosphorylation associated with cellular transformation in NUT midline carcinoma. Proceedings of the National Academy of Sciences of the United States of America. PMID 28630312 DOI: 10.1073/pnas.1703071114  0.44
2017 Coradin M, Karch KR, Garcia BA. Monitoring proteolytic processing events by quantitative mass spectrometry. Expert Review of Proteomics. PMID 28395554 DOI: 10.1080/14789450.2017.1316977  0.48
2017 Kim JJ, Bennett NK, Devita MS, Chahar S, Viswanath S, Lee EA, Jung G, Shao PP, Childers EP, Liu S, Kulesa A, Garcia BA, Becker ML, Hwang NS, Madabhushi A, et al. Optical High Content Nanoscopy of Epigenetic Marks Decodes Phenotypic Divergence in Stem Cells. Scientific Reports. 7: 39406. PMID 28051095 DOI: 10.1038/srep39406  0.32
2016 Stankovic A, Guo LY, Mata JF, Bodor DL, Cao XJ, Bailey AO, Shabanowitz J, Hunt DF, Garcia BA, Black BE, Jansen LE. A Dual Inhibitory Mechanism Sufficient to Maintain Cell-Cycle-Restricted CENP-A Assembly. Molecular Cell. PMID 28017591 DOI: 10.1016/j.molcel.2016.11.021  0.44
2016 Liu MY, Torabifard H, Crawford DJ, DeNizio JE, Cao XJ, Garcia BA, Cisneros GA, Kohli RM. Mutations along a TET2 active site scaffold stall oxidation at 5-hydroxymethylcytosine. Nature Chemical Biology. PMID 27918559 DOI: 10.1038/nchembio.2250  0.44
2016 Cao XJ, Garcia BA. Global Proteomics Analysis of Protein Lysine Methylation. Current Protocols in Protein Science. 86: 24.8.1-24.8.19. PMID 27801517 DOI: 10.1002/cpps.16  0.44
2016 Nelson DM, Jaber-Hijazi F, Cole JJ, Robertson NA, Pawlikowski JS, Norris KT, Criscione SW, Pchelintsev NA, Piscitello D, Stong N, Rai TS, McBryan T, Otte GL, Nixon C, Clark W, ... ... Garcia BA, et al. Mapping H4K20me3 onto the chromatin landscape of senescent cells indicates a function in control of cell senescence and tumor suppression through preservation of genetic and epigenetic stability. Genome Biology. 17: 158. PMID 27457071 DOI: 10.1186/s13059-016-1017-x  0.92
2016 Avgousti DC, Herrmann C, Kulej K, Pancholi NJ, Sekulic N, Petrescu J, Molden RC, Blumenthal D, Paris AJ, Reyes ED, Ostapchuk P, Hearing P, Seeholzer SH, Worthen GS, Black BE, ... Garcia BA, et al. A core viral protein binds host nucleosomes to sequester immune danger signals. Nature. PMID 27362237 DOI: 10.1038/nature18317  0.92
2016 Luense LJ, Wang X, Schon SB, Weller AH, Lin Shiao E, Bryant JM, Bartolomei MS, Coutifaris C, Garcia BA, Berger SL. Comprehensive analysis of histone post-translational modifications in mouse and human male germ cells. Epigenetics & Chromatin. 9: 24. PMID 27330565 DOI: 10.1186/s13072-016-0072-6  0.92
2016 Sidoli S, Bhanu NV, Karch KR, Wang X, Garcia BA. Complete Workflow for Analysis of Histone Post-translational Modifications Using Bottom-up Mass Spectrometry: From Histone Extraction to Data Analysis. Journal of Visualized Experiments : Jove. PMID 27286567 DOI: 10.3791/54112  0.92
2016 Lin S, Yuan ZF, Han Y, Marchione DM, Garcia BA. Preferential phosphorylation on old histones during early mitosis in human cells. The Journal of Biological Chemistry. PMID 27226594 DOI: 10.1074/jbc.M116.726067  0.92
2016 Lu C, Jain SU, Hoelper D, Bechet D, Molden RC, Ran L, Murphy D, Venneti S, Hameed M, Pawel BR, Wunder JS, Dickson BC, Lundgren SM, Jani KS, De Jay N, ... ... Garcia BA, et al. Histone H3K36 mutations promote sarcomagenesis through altered histone methylation landscape. Science (New York, N.Y.). 352: 844-9. PMID 27174990 DOI: 10.1126/science.aac7272  0.92
2016 Runkle KB, Kharbanda A, Stypulkowski E, Cao XJ, Wang W, Garcia BA, Witze ES. Inhibition of DHHC20-Mediated EGFR Palmitoylation Creates a Dependence on EGFR Signaling. Molecular Cell. 62: 385-396. PMID 27153536 DOI: 10.1016/j.molcel.2016.04.003  0.44
2016 Zhou B, Wang J, Lee SY, Xiong J, Bhanu N, Guo Q, Ma P, Sun Y, Rao RC, Garcia BA, Hess JL, Dou Y. PRDM16 Suppresses MLL1r Leukemia via Intrinsic Histone Methyltransferase Activity. Molecular Cell. PMID 27151440 DOI: 10.1016/j.molcel.2016.03.010  0.48
2016 Wang X, Yuan ZF, Fan J, Karch KR, Ball LE, Denu JM, Garcia BA. A novel quantitative mass spectrometry platform for determining site-specific protein O-GlcNAcylation dynamics. Molecular & Cellular Proteomics : McP. PMID 27114449 DOI: 10.1074/mcp.O115.049627  0.48
2016 Garcia BA, Luka Z, Loukachevitch LV, Bhanu NV, Wagner C. Folate deficiency affects histone methylation. Medical Hypotheses. 88: 63-7. PMID 26880641 DOI: 10.1016/j.mehy.2015.12.027  0.92
2016 Gonzales-Cope M, Sidoli S, Bhanu NV, Won KJ, Garcia BA. Histone H4 acetylation and the epigenetic reader Brd4 are critical regulators of pluripotency in embryonic stem cells. Bmc Genomics. 17: 95. PMID 26847871 DOI: 10.1186/s12864-016-2414-y  0.92
2016 Washburn MP, Zhao Y, Garcia BA. Reshaping the chromatin and epigenetic landscapes with quantitative mass spectrometry. Molecular & Cellular Proteomics : McP. PMID 26814188 DOI: 10.1074/mcp.E116.058602  0.92
2016 Arnaudo AM, Link AJ, Garcia BA. Bioorthogonal Chemistry for the Isolation and Study of Newly Synthesized Histones and their Modifications. Acs Chemical Biology. PMID 26789204 DOI: 10.1021/acschembio.5b00816  0.92
2016 Anderson LC, Karch KR, Ugrin SA, Coradin M, English AM, Sidoli S, Shabanowitz J, Garcia BA, Hunt DF. Analyses of Histone Proteoforms Using Front-End Electron Transfer Dissociation-Enabled Orbitrap Instruments. Molecular & Cellular Proteomics : McP. PMID 26785730 DOI: 10.1074/mcp.O115.053843  0.92
2016 Olsen JB, Cao XJ, Han B, Chen LH, Horvath A, Richardson TI, Campbell RM, Garcia BA, Nguyen H. Quantitative profiling of the activity of protein lysine methyltransferase SMYD2 using SILAC-based proteomics. Molecular & Cellular Proteomics : McP. PMID 26750096 DOI: 10.1074/mcp.M115.053280  0.92
2016 Crawford DJ, Liu MY, Nabel CS, Cao XJ, Garcia BA, Kohli RM. Tet2 catalyzes stepwise 5-methylcytosine oxidation by an iterative and de novo mechanism. Journal of the American Chemical Society. PMID 26734843 DOI: 10.1021/jacs.5b10554  0.92
2016 Karch KR, Sidoli S, Garcia BA. Identification and Quantification of Histone PTMs Using High-Resolution Mass Spectrometry Methods in Enzymology. DOI: 10.1016/bs.mie.2015.12.007  0.92
2015 Abdul Halim MF, Karch KR, Zhou Y, Haft DH, Garcia BA, Pohlschroder M. Permuting the PGF-CTERM signature motif blocks both archaeosortase-dependent C-terminal cleavage and prenyl lipid attachment for the Haloferax volcanii S-layer glycoprotein. Journal of Bacteriology. PMID 26712937 DOI: 10.1128/JB.00849-15  0.92
2015 Bhanu NV, Sidoli S, Garcia BA. Histone modification profiling reveals differential signatures associated with human embryonic stem cell self-renewal and differentiation. Proteomics. PMID 26631989 DOI: 10.1002/pmic.201500231  0.92
2015 Hu J, Donahue G, Dorsey J, Govin J, Yuan Z, Garcia BA, Shah PP, Berger SL. H4K44 Acetylation Facilitates Chromatin Accessibility during Meiosis. Cell Reports. PMID 26628362 DOI: 10.1016/j.celrep.2015.10.070  0.92
2015 Han Y, Yuan ZF, Molden RC, Garcia BA. Monitoring cellular phosphorylation signaling pathways into chromatin and down to the gene level. Molecular & Cellular Proteomics : McP. PMID 26543102 DOI: 10.1074/mcp.M115.053421  0.92
2015 Vasudevan D, Hickok JR, Bovee RC, Pham V, Mantell LL, Bahroos N, Kanabar P, Cao XJ, Maienschein-Cline M, Garcia B, Thomas DD. Nitric oxide regulates gene expression in cancers by controlling histone posttranslational modifications. Cancer Research. PMID 26542213 DOI: 10.1158/0008-5472.CAN-15-1582  0.44
2015 Jamieson K, Wiles ET, McNaught KJ, Sidoli S, Leggett N, Shao Y, Garcia BA, Selker EU. Loss of HP1 causes depletion of H3K27me3 from facultative heterochromatin and gain of H3K27me2 at constitutive heterochromatin. Genome Research. PMID 26537359 DOI: 10.1101/gr.194555.115  0.92
2015 Sidoli S, Simithy J, Karch KR, Kulej K, Garcia BA. Low Resolution Data-Independent Acquisition in an LTQ-Orbitrap Allows for Simplified and Fully Untargeted Analysis of Histone Modifications. Analytical Chemistry. 87: 11448-54. PMID 26505526 DOI: 10.1021/acs.analchem.5b03009  0.92
2015 Chen S, Yang Z, Wilkinson AW, Deshpande AJ, Sidoli S, Krajewski K, Strahl BD, Garcia BA, Armstrong SA, Patel DJ, Gozani O. The PZP Domain of AF10 Senses Unmodified H3K27 to Regulate DOT1L-Mediated Methylation of H3K79. Molecular Cell. PMID 26439302 DOI: 10.1016/j.molcel.2015.08.019  0.92
2015 Önder Ö, Sidoli S, Carroll M, Garcia BA. Progress in epigenetic histone modification analysis by mass spectrometry for clinical investigations. Expert Review of Proteomics. 12: 499-517. PMID 26400466 DOI: 10.1586/14789450.2015.1084231  0.92
2015 Ortega-Molina A, Boss IW, Canela A, Pan H, Jiang Y, Zhao C, Jiang M, Hu D, Agirre X, Niesvizky I, Lee JE, Chen HT, Ennishi D, Scott DW, Mottok A, ... ... Garcia BA, et al. The histone lysine methyltransferase KMT2D sustains a gene expression program that represses B cell lymphoma development. Nature Medicine. PMID 26366710 DOI: 10.1038/nm.3943  0.44
2015 Zhao Y, Garcia BA. Comprehensive Catalog of Currently Documented Histone Modifications. Cold Spring Harbor Perspectives in Biology. 7: a025064. PMID 26330523 DOI: 10.1101/cshperspect.a025064  0.92
2015 Moraes I, Yuan ZF, Liu S, Souza GM, Garcia BA, Casas-Mollano JA. Analysis of Histones H3 and H4 Reveals Novel and Conserved Post-Translational Modifications in Sugarcane. Plos One. 10: e0134586. PMID 26226299 DOI: 10.1371/journal.pone.0134586  0.92
2015 Sidoli S, Garcia BA. Properly reading the histone code by MS based proteomics. Proteomics. PMID 26223514 DOI: 10.1002/pmic.201500298  0.92
2015 Maze I, Wenderski W, Noh KM, Bagot RC, Tzavaras N, Purushothaman I, Elsässer SJ, Guo Y, Ionete C, Hurd YL, Tamminga CA, Halene T, Farrelly L, Soshnev AA, Wen D, ... ... Garcia BA, et al. Critical Role of Histone Turnover in Neuronal Transcription and Plasticity. Neuron. 87: 77-94. PMID 26139371 DOI: 10.1016/j.neuron.2015.06.014  0.92
2015 Kulej K, Avgousti DC, Weitzman MD, Garcia BA. Characterization of histone post-translational modifications during virus infection using mass spectrometry-based proteomics. Methods (San Diego, Calif.). PMID 26093074 DOI: 10.1016/j.ymeth.2015.06.008  0.92
2015 Peixoto LL, Wimmer ME, Poplawski SG, Tudor JC, Kenworthy CA, Liu S, Mizuno K, Garcia BA, Zhang NR, Giese K, Abel T. Memory acquisition and retrieval impact different epigenetic processes that regulate gene expression. Bmc Genomics. 16: S5. PMID 26040834 DOI: 10.1186/1471-2164-16-S5-S5  0.32
2015 Molden RC, Bhanu NV, LeRoy G, Arnaudo AM, Garcia BA. Multi-faceted quantitative proteomics analysis of histone H2B isoforms and their modifications. Epigenetics & Chromatin. 8: 15. PMID 25922622 DOI: 10.1186/s13072-015-0006-8  0.92
2015 Ziehr B, Lenarcic E, Vincent HA, Cecil C, Garcia B, Shenk T, Moorman NJ. Human cytomegalovirus TRS1 protein associates with the 7-methylguanosine mRNA cap and facilitates translation. Proteomics. 15: 1983-94. PMID 25894605 DOI: 10.1002/pmic.201400616  0.92
2015 Won KJ, Choi I, LeRoy G, Zee BM, Sidoli S, Gonzales-Cope M, Garcia BA. Proteogenomics analysis reveals specific genomic orientations of distal regulatory regions composed by non-canonical histone variants. Epigenetics & Chromatin. 8: 13. PMID 25878728 DOI: 10.1186/s13072-015-0005-9  0.92
2015 Nguyen H, Allali-Hassani A, Antonysamy S, Chang S, Chen LH, Curtis C, Emtage S, Fan L, Gheyi T, Li F, Liu S, Martin JR, Mendel D, Olsen JB, Pelletier L, ... ... Garcia BA, et al. LLY-507, a Cell-active, Potent, and Selective Inhibitor of Protein-lysine Methyltransferase SMYD2. The Journal of Biological Chemistry. 290: 13641-53. PMID 25825497 DOI: 10.1074/jbc.M114.626861  0.92
2015 Yuan ZF, Lin S, Molden RC, Cao XJ, Bhanu NV, Wang X, Sidoli S, Liu S, Garcia BA. EpiProfile Quantifies Histone Peptides With Modifications by Extracting Retention Time and Intensity in High-resolution Mass Spectra. Molecular & Cellular Proteomics : McP. 14: 1696-707. PMID 25805797 DOI: 10.1074/mcp.M114.046011  0.92
2015 Sidoli S, Lin S, Karch KR, Garcia BA. Bottom-up and middle-down proteomics have comparable accuracies in defining histone post-translational modification relative abundance and stoichiometry. Analytical Chemistry. 87: 3129-33. PMID 25719549 DOI: 10.1021/acs.analchem.5b00072  0.92
2015 Bryant JM, Donahue G, Wang X, Meyer-Ficca M, Luense LJ, Weller AH, Bartolomei MS, Blobel GA, Meyer RG, Garcia BA, Berger SL. Characterization of BRD4 during mammalian postmeiotic sperm development. Molecular and Cellular Biology. 35: 1433-48. PMID 25691659 DOI: 10.1128/MCB.01328-14  0.92
2015 Huang H, Lin S, Garcia BA, Zhao Y. Quantitative proteomic analysis of histone modifications. Chemical Reviews. 115: 2376-418. PMID 25688442 DOI: 10.1021/cr500491u  0.92
2015 Laurent B, Ruitu L, Murn J, Hempel K, Ferrao R, Xiang Y, Liu S, Garcia BA, Wu H, Wu F, Steen H, Shi Y. A specific LSD1/KDM1A isoform regulates neuronal differentiation through H3K9 demethylation. Molecular Cell. 57: 957-70. PMID 25684206 DOI: 10.1016/j.molcel.2015.01.010  0.92
2015 Sidoli S, Yuan ZF, Lin S, Karch K, Wang X, Bhanu N, Arnaudo AM, Britton LM, Cao XJ, Gonzales-Cope M, Han Y, Liu S, Molden RC, Wein S, Afjehi-Sadat L, ... Garcia BA, et al. Drawbacks in the use of unconventional hydrophobic anhydrides for histone derivatization in bottom-up proteomics PTM analysis. Proteomics. 15: 1459-69. PMID 25641854 DOI: 10.1002/pmic.201400483  0.92
2015 Sidoli S, Lin S, Xiong L, Bhanu NV, Karch KR, Johansen E, Hunter C, Mollah S, Garcia BA. SWATH Analysis for Characterization and Quantification of Histone Post-translational Modifications. Molecular & Cellular Proteomics : McP. PMID 25636311 DOI: 10.1074/mcp.O114.046102  0.92
2015 Zhou Z, Rawnsley DR, Goddard LM, Pan W, Cao XJ, Jakus Z, Zheng H, Yang J, Arthur JS, Whitehead KJ, Li D, Zhou B, Garcia BA, Zheng X, Kahn ML. The cerebral cavernous malformation pathway controls cardiac development via regulation of endocardial MEKK3 signaling and KLF expression. Developmental Cell. 32: 168-80. PMID 25625206 DOI: 10.1016/j.devcel.2014.12.009  0.92
2015 Kang S, Tsai LT, Zhou Y, Evertts A, Xu S, Griffin MJ, Issner R, Whitton HJ, Garcia BA, Epstein CB, Mikkelsen TS, Rosen ED. Identification of nuclear hormone receptor pathways causing insulin resistance by transcriptional and epigenomic analysis. Nature Cell Biology. 17: 44-56. PMID 25503565 DOI: 10.1038/ncb3080  0.92
2015 Garrigues JM, Sidoli S, Garcia BA, Strome S. Defining heterochromatin in C. elegans through genome-wide analysis of the heterochromatin protein 1 homolog HPL-2. Genome Research. 25: 76-88. PMID 25467431 DOI: 10.1101/gr.180489.114  0.92
2015 Xu B, On DM, Ma A, Parton T, Konze KD, Pattenden SG, Allison DF, Cai L, Rockowitz S, Liu S, Liu Y, Li F, Vedadi M, Frye SV, Garcia BA, et al. Selective inhibition of EZH2 and EZH1 enzymatic activity by a small molecule suppresses MLL-rearranged leukemia. Blood. 125: 346-57. PMID 25395428 DOI: 10.1182/blood-2014-06-581082  0.92
2014 Kanno T, Kanno Y, LeRoy G, Campos E, Sun HW, Brooks SR, Vahedi G, Heightman TD, Garcia BA, Reinberg D, Siebenlist U, O'Shea JJ, Ozato K. BRD4 assists elongation of both coding and enhancer RNAs by interacting with acetylated histones. Nature Structural & Molecular Biology. 21: 1047-57. PMID 25383670 DOI: 10.1038/nsmb.2912  0.92
2014 Maze I, Shen L, Zhang B, Garcia BA, Shao N, Mitchell A, Sun H, Akbarian S, Allis CD, Nestler EJ. Analytical tools and current challenges in the modern era of neuroepigenomics. Nature Neuroscience. 17: 1476-90. PMID 25349914 DOI: 10.1038/nn.3816  0.92
2014 Karch KR, Zee BM, Garcia BA. High resolution is not a strict requirement for characterization and quantification of histone post-translational modifications. Journal of Proteome Research. 13: 6152-9. PMID 25325711 DOI: 10.1021/pr500902f  0.92
2014 Beck DB, Narendra V, Drury WJ, Casey R, Jansen PW, Yuan ZF, Garcia BA, Vermeulen M, Bonasio R. In vivo proximity labeling for the detection of protein-protein and protein-RNA interactions. Journal of Proteome Research. 13: 6135-43. PMID 25311790 DOI: 10.1021/pr500196b  0.92
2014 Huang H, Sabari BR, Garcia BA, Allis CD, Zhao Y. SnapShot: histone modifications. Cell. 159: 458-458.e1. PMID 25303536 DOI: 10.1016/j.cell.2014.09.037  0.92
2014 Yuan ZF, Lin S, Molden RC, Garcia BA. Evaluation of proteomic search engines for the analysis of histone modifications. Journal of Proteome Research. 13: 4470-8. PMID 25167464 DOI: 10.1021/pr5008015  0.92
2014 Mews P, Zee BM, Liu S, Donahue G, Garcia BA, Berger SL. Histone methylation has dynamics distinct from those of histone acetylation in cell cycle reentry from quiescence. Molecular and Cellular Biology. 34: 3968-80. PMID 25154414 DOI: 10.1128/MCB.00763-14  0.92
2014 Britton LM, Sova P, Belisle S, Liu S, Chan EY, Katze MG, Garcia BA. A proteomic glimpse into the initial global epigenetic changes during HIV infection. Proteomics. 14: 2226-30. PMID 25116026 DOI: 10.1002/pmic.201400116  0.92
2014 Molden RC, Garcia BA. Middle-Down and Top-Down Mass Spectrometric Analysis of Co-occurring Histone Modifications. Current Protocols in Protein Science / Editorial Board, John E. Coligan ... [Et Al.]. 77: 23.7.1-23.7.28. PMID 25081742 DOI: 10.1002/0471140864.ps2307s77  0.92
2014 Lin S, Wein S, Gonzales-Cope M, Otte GL, Yuan ZF, Afjehi-Sadat L, Maile T, Berger SL, Rush J, Lill JR, Arnott D, Garcia BA. Stable-isotope-labeled histone peptide library for histone post-translational modification and variant quantification by mass spectrometry. Molecular & Cellular Proteomics : McP. 13: 2450-66. PMID 25000943 DOI: 10.1074/mcp.O113.036459  0.92
2014 Lee JV, Carrer A, Shah S, Snyder NW, Wei S, Venneti S, Worth AJ, Yuan ZF, Lim HW, Liu S, Jackson E, Aiello NM, Haas NB, Rebbeck TR, Judkins A, ... ... Garcia BA, et al. Akt-dependent metabolic reprogramming regulates tumor cell histone acetylation. Cell Metabolism. 20: 306-19. PMID 24998913 DOI: 10.1016/j.cmet.2014.06.004  0.92
2014 O'Connor CM, DiMaggio PA, Shenk T, Garcia BA. Quantitative proteomic discovery of dynamic epigenome changes that control human cytomegalovirus (HCMV) infection. Molecular & Cellular Proteomics : McP. 13: 2399-410. PMID 24987098 DOI: 10.1074/mcp.M114.039792  0.92
2014 Yuan ZF, Arnaudo AM, Garcia BA. Mass spectrometric analysis of histone proteoforms. Annual Review of Analytical Chemistry (Palo Alto, Calif.). 7: 113-28. PMID 24896311 DOI: 10.1146/annurev-anchem-071213-015959  0.92
2014 Su Z, Boersma MD, Lee JH, Oliver SS, Liu S, Garcia BA, Denu JM. ChIP-less analysis of chromatin states. Epigenetics & Chromatin. 7: 7. PMID 24872844 DOI: 10.1186/1756-8935-7-7  0.92
2014 Mazur PK, Reynoird N, Khatri P, Jansen PW, Wilkinson AW, Liu S, Barbash O, Van Aller GS, Huddleston M, Dhanak D, Tummino PJ, Kruger RG, Garcia BA, Butte AJ, Vermeulen M, et al. SMYD3 links lysine methylation of MAP3K2 to Ras-driven cancer. Nature. 510: 283-7. PMID 24847881 DOI: 10.1038/nature13320  0.92
2014 Smadbeck J, Peterson MB, Zee BM, Garapaty S, Mago A, Lee C, Giannis A, Trojer P, Garcia BA, Floudas CA. De novo peptide design and experimental validation of histone methyltransferase inhibitors. Plos One. 9: e95535. PMID 24740276 DOI: 10.1371/journal.pone.0095535  0.92
2014 Smadbeck J, Peterson MB, Zee BM, Garapaty S, Mago A, Lee C, Giannis A, Trojer P, Garcia BA, Floudas CA. De novo peptide design and experimental validation of histone methyltransferase inhibitors. Plos One. 9: e90095. PMID 24587223 DOI: 10.1371/journal.pone.0090095  0.92
2014 Molden RC, Goya J, Khan Z, Garcia BA. Stable isotope labeling of phosphoproteins for large-scale phosphorylation rate determination. Molecular & Cellular Proteomics : McP. 13: 1106-18. PMID 24532841 DOI: 10.1074/mcp.O113.036145  0.92
2014 Fan J, Shan C, Kang HB, Elf S, Xie J, Tucker M, Gu TL, Aguiar M, Lonning S, Chen H, Mohammadi M, Britton LM, Garcia BA, Alečković M, Kang Y, et al. Tyr phosphorylation of PDP1 toggles recruitment between ACAT1 and SIRT3 to regulate the pyruvate dehydrogenase complex. Molecular Cell. 53: 534-48. PMID 24486017 DOI: 10.1016/j.molcel.2013.12.026  0.92
2014 Rhoads TW, Rose CM, Bailey DJ, Riley NM, Molden RC, Nestler AJ, Merrill AE, Smith LM, Hebert AS, Westphall MS, Pagliarini DJ, Garcia BA, Coon JJ. Neutron-encoded mass signatures for quantitative top-down proteomics. Analytical Chemistry. 86: 2314-9. PMID 24475910 DOI: 10.1021/ac403579s  0.92
2014 Bhanu NV, Garcia BA. Proteomic interrogation of human chromatin protein states Systems Analysis of Chromatin-Related Protein Complexes in Cancer. 2147483647: 149-175. DOI: 10.1007/978-1-4614-7931-4_8  0.92
2013 Karch KR, Denizio JE, Black BE, Garcia BA. Identification and interrogation of combinatorial histone modifications. Frontiers in Genetics. 4: 264. PMID 24391660 DOI: 10.3389/fgene.2013.00264  0.92
2013 Simeoni F, Tasselli L, Tanaka S, Villanova L, Hayashi M, Kubota K, Isono F, Garcia BA, Michishita-Kioi E, Chua KF. Proteomic analysis of the SIRT6 interactome: novel links to genome maintenance and cellular stress signaling. Scientific Reports. 3: 3085. PMID 24169447 DOI: 10.1038/srep03085  0.92
2013 Casadio F, Lu X, Pollock SB, LeRoy G, Garcia BA, Muir TW, Roeder RG, Allis CD. H3R42me2a is a histone modification with positive transcriptional effects. Proceedings of the National Academy of Sciences of the United States of America. 110: 14894-9. PMID 23980157 DOI: 10.1073/pnas.1312925110  0.92
2013 Britton LM, Newhart A, Bhanu NV, Sridharan R, Gonzales-Cope M, Plath K, Janicki SM, Garcia BA. Initial characterization of histone H3 serine 10 O-acetylation. Epigenetics : Official Journal of the Dna Methylation Society. 8: 1101-13. PMID 23949383 DOI: 10.4161/epi.26025  0.92
2013 Evertts AG, Manning AL, Wang X, Dyson NJ, Garcia BA, Coller HA. H4K20 methylation regulates quiescence and chromatin compaction. Molecular Biology of the Cell. 24: 3025-37. PMID 23924899 DOI: 10.1091/mbc.E12-07-0529  0.92
2013 Arnaudo AM, Garcia BA. Proteomic characterization of novel histone post-translational modifications. Epigenetics & Chromatin. 6: 24. PMID 23916056 DOI: 10.1186/1756-8935-6-24  0.92
2013 Han Y, Garcia BA. Combining genomic and proteomic approaches for epigenetics research. Epigenomics. 5: 439-52. PMID 23895656 DOI: 10.2217/epi.13.37  0.92
2013 Leroy G, Dimaggio PA, Chan EY, Zee BM, Blanco MA, Bryant B, Flaniken IZ, Liu S, Kang Y, Trojer P, Garcia BA. A quantitative atlas of histone modification signatures from human cancer cells. Epigenetics & Chromatin. 6: 20. PMID 23826629 DOI: 10.1186/1756-8935-6-20  0.92
2013 Stadler SC, Vincent CT, Fedorov VD, Patsialou A, Cherrington BD, Wakshlag JJ, Mohanan S, Zee BM, Zhang X, Garcia BA, Condeelis JS, Brown AM, Coonrod SA, Allis CD. Dysregulation of PAD4-mediated citrullination of nuclear GSK3β activates TGF-β signaling and induces epithelial-to-mesenchymal transition in breast cancer cells. Proceedings of the National Academy of Sciences of the United States of America. 110: 11851-6. PMID 23818587 DOI: 10.1073/pnas.1308362110  0.92
2013 Sridharan R, Gonzales-Cope M, Chronis C, Bonora G, McKee R, Huang C, Patel S, Lopez D, Mishra N, Pellegrini M, Carey M, Garcia BA, Plath K. Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1γ in reprogramming to pluripotency. Nature Cell Biology. 15: 872-82. PMID 23748610 DOI: 10.1038/ncb2768  0.92
2013 Cao XJ, Arnaudo AM, Garcia BA. Large-scale global identification of protein lysine methylation in vivo. Epigenetics. 8: 477-85. PMID 23644510 DOI: 10.4161/epi.24547  0.92
2013 Olszewski KL, Mather MW, Morrisey JM, Garcia BA, Vaidya AB, Rabinowitz JD, Llinás M. Retraction: Branched tricarboxylic acid metabolism in Plasmodium falciparum. Nature. 497: 652. PMID 23615611 DOI: 10.1038/nature12164  0.92
2013 Lewis PW, Müller MM, Koletsky MS, Cordero F, Lin S, Banaszynski LA, Garcia BA, Muir TW, Becher OJ, Allis CD. Inhibition of PRC2 activity by a gain-of-function H3 mutation found in pediatric glioblastoma. Science (New York, N.Y.). 340: 857-61. PMID 23539183 DOI: 10.1126/science.1232245  0.92
2013 Evertts AG, Zee BM, Dimaggio PA, Gonzales-Cope M, Coller HA, Garcia BA. Quantitative dynamics of the link between cellular metabolism and histone acetylation. The Journal of Biological Chemistry. 288: 12142-51. PMID 23482559 DOI: 10.1074/jbc.M112.428318  0.92
2013 Gaspar-Maia A, Qadeer ZA, Hasson D, Ratnakumar K, Leu NA, Leroy G, Liu S, Costanzi C, Valle-Garcia D, Schaniel C, Lemischka I, Garcia B, Pehrson JR, Bernstein E. MacroH2A histone variants act as a barrier upon reprogramming towards pluripotency. Nature Communications. 4: 1565. PMID 23463008 DOI: 10.1038/ncomms2582  0.92
2013 Cao XJ, Zee BM, Garcia BA. Heavy methyl-SILAC labeling coupled with liquid chromatography and high-resolution mass spectrometry to study the dynamics of site-specific histone methylation. Methods in Molecular Biology (Clifton, N.J.). 977: 299-313. PMID 23436372 DOI: 10.1007/978-1-62703-284-1_24  0.92
2013 Zee BM, Garcia BA. Validation of protein acetylation by mass spectrometry. Methods in Molecular Biology (Clifton, N.J.). 981: 1-11. PMID 23381849 DOI: 10.1007/978-1-62703-305-3_1  0.92
2013 Afjehi-Sadat L, Garcia BA. Comprehending dynamic protein methylation with mass spectrometry. Current Opinion in Chemical Biology. 17: 12-9. PMID 23333572 DOI: 10.1016/j.cbpa.2012.12.023  0.92
2013 Binda O, Sevilla A, LeRoy G, Lemischka IR, Garcia BA, Richard S. SETD6 monomethylates H2AZ on lysine 7 and is required for the maintenance of embryonic stem cell self-renewal. Epigenetics. 8: 177-83. PMID 23324626 DOI: 10.4161/epi.23416  0.92
2013 Wang CI, Alekseyenko AA, LeRoy G, Elia AE, Gorchakov AA, Britton LM, Elledge SJ, Kharchenko PV, Garcia BA, Kuroda MI. Chromatin proteins captured by ChIP-mass spectrometry are linked to dosage compensation in Drosophila. Nature Structural & Molecular Biology. 20: 202-9. PMID 23295261 DOI: 10.1038/nsmb.2477  0.92
2013 Baliban RC, Sakellari D, Li Z, Guzman YA, Garcia BA, Floudas CA. Discovery of biomarker combinations that predict periodontal health or disease with high accuracy from GCF samples based on high-throughput proteomic analysis and mixed-integer linear optimization. Journal of Clinical Periodontology. 40: 131-9. PMID 23190455 DOI: 10.1111/jcpe.12037  0.92
2013 Wu Y, DiMaggio PA, Perlman DH, Zakian VA, Garcia BA. Novel phosphorylation sites in the S. cerevisiae Cdc13 protein reveal new targets for telomere length regulation. Journal of Proteome Research. 12: 316-27. PMID 23181431 DOI: 10.1021/pr300408v  0.92
2013 Gaspar-Maia A, Qadeer ZA, Hasson D, Ratnakumar K, Leu NA, Leroy G, Liu S, Costanzi C, Valle-Garcia D, Schaniel C, Lemischka I, Garcia B, Pehrson JR, Bernstein E. MacroH2A histone variants act as a barrier upon reprogramming towards pluripotency (Nature Communications (2013) 4, (1565) DOI: 10.1038/ncomms2582) Nature Communications. 4. DOI: 10.1038/ncomms3090  0.92
2012 Voigt P, LeRoy G, Drury WJ, Zee BM, Son J, Beck DB, Young NL, Garcia BA, Reinberg D. Asymmetrically modified nucleosomes. Cell. 151: 181-93. PMID 23021224 DOI: 10.1016/j.cell.2012.09.002  0.92
2012 Lin S, Garcia BA. Examining histone posttranslational modification patterns by high-resolution mass spectrometry. Methods in Enzymology. 512: 3-28. PMID 22910200 DOI: 10.1016/B978-0-12-391940-3.00001-9  0.92
2012 LeRoy G, Chepelev I, DiMaggio PA, Blanco MA, Zee BM, Zhao K, Garcia BA. Proteo-Genomic characterization and mapping of nucleosomes decoded by Brd and HP1 proteins Genome Biology. R68. PMID 22897906 DOI: 10.1186/gb-2012-13-8-r68  0.92
2012 Baliban RC, Dimaggio PA, Plazas-Mayorca MD, Garcia BA, Floudas CA. PILOT_PROTEIN: identification of unmodified and modified proteins via high-resolution mass spectrometry and mixed-integer linear optimization. Journal of Proteome Research. 11: 4615-29. PMID 22788846 DOI: 10.1021/pr300418j  0.92
2012 Rothbart SB, Lin S, Britton LM, Krajewski K, Keogh MC, Garcia BA, Strahl BD. Poly-acetylated chromatin signatures are preferred epitopes for site-specific histone H4 acetyl antibodies. Scientific Reports. 2: 489. PMID 22761995 DOI: 10.1038/srep00489  0.92
2012 Barber MF, Michishita-Kioi E, Xi Y, Tasselli L, Kioi M, Moqtaderi Z, Tennen RI, Paredes S, Young NL, Chen K, Struhl K, Garcia BA, Gozani O, Li W, Chua KF. SIRT7 links H3K18 deacetylation to maintenance of oncogenic transformation. Nature. 487: 114-8. PMID 22722849 DOI: 10.1038/nature11043  0.92
2012 Zee BM, Garcia BA. Discovery of lysine post-translational modifications through mass spectrometric detection. Essays in Biochemistry. 52: 147-63. PMID 22708569 DOI: 10.1042/bse0520147  0.92
2012 Blanco MA, LeRoy G, Khan Z, Alečković M, Zee BM, Garcia BA, Kang Y. Global secretome analysis identifies novel mediators of bone metastasis. Cell Research. 22: 1339-55. PMID 22688892 DOI: 10.1038/cr.2012.89  0.92
2012 Lee SH, Kalejta RF, Kerry J, Semmes OJ, O'Connor CM, Khan Z, Garcia BA, Shenk T, Murphy E. BclAF1 restriction factor is neutralized by proteasomal degradation and microRNA repression during human cytomegalovirus infection. Proceedings of the National Academy of Sciences of the United States of America. 109: 9575-80. PMID 22645331 DOI: 10.1073/pnas.1207496109  0.92
2012 Peinado H, Ale?kovi? M, Lavotshkin S, Matei I, Costa-Silva B, Moreno-Bueno G, Hergueta-Redondo M, Williams C, García-Santos G, Ghajar C, Nitadori-Hoshino A, Hoffman C, Badal K, Garcia BA, Callahan MK, et al. Melanoma exosomes educate bone marrow progenitor cells toward a pro-metastatic phenotype through MET. Nature Medicine. 18: 883-91. PMID 22635005 DOI: 10.1038/nm.2753  0.92
2012 Chicas A, Kapoor A, Wang X, Aksoy O, Evertts AG, Zhang MQ, Garcia BA, Bernstein E, Lowe SW. H3K4 demethylation by Jarid1a and Jarid1b contributes to retinoblastoma-mediated gene silencing during cellular senescence. Proceedings of the National Academy of Sciences of the United States of America. 109: 8971-6. PMID 22615382 DOI: 10.1073/pnas.1119836109  0.92
2012 Zee BM, Britton LM, Wolle D, Haberman DM, Garcia BA. Origins and formation of histone methylation across the human cell cycle. Molecular and Cellular Biology. 32: 2503-14. PMID 22547680 DOI: 10.1128/MCB.06673-11  0.92
2012 Van Aller GS, Reynoird N, Barbash O, Huddleston M, Liu S, Zmoos AF, McDevitt P, Sinnamon R, Le B, Mas G, Annan R, Sage J, Garcia BA, Tummino PJ, Gozani O, et al. Smyd3 regulates cancer cell phenotypes and catalyzes histone H4 lysine 5 methylation. Epigenetics. 7: 340-3. PMID 22419068 DOI: 10.4161/epi.19506  0.92
2012 Ratnakumar K, Duarte LF, LeRoy G, Hasson D, Smeets D, Vardabasso C, Bönisch C, Zeng T, Xiang B, Zhang DY, Li H, Wang X, Hake SB, Schermelleh L, Garcia BA, et al. ATRX-mediated chromatin association of histone variant macroH2A1 regulates α-globin expression. Genes & Development. 26: 433-8. PMID 22391447 DOI: 10.1101/gad.179416.111  0.92
2012 Yu Y, Song C, Zhang Q, DiMaggio PA, Garcia BA, York A, Carey MF, Grunstein M. Histone H3 lysine 56 methylation regulates DNA replication through its interaction with PCNA. Molecular Cell. 46: 7-17. PMID 22387026 DOI: 10.1016/j.molcel.2012.01.019  0.92
2012 Green EM, Mas G, Young NL, Garcia BA, Gozani O. Methylation of H4 lysines 5, 8 and 12 by yeast Set5 calibrates chromatin stress responses. Nature Structural & Molecular Biology. 19: 361-3. PMID 22343720 DOI: 10.1038/nsmb.2252  0.92
2012 Baliban RC, Sakellari D, Li Z, DiMaggio PA, Garcia BA, Floudas CA. Novel protein identification methods for biomarker discovery via a proteomic analysis of periodontally healthy and diseased gingival crevicular fluid samples. Journal of Clinical Periodontology. 39: 203-12. PMID 22092770 DOI: 10.1111/j.1600-051X.2011.01805.x  0.92
2011 Kuo AJ, Cheung P, Chen K, Zee BM, Kioi M, Lauring J, Xi Y, Park BH, Shi X, Garcia BA, Li W, Gozani O. NSD2 links dimethylation of histone H3 at lysine 36 to oncogenic programming. Molecular Cell. 44: 609-20. PMID 22099308 DOI: 10.1016/j.molcel.2011.08.042  0.92
2011 Britton LM, Gonzales-Cope M, Zee BM, Garcia BA. Breaking the histone code with quantitative mass spectrometry. Expert Review of Proteomics. 8: 631-43. PMID 21999833 DOI: 10.1586/epr.11.47  0.92
2011 Zee BM, Young NL, Garcia BA. Quantitative proteomic approaches to studying histone modifications. Current Chemical Genomics. 5: 106-14. PMID 21966350 DOI: 10.2174/1875397301005010106  0.92
2011 Torrente MP, Zee BM, Young NL, Baliban RC, LeRoy G, Floudas CA, Hake SB, Garcia BA. Proteomic interrogation of human chromatin. Plos One. 6: e24747. PMID 21935452 DOI: 10.1371/journal.pone.0024747  0.92
2011 Korpal M, Ell BJ, Buffa FM, Ibrahim T, Blanco MA, Celià-Terrassa T, Mercatali L, Khan Z, Goodarzi H, Hua Y, Wei Y, Hu G, Garcia BA, Ragoussis J, Amadori D, et al. Direct targeting of Sec23a by miR-200s influences cancer cell secretome and promotes metastatic colonization. Nature Medicine. 17: 1101-8. PMID 21822286 DOI: 10.1038/nm.2401  0.92
2011 Waldmann T, Izzo A, Kamieniarz K, Richter F, Vogler C, Sarg B, Lindner H, Young NL, Mittler G, Garcia BA, Schneider R. Methylation of H2AR29 is a novel repressive PRMT6 target. Epigenetics & Chromatin. 4: 11. PMID 21774791 DOI: 10.1186/1756-8935-4-11  0.92
2011 Vedadi M, Barsyte-Lovejoy D, Liu F, Rival-Gervier S, Allali-Hassani A, Labrie V, Wigle TJ, Dimaggio PA, Wasney GA, Siarheyeva A, Dong A, Tempel W, Wang SC, Chen X, Chau I, ... ... Garcia BA, et al. A chemical probe selectively inhibits G9a and GLP methyltransferase activity in cells. Nature Chemical Biology. 7: 566-74. PMID 21743462 DOI: 10.1038/nchembio.599  0.92
2011 Wu L, Zee BM, Wang Y, Garcia BA, Dou Y. The RING finger protein MSL2 in the MOF complex is an E3 ubiquitin ligase for H2B K34 and is involved in crosstalk with H3 K4 and K79 methylation. Molecular Cell. 43: 132-44. PMID 21726816 DOI: 10.1016/j.molcel.2011.05.015  0.92
2011 Yan K, Cao Q, Reilly CM, Young NL, Garcia BA, Mishra N. Histone deacetylase 9 deficiency protects against effector T cell-mediated systemic autoimmunity. The Journal of Biological Chemistry. 286: 28833-43. PMID 21708950 DOI: 10.1074/jbc.M111.233932  0.92
2011 Arnaudo AM, Molden RC, Garcia BA. Revealing histone variant induced changes via quantitative proteomics. Critical Reviews in Biochemistry and Molecular Biology. 46: 284-94. PMID 21526979 DOI: 10.3109/10409238.2011.577052  0.92
2011 Hergeth SP, Dundr M, Tropberger P, Zee BM, Garcia BA, Daujat S, Schneider R. Isoform-specific phosphorylation of human linker histone H1.4 in mitosis by the kinase Aurora B. Journal of Cell Science. 124: 1623-8. PMID 21511733 DOI: 10.1242/jcs.084947  0.92
2011 Levy D, Kuo AJ, Chang Y, Schaefer U, Kitson C, Cheung P, Espejo A, Zee BM, Liu CL, Tangsombatvisit S, Tennen RI, Kuo AY, Tanjing S, Cheung R, Chua KF, ... ... Garcia BA, et al. Lysine methylation of the NF-κB subunit RelA by SETD6 couples activity of the histone methyltransferase GLP at chromatin to tonic repression of NF-κB signaling. Nature Immunology. 12: 29-36. PMID 21131967 DOI: 10.1038/ni.1968  0.92
2011 Young NL, Garcia BA. Chapter 4: Liquid chromatography-mass spectrometry of intact proteins Rsc Chromatography Monographs. 38-55.  0.92
2010 Garcia BA, Cooper HJ, Dorrestein PC, Tang K, Ueberheide BM. Proteomics. Journal of Biomedicine & Biotechnology. 2010: 453045. PMID 21541239 DOI: 10.1155/2010/453045  0.92
2010 Kapoor A, Goldberg MS, Cumberland LK, Ratnakumar K, Segura MF, Emanuel PO, Menendez S, Vardabasso C, Leroy G, Vidal CI, Polsky D, Osman I, Garcia BA, Hernando E, Bernstein E. The histone variant macroH2A suppresses melanoma progression through regulation of CDK8. Nature. 468: 1105-9. PMID 21179167 DOI: 10.1038/nature09590  0.36
2010 Zee BM, Levin RS, Dimaggio PA, Garcia BA. Global turnover of histone post-translational modifications and variants in human cells. Epigenetics & Chromatin. 3: 22. PMID 21134274 DOI: 10.1186/1756-8935-3-22  0.92
2010 Binda O, LeRoy G, Bua DJ, Garcia BA, Gozani O, Richard S. Trimethylation of histone H3 lysine 4 impairs methylation of histone H3 lysine 9: regulation of lysine methyltransferases by physical interaction with their substrates. Epigenetics. 5: 767-75. PMID 21124070 DOI: 10.4161/epi.5.8.13278  0.36
2010 Olszewski KL, Mather MW, Morrisey JM, Garcia BA, Vaidya AB, Rabinowitz JD, Llinás M. Branched tricarboxylic acid metabolism in Plasmodium falciparum. Nature. 466: 774-8. PMID 20686576 DOI: 10.1038/nature09301  0.92
2010 Young NL, Dimaggio PA, Garcia BA. The significance, development and progress of high-throughput combinatorial histone code analysis. Cellular and Molecular Life Sciences : Cmls. 67: 3983-4000. PMID 20683756 DOI: 10.1007/s00018-010-0475-7  0.92
2010 Qi HH, Sarkissian M, Hu GQ, Wang Z, Bhattacharjee A, Gordon DB, Gonzales M, Lan F, Ongusaha PP, Huarte M, Yaghi NK, Lim H, Garcia BA, Brizuela L, Zhao K, et al. Histone H4K20/H3K9 demethylase PHF8 regulates zebrafish brain and craniofacial development. Nature. 466: 503-7. PMID 20622853 DOI: 10.1038/nature09261  0.92
2010 Plazas-Mayorca MD, Bloom JS, Zeissler U, Leroy G, Young NL, DiMaggio PA, Krugylak L, Schneider R, Garcia BA. Quantitative proteomics reveals direct and indirect alterations in the histone code following methyltransferase knockdown. Molecular Biosystems. 6: 1719-29. PMID 20577673 DOI: 10.1039/c003307c  0.92
2010 Weiss T, Hergeth S, Zeissler U, Izzo A, Tropberger P, Zee BM, Dundr M, Garcia BA, Daujat S, Schneider R. Histone H1 variant-specific lysine methylation by G9a/KMT1C and Glp1/KMT1D. Epigenetics & Chromatin. 3: 7. PMID 20334638 DOI: 10.1186/1756-8935-3-7  0.92
2010 Young NL, Plazas-Mayorca MD, DiMaggio PA, Flaniken IZ, Beltran AJ, Mishra N, LeRoy G, Floudas CA, Garcia BA. Collective mass spectrometry approaches reveal broad and combinatorial modification of high mobility group protein A1a. Journal of the American Society For Mass Spectrometry. 21: 960-70. PMID 20202861 DOI: 10.1016/j.jasms.2010.01.020  0.92
2010 Garske AL, Oliver SS, Wagner EK, Musselman CA, LeRoy G, Garcia BA, Kutateladze TG, Denu JM. Combinatorial profiling of chromatin binding modules reveals multisite discrimination. Nature Chemical Biology. 6: 283-90. PMID 20190764 DOI: 10.1038/nchembio.319  0.36
2010 Young NL, Plazas-Mayorca MD, Garcia BA. Systems-wide proteomic characterization of combinatorial post-translational modification patterns. Expert Review of Proteomics. 7: 79-92. PMID 20121478 DOI: 10.1586/epr.09.100  0.92
2010 Evertts AG, Zee BM, Garcia BA. Modern approaches for investigating epigenetic signaling pathways. Journal of Applied Physiology (Bethesda, Md. : 1985). 109: 927-33. PMID 20110548 DOI: 10.1152/japplphysiol.00007.2010  0.92
2010 Baliban RC, DiMaggio PA, Plazas-Mayorca MD, Young NL, Garcia BA, Floudas CA. A novel approach for untargeted post-translational modification identification using integer linear optimization and tandem mass spectrometry. Molecular & Cellular Proteomics : McP. 9: 764-79. PMID 20103568 DOI: 10.1074/mcp.M900487-MCP200  0.92
2010 Zee BM, Levin RS, Xu B, LeRoy G, Wingreen NS, Garcia BA. In vivo residue-specific histone methylation dynamics. The Journal of Biological Chemistry. 285: 3341-50. PMID 19940157 DOI: 10.1074/jbc.M109.063784  0.92
2010 Zee BM, Garcia BA. Electron transfer dissociation facilitates sequencing of adenosine diphosphate-ribosylated peptides. Analytical Chemistry. 82: 28-31. PMID 19928949 DOI: 10.1021/ac902134y  0.92
2009 Plazas-Mayorca MD, Zee BM, Young NL, Fingerman IM, LeRoy G, Briggs SD, Garcia BA. One-pot shotgun quantitative mass spectrometry characterization of histones. Journal of Proteome Research. 8: 5367-74. PMID 19764812 DOI: 10.1021/pr900777e  0.92
2009 Khan Z, Bloom JS, Garcia BA, Singh M, Kruglyak L. Protein quantification across hundreds of experimental conditions. Proceedings of the National Academy of Sciences of the United States of America. 106: 15544-8. PMID 19717460 DOI: 10.1073/pnas.0904100106  0.44
2009 DiMaggio PA, Young NL, Baliban RC, Garcia BA, Floudas CA. A mixed integer linear optimization framework for the identification and quantification of targeted post-translational modifications of highly modified proteins using multiplexed electron transfer dissociation tandem mass spectrometry. Molecular & Cellular Proteomics : McP. 8: 2527-43. PMID 19666874 DOI: 10.1074/mcp.M900144-MCP200  0.56
2009 Basu A, Rose KL, Zhang J, Beavis RC, Ueberheide B, Garcia BA, Chait B, Zhao Y, Hunt DF, Segal E, Allis CD, Hake SB. Proteome-wide prediction of acetylation substrates. Proceedings of the National Academy of Sciences of the United States of America. 106: 13785-90. PMID 19666589 DOI: 10.1073/pnas.0906801106  0.92
2009 Young NL, DiMaggio PA, Plazas-Mayorca MD, Baliban RC, Floudas CA, Garcia BA. High throughput characterization of combinatorial histone codes. Molecular & Cellular Proteomics : McP. 8: 2266-84. PMID 19654425 DOI: 10.1074/mcp.M900238-MCP200  0.92
2009 LeRoy G, Weston JT, Zee BM, Young NL, Plazas-Mayorca MD, Garcia BA. Heterochromatin protein 1 is extensively decorated with histone code-like post-translational modifications. Molecular & Cellular Proteomics : McP. 8: 2432-42. PMID 19567367 DOI: 10.1074/mcp.M900160-MCP200  0.92
2009 Xie W, Song C, Young NL, Sperling AS, Xu F, Sridharan R, Conway AE, Garcia BA, Plath K, Clark AT, Grunstein M. Histone h3 lysine 56 acetylation is linked to the core transcriptional network in human embryonic stem cells. Molecular Cell. 33: 417-27. PMID 19250903 DOI: 10.1016/j.molcel.2009.02.004  0.92
2009 El Gazzar M, Yoza BK, Chen X, Garcia BA, Young NL, McCall CE. Chromatin-specific remodeling by HMGB1 and linker histone H1 silences proinflammatory genes during endotoxin tolerance. Molecular and Cellular Biology. 29: 1959-71. PMID 19158276 DOI: 10.1128/MCB.01862-08  0.92
2009 Boyne MT, Garcia BA, Li M, Zamdborg L, Wenger CD, Babai S, Kelleher NL. Tandem mass spectrometry with ultrahigh mass accuracy clarifies peptide identification by database retrieval. Journal of Proteome Research. 8: 374-9. PMID 19053528 DOI: 10.1021/pr800635m  0.92
2009 Nicklay JJ, Shechter D, Chitta RK, Garcia BA, Shabanowitz J, Allis CD, Hunt DF. Analysis of histones in Xenopus laevis. II. mass spectrometry reveals an index of cell type-specific modifications on H3 and H4. The Journal of Biological Chemistry. 284: 1075-85. PMID 18957437 DOI: 10.1074/jbc.M807274200  0.92
2008 Duncan EM, Muratore-Schroeder TL, Cook RG, Garcia BA, Shabanowitz J, Hunt DF, Allis CD. Cathepsin L proteolytically processes histone H3 during mouse embryonic stem cell differentiation. Cell. 135: 284-94. PMID 18957203 DOI: 10.1016/j.cell.2008.09.055  0.92
2008 Garcia BA, Thomas CE, Kelleher NL, Mizzen CA. Tissue-specific expression and post-translational modification of histone H3 variants. Journal of Proteome Research. 7: 4225-36. PMID 18700791 DOI: 10.1021/pr800044q  0.92
2007 Pesavento JJ, Garcia BA, Streeky JA, Kelleher NL, Mizzen CA. Mild performic acid oxidation enhances chromatographic and top down mass spectrometric analyses of histones. Molecular & Cellular Proteomics : McP. 6: 1510-26. PMID 17569892 DOI: 10.1074/mcp.M600404-MCP200  0.92
2007 Garcia BA, Pesavento JJ, Mizzen CA, Kelleher NL. Pervasive combinatorial modification of histone H3 in human cells. Nature Methods. 4: 487-9. PMID 17529979 DOI: 10.1038/nmeth1052  0.92
2007 Garcia BA, Mollah S, Ueberheide BM, Busby SA, Muratore TL, Shabanowitz J, Hunt DF. Chemical derivatization of histones for facilitated analysis by mass spectrometry. Nature Protocols. 2: 933-8. PMID 17446892 DOI: 10.1038/nprot.2007.106  0.92
2007 Luo W, Peterson A, Garcia BA, Coombs G, Kofahl B, Heinrich R, Shabanowitz J, Hunt DF, Yost HJ, Virshup DM. Protein phosphatase 1 regulates assembly and function of the beta-catenin degradation complex. The Embo Journal. 26: 1511-21. PMID 17318175 DOI: 10.1038/sj.emboj.7601607  0.92
2007 Garcia BA, Hake SB, Diaz RL, Kauer M, Morris SA, Recht J, Shabanowitz J, Mishra N, Strahl BD, Allis CD, Hunt DF. Organismal differences in post-translational modifications in histones H3 and H4. The Journal of Biological Chemistry. 282: 7641-55. PMID 17194708 DOI: 10.1074/jbc.M607900200  0.92
2006 Garcia BA, Joshi S, Thomas CE, Chitta RK, Diaz RL, Busby SA, Andrews PC, Ogorzalek Loo RR, Shabanowitz J, Kelleher NL, Mizzen CA, Allis CD, Hunt DF. Comprehensive phosphoprotein analysis of linker histone H1 from Tetrahymena thermophila. Molecular & Cellular Proteomics : McP. 5: 1593-609. PMID 16835217 DOI: 10.1074/mcp.M600086-MCP200  0.92
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