People

Benjamin Garcia, Ph.D., FRSC

Benjamin Garcia, Ph.D., FRSC

John McCrea Dickson M.D. Presidential Professor;Professor of Biochemistry and Biophysics;Director of Quantitative Proteomics

215-573-9422 Website (opens in a new tab) Lab Website (opens in a new tab)

The Perelman School of Medicine at the University of Pennsylvania
Penn Epigenetics Institute
Department of Biochemistry and Biophysics
Smilow Center for Translational Research
Room 9-124 (office)
Room 9-175C (Lab)
3400 Civic Center Blvd, Bldg 421
Philadelphia, PA 19104-5157
Office: 215-573-9423

 

Research Interest

The Garcia lab is interested in the development and application of quantitative mass spectrometry based proteomics for understanding dynamic proteome and protein post-translational modifications. In particular, we are interested in understanding combinatorial histone PTMs and their role in regulating gene expression.

He C, Bozler J, Janssen KA, Wilusz JE, Garcia BA, Schorn AJ, Bonasio R. Nat Struct Mol Biol. 2020. doi: 10.1038/s41594-020-00526-w. PMID: 33230319
Xu C, Wang L, Fozouni P, Evjen G, Chandra V, Jiang J, Lu C, Nicastri M, Bretz C, Winkler JD, Amaravadi R, Garcia BA, Adams PD, Ott M, Tong W, Johansen T, Dou Z, Berger SL. Nat Cell Biol. 2020;22(10):1170-1179. doi: 10.1038/s41556-020-00579-5. PMID: 32989246
Nativio R, Lan Y, Donahue G, Sidoli S, Berson A, Srinivasan AR, Shcherbakova O, Amlie-Wolf A, Nie J, Cui X, He C, Wang LS, Garcia BA, Trojanowski JQ, Bonini NM, Berger SL. Nat Genet. 2020;52(10):1024-1035. doi: 10.1038/s41588-020-0696-0. PMID: 32989324
Ren W, Medeiros N, Warneford-Thomson R, Wulfridge P, Yan Q, Bian J, Sidoli S, Garcia BA, Skordalakes E, Joyce E, Bonasio R, Sarma K. Nat Commun. 2020;11(1):2219. doi: 10.1038/s41467-020-15902-9. PMID: 32376827
Sidoli S, Kori Y, Lopes M, Yuan ZF, Kim HJ, Kulej K, Janssen KA, Agosto LM, Cunha JPCD, Andrews AJ, Garcia BA. Genome Res. 2019 Jun;29(6):978-987. doi: 10.1101/gr.247353.118. Epub 2019 May 23. PMID:31123082
Wojcik JB, Marchione DM, Sidoli S, Djedid A, Lisby A, Majewski J, Garcia BA. Cancer Res. 2019 Mar 21. pii: canres.3704.2018. doi: 10.1158/0008-5472.CAN-18-3704. [Epub ahead of print] PMID:30898839
Lu C, Sidoli S, Kulej K, Ross K, Wu CH, Garcia BA. Epigenetics Chromatin. 2019 Feb 8;12(1):11. doi: 10.1186/s13072-019-0256-y. PMID:30736855
Karch KR, Coradin M, Zandarashvili L, Kan ZY, Gerace M, Englander SW, Black BE, Garcia BA. Structure. 2018 Aug 25. pii: S0969-2126(18)30294-6. doi: 10.1016/j.str.2018.08.006. [Epub ahead of print] PMID: 30293810

EpiProfile 2.0: A Computational Platform for Processing Epi-Proteomics Mass Spectrometry Data. Yuan ZF, Sidoli S, Marchione DM, Simithy J, Janssen KA, Szurgot MR, Garcia BA. J Proteome Res. 2018 Jul 6;17(7):2533-2541. doi: 10.1021/acs.jproteome.8b00133. Epub 2018 May 30.

The nucleosomal surface is the main target of histone ADP-ribosylation in response to DNA damage. Karch KR, Langelier MF, Pascal JM, Garcia BA.  Mol Biosyst. 2017 Nov 21;13(12):2660-2671.
Characterization of histone acylations links chromatin modifications with metabolism Simithy J, Sidoli S, Yuan ZF, Coradin M, Bhanu NV, Marchione DM, Klein BJ, Bazilevsky GA, McCullough CE, Magin RS, Kutateladze TG, Snyder NW, Marmorstein R, Garcia BA.  Nat Commun. 2017 Oct 26;8(1):1141.
Proteome-wide acetylation dynamics in human cells. Kori Y, Sidoli S, Yuan ZF, Lund PJ, Zhao X, Garcia BA. Sci Rep. 2017 Aug 31;7(1):10296.
The Neuropeptide Corazonin Controls Social Behavior and Caste Identity in Ants.  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.  Cell. 2017 Aug 10;170(4):748-759.e12. doi: 10.1016/j.cell.2017.07.014
Metabolic labeling in middle-down proteomics allows for investigation of the dynamics of the histone code. Sidoli S, Lu C, Coradin M, Wang X, Karch KR, Ruminowicz C, Garcia BA.  Epigenetics Chromatin. 2017 Jul 6;10(1):34. doi: 10.1186/s13072-017-0139-z.
Bioorthogonal Chemistry for the Isolation and Study of Newly Synthesized Histones and Their Modifications  Arnaudo AM, Link AJ, Garcia BA.  ACS Chem Biol. 2016 Mar 18;11(3):782-91. doi: 10.1021/acschembio.5b00816. Epub 2016 Feb 10.
Multiplexed data independent acquisition (MSX-DIA) applied by high resolution mass spectrometry improves quantification quality for the analysis of histone peptides  Sidoli S, Fujiwara R, Garcia BA.  Proteomics. 2016 Aug;16(15-16):2095-105. doi: 10.1002/pmic.201500527. Epub 2016 Jun 8.
Differential quantification of isobaric phosphopeptides using data-independent acquisition mass spectrometry.  Sidoli S, Fujiwara R, Kulej K, Garcia BA.  Mol Biosyst. 2016 Jul 19;12(8):2385-8. doi: 10.1039/c6mb00385k.
Preferential Phosphorylation on Old Histones during Early Mitosis in Human Cells Lin S, Yuan ZF, Han Y, Marchione DM, Garcia BA.  J Biol Chem. 2016 Jul 15;291(29):15342-57. doi: 10.1074/jbc.M116.726067. Epub 2016 May 19.
A Novel Quantitative Mass Spectrometry Platform for Determining Protein O-GlcNAcylation Dynamics.  Wang X, Yuan ZF, Fan J, Karch KR, Ball LE, Denu JM, Garcia BA.  Mol Cell Proteomics. 2016 Jul;15(7):2462-75. doi: 10.1074/mcp.O115.049627. Epub 2016 Apr 25.
Histone H4 acetylation and the epigenetic reader Brd4 are critical regulators of pluripotency in embryonic stem cells.  Gonzales-Cope M, Sidoli S, Bhanu NV, Won KJ, Garcia BA.  BMC Genomics. 2016 Feb 4;17:95. doi: 10.1186/s12864-016-2414-y.
Histone modification profiling reveals differential signatures associated with human embryonic stem cell self-renewal and differentiation.  Bhanu NV, Sidoli S, Garcia BA.  Proteomics. 2016 Feb;16(3):448-58. doi: 10.1002/pmic.201500231. Epub 2016 Jan 28.