Benjamin A Garcia

Benjamin A Garcia

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Benjamin A Garcia

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Epigenomic Reordering Induced by Polycomb Loss Drives Oncogenesis but Leads to Therapeutic Vulnerabilities in Malignant Peripheral Nerve Sheath Tumors.

Cancer Res 2019 Jul 21;79(13):3205-3219. Epub 2019 Mar 21.

Department of Biochemistry and Biophysics, and Penn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania.

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http://dx.doi.org/10.1158/0008-5472.CAN-18-3704DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6637743PMC
July 2019

Single Cell Proteomics by Data-Independent Acquisition To Study Embryonic Asymmetry in .

Anal Chem 2019 Jul 27;91(14):8891-8899. Epub 2019 Jun 27.

Epigenetics Institute, Department of Biochemistry and Biophysics, Perelman School of Medicine , University of Pennsylvania , Philadelphia , Pennsylvania 19104 , United States.

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http://dx.doi.org/10.1021/acs.analchem.9b00327DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6688503PMC
July 2019

Integrated Analysis of Acetyl-CoA and Histone Modification via Mass Spectrometry to Investigate Metabolically Driven Acetylation.

Methods Mol Biol 2019 ;1928:125-147

Department of Cancer Biology, Abramson Family Cancer Research Institute, University of Pennsylvania, Philadelphia, PA, USA.

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http://dx.doi.org/10.1007/978-1-4939-9027-6_9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6462437PMC
June 2019

One minute analysis of 200 histone posttranslational modifications by direct injection mass spectrometry.

Genome Res 2019 06 23;29(6):978-987. Epub 2019 May 23.

Epigenetics Institute, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA.

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http://dx.doi.org/10.1101/gr.247353.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6581051PMC
June 2019

Histone H3K27 dimethyl loss is highly specific for malignant peripheral nerve sheath tumor and distinguishes true PRC2 loss from isolated H3K27 trimethyl loss.

Mod Pathol 2019 Jun 7. Epub 2019 Jun 7.

Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.

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http://dx.doi.org/10.1038/s41379-019-0287-8DOI Listing
June 2019

Glucose Metabolism Drives Histone Acetylation Landscape Transitions that Dictate Muscle Stem Cell Function.

Cell Rep 2019 Jun;27(13):3939-3955.e6

Baxter Laboratory for Stem Cell Biology, Department of Microbiology and Immunology, Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2019.05.092DOI Listing
June 2019

Impaired cocaine-induced behavioral plasticity in the male offspring of cocaine-experienced sires.

Eur J Neurosci 2019 May 6;49(9):1115-1126. Epub 2019 Jan 6.

Department of Psychiatry, Center for Neurobiology and Behavior, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania.

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http://doi.wiley.com/10.1111/ejn.14310
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http://dx.doi.org/10.1111/ejn.14310DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6559866PMC
May 2019

Regulation of proline-directed kinases and the trans-histone code H3K9me3/H4K20me3 during human myogenesis.

J Biol Chem 2019 May 14;294(20):8296-8308. Epub 2019 Mar 14.

From the Epigenetics Institute, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania 19104.

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http://dx.doi.org/10.1074/jbc.RA118.004977DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6527175PMC
May 2019

PFA ependymoma-associated protein EZHIP inhibits PRC2 activity through a H3 K27M-like mechanism.

Nat Commun 2019 05 13;10(1):2146. Epub 2019 May 13.

Department of Biomolecular Chemistry, School of Medicine and Public Health and Wisconsin Institute for Discovery, University of Wisconsin, Madison, WI, 53715, USA.

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http://dx.doi.org/10.1038/s41467-019-09981-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6513997PMC
May 2019

Interrogating Histone Acetylation and BRD4 as Mitotic Bookmarks of Transcription.

Cell Rep 2019 Apr;27(2):400-415.e5

Division of Hematology, Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA; Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2019.03.057DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6664437PMC
April 2019

RNA exploits an exposed regulatory site to inhibit the enzymatic activity of PRC2.

Nat Struct Mol Biol 2019 Mar 4;26(3):237-247. Epub 2019 Mar 4.

Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute, Faculty of Medicine, Nursing and Health Sciences, Monash University, Clayton, Victoria, Australia.

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http://www.nature.com/articles/s41594-019-0197-y
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http://dx.doi.org/10.1038/s41594-019-0197-yDOI Listing
March 2019

Histone modification signatures in human sperm distinguish clinical abnormalities.

J Assist Reprod Genet 2019 Feb 5;36(2):267-275. Epub 2018 Nov 5.

Department of Cell and Developmental Biology, Perelman School of Medicine, 9-125 Smilow Center for Translational Research, University of Pennsylvania, 3400 Civic Center Blvd, Bldg 421, Philadelphia, PA, 19104-6058, USA.

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http://link.springer.com/10.1007/s10815-018-1354-7
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http://dx.doi.org/10.1007/s10815-018-1354-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6420512PMC
February 2019

Coordination between TGF-β cellular signaling and epigenetic regulation during epithelial to mesenchymal transition.

Epigenetics Chromatin 2019 02 8;12(1):11. Epub 2019 Feb 8.

Epigenetics Institute, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.

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https://epigeneticsandchromatin.biomedcentral.com/articles/1
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http://dx.doi.org/10.1186/s13072-019-0256-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6368739PMC
February 2019

Histone Acetyltransferase p300 Induces De Novo Super-Enhancers to Drive Cellular Senescence.

Mol Cell 2019 02 14;73(4):684-698.e8. Epub 2019 Feb 14.

Epigenetics Institute, Department of Cell and Developmental Biology, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Genetics, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Biology, School of Arts and Sciences, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.01.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6688479PMC
February 2019

Phosphorylation of TIP60 Suppresses 53BP1 Localization at DNA Damage Sites.

Mol Cell Biol 2019 Jan 11;39(1). Epub 2018 Dec 11.

Department of Cancer Biology, Basser Center for BRCA, Abramson Family Cancer Research Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA

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http://mcb.asm.org/lookup/doi/10.1128/MCB.00209-18
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http://dx.doi.org/10.1128/MCB.00209-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6290371PMC
January 2019

Proteomic approaches for cancer epigenetics research.

Expert Rev Proteomics 2019 Jan 27;16(1):33-47. Epub 2018 Nov 27.

b Department of Pathology and Laboratory Medicine, Perelman School of Medicine , University of Pennsylvania , Philadelphia , PA , USA.

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http://dx.doi.org/10.1080/14789450.2019.1550363DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6536358PMC
January 2019

Isotopic Labeling and Quantitative Proteomics of Acetylation on Histones and Beyond.

Methods Mol Biol 2019 ;1977:43-70

Department of Biochemistry and Biophysics, Perelman School of Medicine, Epigenetics Institute, University of Pennsylvania, Philadelphia, PA, USA.

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http://link.springer.com/10.1007/978-1-4939-9232-4_5
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http://dx.doi.org/10.1007/978-1-4939-9232-4_5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6543536PMC
January 2019

Hydrogen-Deuterium Exchange Coupled to Top- and Middle-Down Mass Spectrometry Reveals Histone Tail Dynamics before and after Nucleosome Assembly.

Structure 2018 12 4;26(12):1651-1663.e3. Epub 2018 Oct 4.

Department of Biochemistry and Molecular Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia 19104, USA; Epigenetics Institute, University of Pennsylvania, Philadelphia 19104, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S09692126183029
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http://dx.doi.org/10.1016/j.str.2018.08.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6281757PMC
December 2018

Distinct Roles of Two Histone Methyltransferases in Transmitting H3K36me3-Based Epigenetic Memory Across Generations in .

Genetics 2018 11 14;210(3):969-982. Epub 2018 Sep 14.

Department of Molecular, Cell and Developmental Biology, University of California Santa Cruz, Santa Cruz, California 95064

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http://dx.doi.org/10.1534/genetics.118.301353DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6218224PMC
November 2018

Target site specificity and in vivo complexity of the mammalian arginylome.

Sci Rep 2018 Nov 1;8(1):16177. Epub 2018 Nov 1.

Department of Biomedical Sciences, School of Veterinary Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.

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http://dx.doi.org/10.1038/s41598-018-34639-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6212499PMC
November 2018

Acetate Production from Glucose and Coupling to Mitochondrial Metabolism in Mammals.

Cell 2018 10 20;175(2):502-513.e13. Epub 2018 Sep 20.

Department of Pharmacology and Cancer Biology, Duke University School of Medicine, Duke University, Durham, NC 27710, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2018.08.040DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6173642PMC
October 2018

Integrating Proteomics and Targeted Metabolomics to Understand Global Changes in Histone Modifications.

Proteomics 2018 09 20;18(18):e1700309. Epub 2018 Apr 20.

Epigenetics Institute, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.

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http://dx.doi.org/10.1002/pmic.201700309DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6261489PMC
September 2018

Identification of binding sites contributing to volatile anesthetic effects on GABA type A receptors.

FASEB J 2018 08 5;32(8):4172-4189. Epub 2018 Mar 5.

Department of Anesthesiology and Critical Care, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA.

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http://dx.doi.org/10.1096/fj.201701347RDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6044061PMC
August 2018

Rpp29 regulates histone H3.3 chromatin assembly through transcriptional mechanisms.

J Biol Chem 2018 08 19;293(32):12360-12377. Epub 2018 Jun 19.

From the Wistar Institute, Philadelphia, Pennsylvania 19104,

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http://dx.doi.org/10.1074/jbc.RA118.001845DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6093239PMC
August 2018

Graphical Interpretation and Analysis of Proteins and their Ontologies (GiaPronto): A One-Click Graph Visualization Software for Proteomics Data Sets.

Mol Cell Proteomics 2018 07 8;17(7):1426-1431. Epub 2017 Nov 8.

From the ‡Genomics and Computational Biology, Biomedical Graduate Studies, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania;

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http://dx.doi.org/10.1074/mcp.TIR117.000438DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030729PMC
July 2018

EpiProfile 2.0: A Computational Platform for Processing Epi-Proteomics Mass Spectrometry Data.

J Proteome Res 2018 07 30;17(7):2533-2541. Epub 2018 May 30.

Epigenetics Institute, Department of Biochemistry and Biophysics , Perelman School of Medicine University of Pennsylvania , Philadelphia , Pennsylvania 19104 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.8b00133DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6387837PMC
July 2018

High-Quality Genome Assemblies Reveal Long Non-coding RNAs Expressed in Ant Brains.

Cell Rep 2018 Jun;23(10):3078-3090

Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2018.05.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6023404PMC
June 2018

Capturing the Onset of PRC2-Mediated Repressive Domain Formation.

Mol Cell 2018 06;70(6):1149-1162.e5

Howard Hughes Medical Institute, New York University School of Medicine, New York, NY 10016, USA; Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, New York, NY 10016, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2018.05.023DOI Listing
June 2018

Allosteric Activation Dictates PRC2 Activity Independent of Its Recruitment to Chromatin.

Mol Cell 2018 05 19;70(3):422-434.e6. Epub 2018 Apr 19.

Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, New York, NY 10016, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2018.03.020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5935545PMC
May 2018

Microbes vs. chemistry in the origin of the anaerobic gut lumen.

Proc Natl Acad Sci U S A 2018 04 2;115(16):4170-4175. Epub 2018 Apr 2.

Division of Gastroenterology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104;

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http://dx.doi.org/10.1073/pnas.1718635115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5910840PMC
April 2018

Characterization of Individual Histone Posttranslational Modifications and Their Combinatorial Patterns by Mass Spectrometry-Based Proteomics Strategies.

Methods Mol Biol 2017 ;1528:121-148

Epigenetics Program, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.

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http://dx.doi.org/10.1007/978-1-4939-6630-1_8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5240223PMC
January 2018

Assessment of Quantification Precision of Histone Post-Translational Modifications by Using an Ion Trap and down To 50 000 Cells as Starting Material.

J Proteome Res 2018 01 21;17(1):234-242. Epub 2017 Nov 21.

Hubei Key Laboratory of Cell Homeostasis, College of Life Sciences, Wuhan University , Wuhan 430072, P. R. China.

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http://dx.doi.org/10.1021/acs.jproteome.7b00544DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5756110PMC
January 2018

KMT2D regulates p63 target enhancers to coordinate epithelial homeostasis.

Genes Dev 2018 01 12;32(2):181-193. Epub 2018 Feb 12.

Penn Epigenetics Institute, Department of Cell and Developmental Biology, University of Pennsylvania Perelman School of Medicine, Philadelphia, Pennsylvania 19104, USA.

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http://genesdev.cshlp.org/lookup/doi/10.1101/gad.306241.117
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http://dx.doi.org/10.1101/gad.306241.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5830930PMC
January 2018

Identifying Host Factors Associated with DNA Replicated During Virus Infection.

Mol Cell Proteomics 2017 Dec 2;16(12):2079-2097. Epub 2017 Oct 2.

From the ‡Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, Pennsylvania;

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http://www.mcponline.org/lookup/doi/10.1074/mcp.M117.067116
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http://dx.doi.org/10.1074/mcp.M117.067116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5724173PMC
December 2017

Genomic and Proteomic Resolution of Heterochromatin and Its Restriction of Alternate Fate Genes.

Mol Cell 2017 12;68(6):1023-1037.e15

Institute for Regenerative Medicine , Perelman School of Medicine, University of Pennsylvania, Smilow Center for Translational Research, 3400 Civic Center Boulevard, Philadelphia, PA 19104, USA; Epigenetics Program , Perelman School of Medicine, University of Pennsylvania, Smilow Center for Translational Research, 3400 Civic Center Boulevard, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology , Perelman School of Medicine, University of Pennsylvania, Smilow Center for Translational Research, 3400 Civic Center Boulevard, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2017.11.030DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5858919PMC
December 2017

The nucleosomal surface is the main target of histone ADP-ribosylation in response to DNA damage.

Mol Biosyst 2017 Nov;13(12):2660-2671

Department of Biochemistry and Molecular Biophysics, Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.

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http://dx.doi.org/10.1039/c7mb00498bDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5702540PMC
November 2017

Vitamin C induces specific demethylation of H3K9me2 in mouse embryonic stem cells via Kdm3a/b.

Epigenetics Chromatin 2017 12;10:36. Epub 2017 Jul 12.

Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, University of California, San Francisco, San Francisco, CA USA.

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http://dx.doi.org/10.1186/s13072-017-0143-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5506665PMC
October 2017

An HDAC3-PROX1 corepressor module acts on HNF4α to control hepatic triglycerides.

Nat Commun 2017 09 15;8(1):549. Epub 2017 Sep 15.

Institute for Diabetes, Obesity, and Metabolism, Perelman School of Medicine at the University of Pennsylvania, 3400 Civic Center Boulevard, SCTR 12-102, Philadelphia, PA, 19104, USA.

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http://dx.doi.org/10.1038/s41467-017-00772-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5601916PMC
September 2017

Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions.

J Vis Exp 2017 09 28(127). Epub 2017 Sep 28.

Epigenetics Institute, University of Pennsylvania Perelman School of Medicine; Department of Cell and Developmental Biology, University of Pennsylvania Perelman School of Medicine;

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http://dx.doi.org/10.3791/56004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5752346PMC
September 2017

The Neuropeptide Corazonin Controls Social Behavior and Caste Identity in Ants.

Cell 2017 Aug;170(4):748-759.e12

Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2017.07.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5564227PMC
August 2017

Proteome-wide acetylation dynamics in human cells.

Sci Rep 2017 08 31;7(1):10296. Epub 2017 Aug 31.

Epigenetics Institute, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.

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http://dx.doi.org/10.1038/s41598-017-09918-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5579049PMC
August 2017

Uncovering BRD4 hyperphosphorylation associated with cellular transformation in NUT midline carcinoma.

Proc Natl Acad Sci U S A 2017 07 19;114(27):E5352-E5361. Epub 2017 Jun 19.

Department of Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104;

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http://dx.doi.org/10.1073/pnas.1703071114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5502625PMC
July 2017

Middle-down proteomics: a still unexploited resource for chromatin biology.

Expert Rev Proteomics 2017 07 28;14(7):617-626. Epub 2017 Jun 28.

a Epigenetics Institute, Department of Biochemistry and Biophysics, Perelman School of Medicine , University of Pennsylvania , Philadelphia , PA , USA.

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http://dx.doi.org/10.1080/14789450.2017.1345632DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5699467PMC
July 2017

Unique roles for histone H3K9me states in RNAi and heritable silencing of transcription.

Nature 2017 07 22;547(7664):463-467. Epub 2017 Jun 22.

Department of Cell Biology, Harvard Medical School, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nature23267DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5576860PMC
July 2017

Metabolic labeling in middle-down proteomics allows for investigation of the dynamics of the histone code.

Epigenetics Chromatin 2017 07 6;10(1):34. Epub 2017 Jul 6.

Department of Biochemistry and Biophysics, Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Room 9-124, 3400 Civic Center Blvd, Bldg 421, Philadelphia, PA, 19104, USA.

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http://dx.doi.org/10.1186/s13072-017-0139-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5501349PMC
July 2017

Detection of early pancreatic ductal adenocarcinoma with thrombospondin-2 and CA19-9 blood markers.

Sci Transl Med 2017 07;9(398)

Institute for Regenerative Medicine, Department of Cell and Developmental Biology, Abramson Cancer Center (Tumor Biology Program), Perelman School of Medicine, University of Pennsylvania, 9-131 Smilow Center for Translational Research, 3400 Civic Center Boulevard, Philadelphia, PA 19104-5157, USA.

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http://stm.sciencemag.org/lookup/doi/10.1126/scitranslmed.aa
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http://dx.doi.org/10.1126/scitranslmed.aah5583DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5727893PMC
July 2017

Identification of Nidogen 1 as a lung metastasis protein through secretome analysis.

Genes Dev 2017 07 21;31(14):1439-1455. Epub 2017 Aug 21.

Department of Molecular Biology, Princeton University, Princeton, New Jersey 08544, USA.

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http://dx.doi.org/10.1101/gad.301937.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5588926PMC
July 2017

Photoaffinity Ligand for the Inhalational Anesthetic Sevoflurane Allows Mechanistic Insight into Potassium Channel Modulation.

ACS Chem Biol 2017 05 3;12(5):1353-1362. Epub 2017 Apr 3.

Department of Anesthesiology & Critical Care, University of Pennsylvania Perelman School of Medicine , 3620 Hamilton Walk, Philadelphia, Pennsylvania 19104, United States.

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http://dx.doi.org/10.1021/acschembio.7b00222DOI Listing
May 2017

Monitoring proteolytic processing events by quantitative mass spectrometry.

Expert Rev Proteomics 2017 05 17;14(5):409-418. Epub 2017 Apr 17.

a Epigenetics Program, Department of Biochemistry and Biophysics, Perelman School of Medicine , University of Pennsylvania , Philadelphia , PA , USA.

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http://dx.doi.org/10.1080/14789450.2017.1316977DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5515469PMC
May 2017

Mll3 and Mll4 Facilitate Enhancer RNA Synthesis and Transcription from Promoters Independently of H3K4 Monomethylation.

Mol Cell 2017 May 5;66(4):568-576.e4. Epub 2017 May 5.

Department of Chemical and Systems Biology, Stanford University School of Medicine, Stanford, CA 94305, USA; Department of Developmental Biology, Stanford University School of Medicine, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2017.04.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5662137PMC
May 2017

Taxane-Platin-Resistant Lung Cancers Co-develop Hypersensitivity to JumonjiC Demethylase Inhibitors.

Cell Rep 2017 05;19(8):1669-1684

Hamon Center for Therapeutic Oncology Research, The University of Texas Southwestern Medical Center, Dallas, TX 75390, USA; Simmons Comprehensive Cancer Center, The University of Texas Southwestern Medical Center, Dallas, TX 75390, USA; Department of Pharmacology, The University of Texas Southwestern Medical Center, Dallas, TX 75390, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2017.04.077DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5531293PMC
May 2017

Time-resolved Global and Chromatin Proteomics during Herpes Simplex Virus Type 1 (HSV-1) Infection.

Mol Cell Proteomics 2017 04 8;16(4 suppl 1):S92-S107. Epub 2017 Feb 8.

From the ‡Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, Pennsylvania;

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http://dx.doi.org/10.1074/mcp.M116.065987DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5393384PMC
April 2017

Recognition of Histone H3K14 Acylation by MORF.

Structure 2017 04 9;25(4):650-654.e2. Epub 2017 Mar 9.

Department of Pharmacology, University of Colorado School of Medicine, Aurora, CO 80045, USA. Electronic address:

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http://dx.doi.org/10.1016/j.str.2017.02.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5415407PMC
April 2017

Quantitative chromatin proteomics reveals a dynamic histone post-translational modification landscape that defines asexual and sexual Plasmodium falciparum parasites.

Sci Rep 2017 04 4;7(1):607. Epub 2017 Apr 4.

Department of Biochemistry, Institute for Sustainable Malaria Control, University of Pretoria, Private bag x20, Hatfield, Pretoria, South Africa.

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http://dx.doi.org/10.1038/s41598-017-00687-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5428830PMC
April 2017

A Global View of RNA-Protein Interactions Identifies Post-transcriptional Regulators of Root Hair Cell Fate.

Dev Cell 2017 04;41(2):204-220.e5

Department of Biology, University of Pennsylvania, 433 South University Avenue, Philadelphia, PA 19104, USA; Cell and Molecular Biology Graduate Group, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.devcel.2017.03.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5605909PMC
April 2017

Multicellular Tumor Spheroids Combined with Mass Spectrometric Histone Analysis To Evaluate Epigenetic Drugs.

Anal Chem 2017 03 21;89(5):2773-2781. Epub 2017 Feb 21.

Department of Chemistry and Biochemistry and the Harper Cancer Research Institute, University of Notre Dame , Notre Dame, Indiana 46656, United States.

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http://dx.doi.org/10.1021/acs.analchem.6b03602DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5371507PMC
March 2017

Mutations along a TET2 active site scaffold stall oxidation at 5-hydroxymethylcytosine.

Nat Chem Biol 2017 02 5;13(2):181-187. Epub 2016 Dec 5.

Department of Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA.

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http://www.nature.com/articles/nchembio.2250
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http://dx.doi.org/10.1038/nchembio.2250DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5370579PMC
February 2017

Why proteomics is not the new genomics and the future of mass spectrometry in cell biology.

J Cell Biol 2017 Jan 12;216(1):21-24. Epub 2016 Dec 12.

Epigenetics Program, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104

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http://dx.doi.org/10.1083/jcb.201612010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5223617PMC
January 2017

Global Proteomics Analysis of Protein Lysine Methylation.

Curr Protoc Protein Sci 2016 Nov 1;86:24.8.1-24.8.19. Epub 2016 Nov 1.

Epigenetics Program, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania.

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http://dx.doi.org/10.1002/cpps.16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5222891PMC
November 2016

High-Resolution Mapping of RNA-Binding Regions in the Nuclear Proteome of Embryonic Stem Cells.

Mol Cell 2016 10;64(2):416-430

Epigenetics Program, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.09.034DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5222606PMC
October 2016

Roles of H3K27me2 and H3K27me3 Examined during Fate Specification of Embryonic Stem Cells.

Cell Rep 2016 10;17(5):1369-1382

Laboratory of Muscle Stem Cells and Gene Regulation, National Institute of Arthritis, Musculoskeletal and Skin Diseases (NIAMS), National Institutes of Health, Bethesda, MD 20892, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.09.087DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5123747PMC
October 2016

Differential quantification of isobaric phosphopeptides using data-independent acquisition mass spectrometry.

Mol Biosyst 2016 07;12(8):2385-8

Epigenetics Program, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Room 9-124, 3400 Civic Center Blvd, Bldg 421, Philadelphia, PA 19104, USA.

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http://dx.doi.org/10.1039/c6mb00385kDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5091076PMC
July 2016

Complete Workflow for Analysis of Histone Post-translational Modifications Using Bottom-up Mass Spectrometry: From Histone Extraction to Data Analysis.

J Vis Exp 2016 05 17(111). Epub 2016 May 17.

Epigenetics Program, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania;

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http://dx.doi.org/10.3791/54112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4927705PMC
May 2016