Publications by authors named "Benjamin A Garcia"

100Publications

Adenovirus-mediated ubiquitination alters protein-RNA binding and aids viral RNA processing.

Nat Microbiol 2020 Jul 13. Epub 2020 Jul 13.

Division of Protective Immunity and Division of Cancer Pathobiology, The Children's Hospital of Philadelphia, Philadelphia, PA, USA.

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http://dx.doi.org/10.1038/s41564-020-0750-9DOI Listing
July 2020

Improvements on the quantitative analysis of Trypanosoma cruzi histone post translational modifications: Study of changes in epigenetic marks through the parasite's metacyclogenesis and life cycle.

J Proteomics 2020 Aug 29;225:103847. Epub 2020 May 29.

Laboratório de Ciclo Celular, Instituto Butantan, São Paulo, SP, Brazil; Center of Toxins, Immune Response and Cell Signaling (CeTICS), Instituto Butantan, São Paulo, SP, Brazil. Electronic address:

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http://dx.doi.org/10.1016/j.jprot.2020.103847DOI Listing
August 2020

Metabolic Regulation of the Epigenome Drives Lethal Infantile Ependymoma.

Cell 2020 Jun 22;181(6):1329-1345.e24. Epub 2020 May 22.

The Arthur and Sonia Labatt Brain Tumor Research Center, The Hospital for Sick Children, Toronto, ON M5G 0A4, Canada; Developmental & Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON M5G 0A4, Canada; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON M5G 1L7, Canada; Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada; Division of Neurosurgery, The Hospital for Sick Children, Toronto, ON M5G 1L7, Canada. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2020.04.047DOI Listing
June 2020

Comprehensive Map of the Artemisia annua Proteome and Quantification of Differential Protein Expression in Chemotypes Producing High versus Low Content of Artemisinin.

Proteomics 2020 05 18;20(10):e1900310. Epub 2020 May 18.

Joint International Research Laboratory of Metabolic & Developmental Sciences, Key Laboratory of Urban Agriculture (South) Ministry of Agriculture, Plant Biotechnology Research Center, Fudan-SJTU-Nottingham Plant Biotechnology R&D Center, School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China.

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http://dx.doi.org/10.1002/pmic.201900310DOI Listing
May 2020

Unraveling the RNA modification code with mass spectrometry.

Mol Omics 2020 Aug 14;16(4):305-315. Epub 2020 Apr 14.

Biochemistry and Molecular Biophysics Graduate Group, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.

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http://dx.doi.org/10.1039/c8mo00247aDOI Listing
August 2020

Disruption of the Life Cycle through Transcriptional Reprogramming by Inhibitors of Jumonji Demethylases.

ACS Infect Dis 2020 05 24;6(5):1058-1075. Epub 2020 Apr 24.

Department of Pharmacology, The University of Texas Southwestern Medical Center, 6000 Harry Hines Blvd., Dallas, Texas 75390, United States.

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http://dx.doi.org/10.1021/acsinfecdis.9b00455DOI Listing
May 2020

Bullet points to evaluate the performance of the middle-down proteomics workflow for histone modification analysis.

Methods 2020 Feb 15. Epub 2020 Feb 15.

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

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http://dx.doi.org/10.1016/j.ymeth.2020.01.013DOI Listing
February 2020

HYPERsol: High-Quality Data from Archival FFPE Tissue for Clinical Proteomics.

J Proteome Res 2020 02 14;19(2):973-983. Epub 2020 Jan 14.

Department of Pathology and Laboratory Medicine , University of Pennsylvania , Philadelphia , Pennsylvania 19104 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.9b00686DOI Listing
February 2020

Quantitative live cell imaging reveals influenza virus manipulation of Rab11A transport through reduced dynein association.

Nat Commun 2020 01 7;11(1):23. Epub 2020 Jan 7.

Department of Microbiology and Molecular Genetics, University of Pittsburgh School of Medicine, 450 Technology Drive, Pittsburgh, PA, 15219, USA.

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http://dx.doi.org/10.1038/s41467-019-13838-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6946661PMC
January 2020

Native Chromatin Proteomics Reveals a Role for Specific Nucleoporins in Heterochromatin Organization and Maintenance.

Mol Cell 2020 01 26;77(1):51-66.e8. Epub 2019 Nov 26.

Howard Hughes Medical Institute, Department of Cell Biology, Harvard Medical School, Boston, MA, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.10.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7224636PMC
January 2020

Deep profiling and custom databases improve detection of proteoforms generated by alternative splicing.

Genome Res 2019 12 14;29(12):2046-2055. Epub 2019 Nov 14.

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.248435.119DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6886501PMC
December 2019

Azi-medetomidine: Synthesis and Characterization of a Novel α2 Adrenergic Photoaffinity Ligand.

ACS Chem Neurosci 2019 11 5;10(11):4716-4728. Epub 2019 Nov 5.

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/acschemneuro.9b00484DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6889220PMC
November 2019

Preface.

Methods Enzymol 2019 ;626:xix-xx

Department of Biochemistry and Biophysics, Penn Epigenetics Institute, Smilow Center for Translational Research, University of Pennsylvania School of Medicine, Philadelphia, PA, United States.

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https://linkinghub.elsevier.com/retrieve/pii/S00766879193038
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http://dx.doi.org/10.1016/S0076-6879(19)30389-1DOI Listing
January 2019

Quantitative analysis of global protein lysine methylation by mass spectrometry.

Methods Enzymol 2019 12;626:475-498. Epub 2019 Aug 12.

Department of Biochemistry and Biophysics, Penn Epigenetics Institute, Smilow Center for Translational Research, University of Pennsylvania School of Medicine, Philadelphia, PA, United States. Electronic address:

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http://dx.doi.org/10.1016/bs.mie.2019.07.036DOI Listing
June 2020

A mass spectrometry-based assay using metabolic labeling to rapidly monitor chromatin accessibility of modified histone proteins.

Sci Rep 2019 09 20;9(1):13613. Epub 2019 Sep 20.

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/s41598-019-49894-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6754405PMC
September 2019

Quantitation of Single and Combinatorial Histone Modifications by Integrated Chromatography of Bottom-up Peptides and Middle-down Polypeptide Tails.

J Am Soc Mass Spectrom 2019 Dec 11;30(12):2449-2459. Epub 2019 Sep 11.

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

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http://dx.doi.org/10.1007/s13361-019-02303-6DOI Listing
December 2019

Automethylation of PRC2 promotes H3K27 methylation and is impaired in H3K27M pediatric glioma.

Genes Dev 2019 10 5;33(19-20):1428-1440. Epub 2019 Sep 5.

Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, New York, New York 10016, USA.

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http://dx.doi.org/10.1101/gad.328773.119DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6771381PMC
October 2019

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

Cell Rep 2019 06;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
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6788807PMC
June 2019

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

Anal Chem 2019 07 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

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

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

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
August 2019

Interrogating Histone Acetylation and BRD4 as Mitotic Bookmarks of Transcription.

Cell Rep 2019 04;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

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

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

J Biol Chem 2019 05 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

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

Nat Struct Mol Biol 2019 03 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
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6736635PMC
March 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

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

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

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

Eur J Neurosci 2019 05 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

Proteomic approaches for cancer epigenetics research.

Expert Rev Proteomics 2019 01 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

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

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

Sci Rep 2018 11 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

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

Mol Cell Biol 2019 01 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

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

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

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

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

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

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

Cell Rep 2018 06;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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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
Publisher Site
http://dx.doi.org/10.1126/scitranslmed.aah5583DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5727893PMC
July 2017