Joao A Paulo

Joao A Paulo

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Joao A Paulo

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mTMT: An Alternative, Nonisobaric, Tandem Mass Tag Allowing for Precursor-Based Quantification.

Anal Chem 2019 Oct 20;91(19):12167-12172. Epub 2019 Sep 20.

Department of Cell Biology , Harvard Medical School , Boston , Massachusetts 02115 , United States.

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http://dx.doi.org/10.1021/acs.analchem.9b03162DOI Listing
October 2019

Evaluating False Transfer Rates from the Match-between-Runs Algorithm with a Two-Proteome Model.

J Proteome Res 2019 Oct 2. Epub 2019 Oct 2.

Department of Cell Biology , Harvard Medical School , Boston , Massachusetts 02115 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.9b00492DOI Listing
October 2019

Identification of Endogenous Adenomatous Polyposis Coli Interaction Partners and β-Catenin-Independent Targets by Proteomics.

Mol Cancer Res 2019 Sep 3;17(9):1828-1841. Epub 2019 Jun 3.

Cell and Developmental Biology, School of Life Sciences, University of Dundee, Dundee, Scotland, United Kingdom.

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http://dx.doi.org/10.1158/1541-7786.MCR-18-1154DOI Listing
September 2019

Epstein-Barr-Virus-Induced One-Carbon Metabolism Drives B Cell Transformation.

Cell Metab 2019 Sep 27;30(3):539-555.e11. Epub 2019 Jun 27.

Graduate Program in Virology, Division of Medical Sciences, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA; Division of Infectious Diseases, Department of Medicine, Brigham and Women's Hospital, 181 Longwood Avenue, Boston, MA 02115, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Microbiology, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cmet.2019.06.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6720460PMC
September 2019

Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation.

Cell Syst 2019 Sep 11;9(3):258-270.e6. Epub 2019 Sep 11.

Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA 02115, USA; Department of Medicine, Harvard Medical School, Boston, MA 02115, USA; Harvard Digestive Disease Center, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2019.07.006DOI Listing
September 2019

Protein aggregation mediates stoichiometry of protein complexes in aneuploid cells.

Genes Dev 2019 08 13;33(15-16):1031-1047. Epub 2019 Jun 13.

David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://dx.doi.org/10.1101/gad.327494.119DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6672052PMC
August 2019

TEX264 Is an Endoplasmic Reticulum-Resident ATG8-Interacting Protein Critical for ER Remodeling during Nutrient Stress.

Mol Cell 2019 06 18;74(5):891-908.e10. Epub 2019 Apr 18.

Department of Cell Biology, Blavatnik Institute of Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.03.034DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6747008PMC
June 2019

Therapy-Induced MHC I Ligands Shape Neo-Antitumor CD8 T Cell Responses during Oncolytic Virus-Based Cancer Immunotherapy.

J Proteome Res 2019 Jun 29;18(6):2666-2675. Epub 2019 May 29.

Department of Cell Biology , Harvard Medical School , Boston , Massachusetts 02115 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.9b00173DOI Listing
June 2019

The Effect of Wnt Pathway Modulators on Human iPSC-Derived Pancreatic Beta Cell Maturation.

Front Endocrinol (Lausanne) 2019 8;10:293. Epub 2019 May 8.

Department of Clinical Science, KG Jebsen Center for Diabetes Research, University of Bergen, Bergen, Norway.

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http://dx.doi.org/10.3389/fendo.2019.00293DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6518024PMC
May 2019

Probing the Global Cellular Responses to Lipotoxicity Caused by Saturated Fatty Acids.

Mol Cell 2019 04 4;74(1):32-44.e8. Epub 2019 Mar 4.

Department of Genetics and Complex Diseases, Harvard T.H. Chan School of Public Health, Boston, MA 02115, USA; Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.01.036DOI Listing
April 2019

Lysine-specific demethylase 2A enhances binding of various nuclear factors to CpG-rich genomic DNAs by action of its CXXC-PHD domain.

Sci Rep 2019 Apr 2;9(1):5496. Epub 2019 Apr 2.

Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, MA, 20115, USA.

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http://www.nature.com/articles/s41598-019-41896-6
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http://dx.doi.org/10.1038/s41598-019-41896-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6445129PMC
April 2019

Active Instrument Engagement Combined with a Real-Time Database Search for Improved Performance of Sample Multiplexing Workflows.

J Proteome Res 2019 Mar 4;18(3):1299-1306. Epub 2019 Feb 4.

Department of Cell Biology , Harvard Medical School , Boston , Massachusetts 02115 , United States.

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http://pubs.acs.org/doi/10.1021/acs.jproteome.8b00899
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http://dx.doi.org/10.1021/acs.jproteome.8b00899DOI Listing
March 2019

Diabetes relief in mice by glucose-sensing insulin-secreting human α-cells.

Nature 2019 03 13;567(7746):43-48. Epub 2019 Feb 13.

Department of Genetic Medicine and Development, iGE3 and Centre Facultaire du Diabète, Faculty of Medicine, University of Geneva, Geneva, Switzerland.

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http://dx.doi.org/10.1038/s41586-019-0942-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6624841PMC
March 2019

Web-Based Search Tool for Visualizing Instrument Performance Using the Triple Knockout (TKO) Proteome Standard.

J Proteome Res 2019 Feb 27;18(2):687-693. Epub 2018 Nov 27.

Department of Cell Biology , Harvard Medical School , Boston , Massachusetts 02115 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.8b00737DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6358484PMC
February 2019

Excessive Cell Growth Causes Cytoplasm Dilution And Contributes to Senescence.

Cell 2019 Feb 7;176(5):1083-1097.e18. Epub 2019 Feb 7.

David H. Koch Institute for Integrative Cancer Research, Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2019.01.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6386581PMC
February 2019

TKO6: A Peptide Standard To Assess Interference for Unit-Resolved Isobaric Labeling Platforms.

J Proteome Res 2019 Jan 6;18(1):565-570. Epub 2018 Dec 6.

Department of Cell Biology , Harvard Medical School , Boston , Massachusetts 02115 , United States.

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http://pubs.acs.org/doi/10.1021/acs.jproteome.8b00902
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http://dx.doi.org/10.1021/acs.jproteome.8b00902DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6465125PMC
January 2019

The effects of nonignorable missing data on label-free mass spectrometry proteomics experiments.

Ann Appl Stat 2018 Dec 13;12(4):2075-2095. Epub 2018 Nov 13.

Department of Cell Biology, Harvard Medical School, 240 Longwood Ave, Boston, MA, 02115, USA; Department of Biostatistics, University of North Carolina at Chapel Hill, 135 Dauer Drive, 3101 McGavran-Greenberg Hall, CB 7420, Chapel Hill, NC 27599, USA; Department of Biochemistry and Biophysics University of North Carolina at Chapel Hill 120 Mason Farm Rd, Campus Box 7260 Chapel Hill, NC 27599 USA.

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https://projecteuclid.org/euclid.aoas/1542078037
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http://dx.doi.org/10.1214/18-AOAS1144DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6249692PMC
December 2018

Proteomic Investigation of Murine Neuronal α7-Nicotinic Acetylcholine Receptor Interacting Proteins.

J Proteome Res 2018 11 4;17(11):3959-3975. Epub 2018 Oct 4.

Department of Molecular Pharmacology, Physiology and Biotechnology , Brown University , Providence , Rhode Island 02912 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.8b00618DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6301012PMC
November 2018

The NAD Salvage Pathway Supports PHGDH-Driven Serine Biosynthesis.

Cell Rep 2018 08;24(9):2381-2391.e5

Department of Pathology, Dalhousie University, Halifax, NS, Canada; Department of Microbiology and Immunology, Dalhousie University, Halifax, NS, Canada; Centre for Innovative and Collaborative Health Services Research, IWK Health Centre, Halifax, NS, Canada; Department of Biology, Dalhousie University, Halifax, NS, Canada. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S22111247183121
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http://dx.doi.org/10.1016/j.celrep.2018.07.086DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6402325PMC
August 2018

An Internal Standard for Assessing Phosphopeptide Recovery from Metal Ion/Oxide Enrichment Strategies.

J Am Soc Mass Spectrom 2018 07 18;29(7):1505-1511. Epub 2018 Apr 18.

Department of Cell Biology, Harvard Medical School, 240 Longwood Ave., Boston, MA, 02115, USA.

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http://dx.doi.org/10.1007/s13361-018-1946-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6004253PMC
July 2018

Isobaric Tag-Based Protein Profiling of a Nicotine-Treated Alpha7 Nicotinic Receptor-Null Human Haploid Cell Line.

Proteomics 2018 06 15;18(11):e1700475. Epub 2018 May 15.

Department of Cell Biology, Harvard Medical School, Boston, MA, 02115, USA.

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http://dx.doi.org/10.1002/pmic.201700475DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5990481PMC
June 2018

Proteome-Wide Evaluation of Two Common Protein Quantification Methods.

J Proteome Res 2018 05 19;17(5):1934-1942. Epub 2018 Apr 19.

Department of Cell Biology , Harvard Medical School , Boston , Massachusetts 02115 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.8b00016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5984592PMC
May 2018

MS3-IDQ: Utilizing MS3 Spectra beyond Quantification Yields Increased Coverage of the Phosphoproteome in Isobaric Tag Experiments.

J Proteome Res 2018 04 26;17(4):1741-1747. Epub 2018 Feb 26.

Laboratory of Systems Pharmacology , Harvard Medical School , Boston , Massachusetts 02115 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.8b00006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5984591PMC
April 2018

Proteome-Wide Protein Expression Profiling Across Five Pancreatic Cell Lines.

Pancreas 2017 May/Jun;46(5):690-698

From the *Department of Cell Biology, Harvard Medical School; and †Division of Genomic Stability and DNA Repair, Department of Radiation Oncology, Dana-Farber Cancer Institute, Boston, MA.

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http://dx.doi.org/10.1097/MPA.0000000000000800DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5398936PMC
March 2018

Filter-Based Protein Digestion (FPD): A Detergent-Free and Scaffold-Based Strategy for TMT Workflows.

J Proteome Res 2018 03 13;17(3):1227-1234. Epub 2018 Feb 13.

Department of Cell Biology, Harvard Medical School , Boston, Massachusetts 02115, United States.

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http://dx.doi.org/10.1021/acs.jproteome.7b00840DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5984590PMC
March 2018

Loss of the deubiquitinase USP36 destabilizes the RNA helicase DHX33 and causes preimplantation lethality in mice.

J Biol Chem 2018 02 22;293(6):2183-2194. Epub 2017 Dec 22.

From the Departamento de Bioquímica y Biología Molecular, Facultad de Medicina, Instituto Universitario de Oncología (IUOPA), Universidad de Oviedo, 33006-Oviedo, Spain,

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http://www.jbc.org/lookup/doi/10.1074/jbc.M117.788430
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http://dx.doi.org/10.1074/jbc.M117.788430DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5808777PMC
February 2018

Compositional Proteomics: Effects of Spatial Constraints on Protein Quantification Utilizing Isobaric Tags.

J Proteome Res 2018 01 15;17(1):590-599. Epub 2017 Dec 15.

Department of Cell Biology, Harvard Medical School , Boston, Massachusetts 02115, United States.

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http://dx.doi.org/10.1021/acs.jproteome.7b00699DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5806995PMC
January 2018

Improved Method for Determining Absolute Phosphorylation Stoichiometry Using Bayesian Statistics and Isobaric Labeling.

J Proteome Res 2017 11;16(11):4217-4226

Department of Cell Biology, Harvard Medical School , Boston, Massachusetts 02115, United States.

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http://dx.doi.org/10.1021/acs.jproteome.7b00571DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6301010PMC
November 2017

Quantitative Phospho-proteomic Analysis of TNFα/NFκB Signaling Reveals a Role for RIPK1 Phosphorylation in Suppressing Necrotic Cell Death.

Mol Cell Proteomics 2017 07 24;16(7):1200-1216. Epub 2017 May 24.

From the ‡Department of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115

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http://dx.doi.org/10.1074/mcp.M117.068189DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5500755PMC
July 2017

Compensatory metabolic networks in pancreatic cancers upon perturbation of glutamine metabolism.

Nat Commun 2017 07 3;8:15965. Epub 2017 Jul 3.

Division of Genomic Stability and DNA Repair, Department of Radiation Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA.

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http://dx.doi.org/10.1038/ncomms15965DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5500878PMC
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

Probing the missing mature β-cell proteomic landscape in differentiating patient iPSC-derived cells.

Sci Rep 2017 07 6;7(1):4780. Epub 2017 Jul 6.

KG Jebsen Center for Diabetes Research, Department of Clinical Science, University of Bergen, Bergen, Norway.

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http://dx.doi.org/10.1038/s41598-017-04979-wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5500592PMC
July 2017

A Temporal Proteomic Map of Epstein-Barr Virus Lytic Replication in B Cells.

Cell Rep 2017 05;19(7):1479-1493

Division of Infectious Disease, Department of Medicine, Brigham & Women's Hospital, Harvard Medical School, 181 Longwood Avenue, Boston, MA 02115, USA; Harvard Virology Program, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2017.04.062DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5446956PMC
May 2017

Multidimensional Tracking of GPCR Signaling via Peroxidase-Catalyzed Proximity Labeling.

Cell 2017 04;169(2):338-349.e11

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00928674173034
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http://dx.doi.org/10.1016/j.cell.2017.03.028DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5514552PMC
April 2017

Plasmodium falciparum CRK4 directs continuous rounds of DNA replication during schizogony.

Nat Microbiol 2017 Feb 17;2:17017. Epub 2017 Feb 17.

Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, 651 Huntington Avenue, FXB, Room 202, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/nmicrobiol.2017.17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5328244PMC
February 2017

Nicotine-induced protein expression profiling reveals mutually altered proteins across four human cell lines.

Proteomics 2017 01 21;17(1-2). Epub 2016 Dec 21.

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

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http://dx.doi.org/10.1002/pmic.201600319DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5540149PMC
January 2017

An Ancient, Unified Mechanism for Metformin Growth Inhibition in C. elegans and Cancer.

Cell 2016 Dec;167(7):1705-1718.e13

Department of Medicine, Diabetes Unit, Massachusetts General Hospital, Boston, MA 02114, USA; Center for Human Genetic Research, Massachusetts General Hospital, Boston, MA 02114, USA; Department of Medicine, Harvard Medical School, Boston, MA 02115, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2016.11.055DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5390486PMC
December 2016

A Triple Knockout (TKO) Proteomics Standard for Diagnosing Ion Interference in Isobaric Labeling Experiments.

J Am Soc Mass Spectrom 2016 10 11;27(10):1620-5. Epub 2016 Jul 11.

Department of Cell Biology, Harvard Medical School, Boston, MA, 02115, USA.

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http://dx.doi.org/10.1007/s13361-016-1434-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5018445PMC
October 2016

Quantitative mass spectrometry-based multiplexing compares the abundance of 5000 S. cerevisiae proteins across 10 carbon sources.

J Proteomics 2016 10 16;148:85-93. Epub 2016 Jul 16.

Department of Cell Biology, Harvard Medical School, Boston, MA 02115, United States. Electronic address:

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http://dx.doi.org/10.1016/j.jprot.2016.07.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5035620PMC
October 2016

Bromodomain Inhibitors Correct Bioenergetic Deficiency Caused by Mitochondrial Disease Complex I Mutations.

Mol Cell 2016 10 22;64(1):163-175. Epub 2016 Sep 22.

Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA, USA 02215; Department of Cell Biology, Harvard Medical School, Boston, MA, USA 02215; Broad Institute of MIT and Harvard, Cambridge, MA, USA 02142. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S10972765163046
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5055448PMC
http://dx.doi.org/10.1016/j.molcel.2016.08.023DOI Listing
October 2016

Two Distinct Types of E3 Ligases Work in Unison to Regulate Substrate Ubiquitylation.

Cell 2016 Aug;166(5):1198-1214.e24

Department of Structural Biology, St. Jude Children's Research Hospital, Memphis, TN 38105, USA; Howard Hughes Medical Institute, St. Jude Children's Research Hospital, Memphis, TN 38105, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2016.07.027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5091668PMC
August 2016

Sample preparation for proteomic analysis using a GeLC-MS/MS strategy.

Authors:
Joao A Paulo

J Biol Methods 2016;3(3). Epub 2016 Jul 12.

Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.14440/jbm.2016.106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4959781PMC
July 2016

Multiplexed, Proteome-Wide Protein Expression Profiling: Yeast Deubiquitylating Enzyme Knockout Strains.

J Proteome Res 2015 Dec 4;14(12):5306-17. Epub 2015 Nov 4.

Department of Cell Biology, Harvard Medical School , Boston, Massachusetts 02115, United States.

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http://dx.doi.org/10.1021/acs.jproteome.5b00802DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4802358PMC
December 2015

Proteome-wide quantitative multiplexed profiling of protein expression: carbon-source dependency in Saccharomyces cerevisiae.

Mol Biol Cell 2015 Nov 23;26(22):4063-74. Epub 2015 Sep 23.

Department of Cell Biology, Harvard Medical School, Boston, MA 02115

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http://dx.doi.org/10.1091/mbc.E15-07-0499DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4710237PMC
November 2015

Global Analysis of Protein Expression and Phosphorylation Levels in Nicotine-Treated Pancreatic Stellate Cells.

J Proteome Res 2015 Oct 24;14(10):4246-56. Epub 2015 Aug 24.

Department of Cell Biology, Harvard Medical School , Boston, Massachusetts 02115, United States.

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http://dx.doi.org/10.1021/acs.jproteome.5b00398DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4868188PMC
October 2015

Detection and Quantitation of Circulating Human Irisin by Tandem Mass Spectrometry.

Cell Metab 2015 Oct 13;22(4):734-740. Epub 2015 Aug 13.

Dana-Farber Cancer Institute and Department of Cell Biology, Harvard Medical School, 44 Binney Street, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.cmet.2015.08.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4802359PMC
October 2015

The PINK1-PARKIN Mitochondrial Ubiquitylation Pathway Drives a Program of OPTN/NDP52 Recruitment and TBK1 Activation to Promote Mitophagy.

Mol Cell 2015 Oct 10;60(1):7-20. Epub 2015 Sep 10.

Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2015.08.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4592482PMC
October 2015

Comprehensive Temporal Protein Dynamics during the Diauxic Shift in Saccharomyces cerevisiae.

Mol Cell Proteomics 2015 Sep 15;14(9):2454-65. Epub 2015 Jun 15.

From the ‡Department of Cell Biology, Harvard Medical School, Boston, Massachusetts, 02115

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http://dx.doi.org/10.1074/mcp.M114.045849DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4563728PMC
September 2015

The proteome of postsurgical pancreatic juice.

Pancreas 2015 May;44(4):574-82

From the *Department of Surgery, Massachusetts General Hospital, Harvard Medical School; and †Department of Cell Biology, Harvard Medical School, Boston, MA.

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http://dx.doi.org/10.1097/MPA.0000000000000304DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4506756PMC
May 2015

A comprehensive proteomic and phosphoproteomic analysis of yeast deletion mutants of 14-3-3 orthologs and associated effects of rapamycin.

Proteomics 2015 Jan 17;15(2-3):474-86. Epub 2014 Dec 17.

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

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http://dx.doi.org/10.1002/pmic.201400155DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4511088PMC
January 2015

Nicotine alters the proteome of two human pancreatic duct cell lines.

Authors:
Joao A Paulo

JOP 2014 Sep 28;15(5):465-74. Epub 2014 Sep 28.

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

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4500938PMC
http://dx.doi.org/10.6092/1590-8577/2559DOI Listing
September 2014

Screening preeclamptic cord plasma for proteins associated with decreased breast cancer susceptibility.

Genomics Proteomics Bioinformatics 2013 Dec 5;11(6):335-44. Epub 2013 Dec 5.

Department of Cancer Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2013.09.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4357835PMC
December 2013

Post-translational modifications of pancreatic fluid proteins collected via the endoscopic pancreatic function test (ePFT).

J Proteomics 2013 Oct 14;92:216-27. Epub 2013 Mar 14.

Department of Pathology, Children's Hospital Boston, Boston, MA, United States; Proteomics Center at Children's Hospital Boston, Boston, MA, United States; Center for Pancreatic Disease, Division of Gastroenterology, Hepatology and Endoscopy, Brigham and Women's Hospital and Department of Medicine, Harvard Medical School, Boston, MA, United States. Electronic address:

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http://dx.doi.org/10.1016/j.jprot.2013.01.033DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3731404PMC
October 2013

Practical and Efficient Searching in Proteomics: A Cross Engine Comparison.

Authors:
Joao A Paulo

Webmedcentral 2013 Oct;4(10)

Department of Medicine, Harvard Medical School, Boston, MA.

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http://dx.doi.org/10.9754/journal.wplus.2013.0052DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4208621PMC
October 2013

A proteomic comparison of formalin-fixed paraffin-embedded pancreatic tissue from autoimmune pancreatitis, chronic pancreatitis, and pancreatic cancer.

JOP 2013 Jul 10;14(4):405-14. Epub 2013 Jul 10.

Department of Pathology, Brigham and Women's Hospital and Department of Medicine, Harvard Medical School. Boston, MA 02115, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4506757PMC
http://dx.doi.org/10.6092/1590-8577/1508DOI Listing
July 2013

Cross-species analysis of nicotine-induced proteomic alterations in pancreatic cells.

Proteomics 2013 May;13(9):1499-1512

Department of Pathology, Children's Hospital Boston and Harvard Medical School, Boston, MA Proteomics Center at Children's Hospital Boston, Boston, MA.

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http://dx.doi.org/10.1002/pmic.201200492DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4036444PMC
May 2013

Subcellular fractionation enhances proteome coverage of pancreatic duct cells.

Biochim Biophys Acta 2013 Apr 22;1834(4):791-7. Epub 2013 Jan 22.

Department of Pathology, Children's Hospital Boston, Boston, MA, USA.

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http://dx.doi.org/10.1016/j.bbapap.2013.01.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3618666PMC
April 2013

Mass spectrometry-based quantitative proteomic profiling of human pancreatic and hepatic stellate cell lines.

Genomics Proteomics Bioinformatics 2013 Apr 22;11(2):105-13. Epub 2013 Mar 22.

Department of Pathology, Boston Children's Hospital, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.gpb.2013.01.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4123426PMC
April 2013

Urinary 1H-NMR metabolomics can distinguish pancreatitis patients from healthy controls.

JOP 2013 Mar 10;14(2):161-70. Epub 2013 Mar 10.

Department of Surgery, University of Minnesota, Minneapolis, MN 55455, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4500934PMC
http://dx.doi.org/10.6092/1590-8577/1294DOI Listing
March 2013

Urine proteomics for discovery of improved diagnostic markers of Kawasaki disease.

EMBO Mol Med 2013 Feb 20;5(2):210-20. Epub 2012 Dec 20.

Division of Hematology/Oncology, Department of Pediatric Oncology, Dana-Farber Cancer Institute, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.

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http://dx.doi.org/10.1002/emmm.201201494DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3569638PMC
February 2013

Short Gel, Long Gradient Liquid Chromatography Tandem Mass Spectrometry to Discover Urinary Biomarkers of Chronic Pancreatitis.

Open Proteomics J 2013 ;6:1-13

Departments of Pathology, Children's Hospital Boston and Harvard Medical School, Proteomics Center at Children's Hospital Boston, Boston, MA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4207084PMC
January 2013

Cigarette smoking impairs pancreatic duct cell bicarbonate secretion.

JOP 2013 Jan 10;14(1):31-8. Epub 2013 Jan 10.

Center for Pancreatic Disease, Division of Gastroenterology, Hepatology and Endoscopy, Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA 02115, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4498578PMC
http://dx.doi.org/10.6092/1590-8577/1195DOI Listing
January 2013

Differentiating Branch Duct and Mixed IPMN in Endoscopically Collected Pancreatic Cyst Fluid via Cytokine Analysis.

Gastroenterol Res Pract 2012 25;2012:247309. Epub 2012 Dec 25.

Center for Pancreatic Disease and Division of Gastroenterology, Hepatology and Endoscopy, Brigham and Women's Hospital and Department of Medicine, Harvard Medical School, 75 Francis Street, Boston, MA 02115, USA.

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http://www.hindawi.com/journals/grp/2012/247309/
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http://dx.doi.org/10.1155/2012/247309DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3543798PMC
January 2013

Inflammatory protein profiling of pancreatic cyst fluid using EUS-FNA in tandem with cytokine microarray differentiates between branch duct IPMN and inflammatory cysts.

J Immunol Methods 2012 Aug 7;382(1-2):142-149. Epub 2012 Jun 7.

Department of Pathology, Children's Hospital Boston, Boston, MA Proteomics Center at Children's Hospital Boston, Boston, MA Center for Pancreatic Disease, Division of Gastroenterology, Hepatology and Endoscopy, Brigham and Women's Hospital and Department of Medicine, Harvard Medical School, Boston, MA.

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http://linkinghub.elsevier.com/retrieve/pii/S002217591200156
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http://dx.doi.org/10.1016/j.jim.2012.05.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4509568PMC
August 2012

Mass Spectrometry-Based (GeLC-MS/MS) Comparative Proteomic Analysis of Endoscopically (ePFT) Collected Pancreatic and Gastroduodenal Fluids.

Clin Transl Gastroenterol 2012 May 3;3:e14. Epub 2012 May 3.

1] Department of Pathology, Children's Hospital Boston and Harvard Medical School, Boston, Massachusetts, USA [2] Proteomics Center at Children's Hospital Boston, Boston, Massachusetts, USA [3] Center for Pancreatic Disease, Division of Gastroenterology, Hepatology and Endoscopy, Brigham and Women's Hospital and Department of Medicine, Harvard Medical School, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/ctg.2012.7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3367612PMC
May 2012

Mass spectrometry-based proteomics for translational research: a technical overview.

Yale J Biol Med 2012 Mar 29;85(1):59-73. Epub 2012 Mar 29.

Center for Pancreatic Disease, Division of Gastroenterology, Hepatology and Endoscopy, Brigham and Women’s Hospital and Department of Medicine, Harvard Medical School, Boston, MA, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3313540PMC
March 2012