Vidya Venkatraman

Vidya Venkatraman

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Vidya Venkatraman

Vidya Venkatraman

Publications by authors named "Vidya Venkatraman"

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Mining the Proteome Associated with Rheumatic and Autoimmune Diseases.

J Proteome Res 2019 Dec 23;18(12):4231-4239. Epub 2019 Oct 23.

Grupo de Investigación de Reumatología, INIBIC-Complejo Hospitalario Universitario de A Coruña, SERGAS , Departamento de Medicina Universidad de A Coruña , A Coruña 15006 , Spain.

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http://dx.doi.org/10.1021/acs.jproteome.9b00360DOI Listing
December 2019

Mapping Citrullinated Sites in Multiple Organs of Mice Using Hypercitrullinated Library.

J Proteome Res 2019 05 23;18(5):2270-2278. Epub 2019 Apr 23.

The Smidt Heart Institute, Department of Medicine , Cedars-Sinai Medical Center , Los Angeles , California 90048 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.9b00118DOI Listing
May 2019

Identifying High-Priority Proteins Across the Human Diseasome Using Semantic Similarity.

J Proteome Res 2018 12 9;17(12):4267-4278. Epub 2018 Oct 9.

Department of Medicine, Division of Cardiology, Consortium for Fibrosis Research and Translation, Anschutz Medical Campus , University of Colorado Denver , Aurora , Colorado 80045 , United States.

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http://dx.doi.org/10.1021/acs.jproteome.8b00393DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6606054PMC
December 2018

Proteomics reveals Rictor as a noncanonical TGF-β signaling target during aneurysm progression in Marfan mice.

Am J Physiol Heart Circ Physiol 2018 11 13;315(5):H1112-H1126. Epub 2018 Jul 13.

Advanced Clinical Biosystems Research Institute, The Smidt Heart Institute, Cedars-Sinai Medical Center , Los Angeles, California.

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http://dx.doi.org/10.1152/ajpheart.00089.2018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6335018PMC
November 2018

Phospho-Proteomic Analysis of Cardiac Dyssynchrony and Resynchronization Therapy.

Proteomics 2018 10 30;18(19):e1800079. Epub 2018 Aug 30.

Department of Cell and Molecular Physiology, Stritch School of Medicine, Loyola University Chicago, Maywood, IL, USA.

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http://dx.doi.org/10.1002/pmic.201800079DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6417799PMC
October 2018

Molecular Profile of Priapism Associated with Low Nitric Oxide Bioavailability.

J Proteome Res 2018 03 12;17(3):1031-1040. Epub 2018 Feb 12.

Advanced Clinical Biosystems Research Institute, Department of Medicine and The Heart Institute, Cedars-Sinai Medical Center , Los Angeles, California 90048, United States.

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http://dx.doi.org/10.1021/acs.jproteome.7b00657DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6419954PMC
March 2018

Mapping Biological Networks from Quantitative Data-Independent Acquisition Mass Spectrometry: Data to Knowledge Pipelines.

Methods Mol Biol 2017 ;1558:395-413

Advanced Clinical BioSystems Research Institute, Cedars Sinai Medical Center, Heart Institute, Los Angeles, CA, 90048, USA.

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http://dx.doi.org/10.1007/978-1-4939-6783-4_19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6844627PMC
February 2018

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.

Authors:
Alexandra B Keenan Sherry L Jenkins Kathleen M Jagodnik Simon Koplev Edward He Denis Torre Zichen Wang Anders B Dohlman Moshe C Silverstein Alexander Lachmann Maxim V Kuleshov Avi Ma'ayan Vasileios Stathias Raymond Terryn Daniel Cooper Michele Forlin Amar Koleti Dusica Vidovic Caty Chung Stephan C Schürer Jouzas Vasiliauskas Marcin Pilarczyk Behrouz Shamsaei Mehdi Fazel Yan Ren Wen Niu Nicholas A Clark Shana White Naim Mahi Lixia Zhang Michal Kouril John F Reichard Siva Sivaganesan Mario Medvedovic Jaroslaw Meller Rick J Koch Marc R Birtwistle Ravi Iyengar Eric A Sobie Evren U Azeloglu Julia Kaye Jeannette Osterloh Kelly Haston Jaslin Kalra Steve Finkbiener Jonathan Li Pamela Milani Miriam Adam Renan Escalante-Chong Karen Sachs Alex Lenail Divya Ramamoorthy Ernest Fraenkel Gavin Daigle Uzma Hussain Alyssa Coye Jeffrey Rothstein Dhruv Sareen Loren Ornelas Maria Banuelos Berhan Mandefro Ritchie Ho Clive N Svendsen Ryan G Lim Jennifer Stocksdale Malcolm S Casale Terri G Thompson Jie Wu Leslie M Thompson Victoria Dardov Vidya Venkatraman Andrea Matlock Jennifer E Van Eyk Jacob D Jaffe Malvina Papanastasiou Aravind Subramanian Todd R Golub Sean D Erickson Mohammad Fallahi-Sichani Marc Hafner Nathanael S Gray Jia-Ren Lin Caitlin E Mills Jeremy L Muhlich Mario Niepel Caroline E Shamu Elizabeth H Williams David Wrobel Peter K Sorger Laura M Heiser Joe W Gray James E Korkola Gordon B Mills Mark LaBarge Heidi S Feiler Mark A Dane Elmar Bucher Michel Nederlof Damir Sudar Sean Gross David F Kilburn Rebecca Smith Kaylyn Devlin Ron Margolis Leslie Derr Albert Lee Ajay Pillai

Cell Syst 2018 01 29;6(1):13-24. Epub 2017 Nov 29.

NIH, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1016/j.cels.2017.11.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5799026PMC
January 2018

Transient receptor potential channel 6 regulates abnormal cardiac S-nitrosylation in Duchenne muscular dystrophy.

Proc Natl Acad Sci U S A 2017 12 29;114(50):E10763-E10771. Epub 2017 Nov 29.

Advanced Clinical BioSystems Research Institute, Heart Institute, Cedars Sinai Medical Center, Los Angeles, CA 90048;

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http://dx.doi.org/10.1073/pnas.1712623114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5740634PMC
December 2017

Methods for SWATH™: Data Independent Acquisition on TripleTOF Mass Spectrometers.

Methods Mol Biol 2016 ;1410:265-79

Advanced Clinical Biosystems Research Institute, The Heart Institute, Cedars-Sinai Medical Center, Los Angeles, CA, USA.

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http://dx.doi.org/10.1007/978-1-4939-3524-6_16DOI Listing
December 2016

Data-Driven Approach To Determine Popular Proteins for Targeted Proteomics Translation of Six Organ Systems.

J Proteome Res 2016 11 19;15(11):4126-4134. Epub 2016 Jul 19.

Advanced Clinical Biosystems Research Institute, Department of Medicine and The Heart Institute, Cedars-Sinai Medical Center , Los Angeles, California 90048, United States.

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http://dx.doi.org/10.1021/acs.jproteome.6b00095DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5120959PMC
November 2016

Effect of peptide assay library size and composition in targeted data-independent acquisition-MS analyses.

Proteomics 2016 08;16(15-16):2221-37

Advanced Clinical BioSystems Research Institute, Heart Institute, Department of Medicine, Cedars Sinai Medical Center, Los Angeles, CA, USA.

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http://dx.doi.org/10.1002/pmic.201600007DOI Listing
August 2016

Discordant signaling and autophagy response to fasting in hearts of obese mice: Implications for ischemia tolerance.

Am J Physiol Heart Circ Physiol 2016 07 6;311(1):H219-28. Epub 2016 May 6.

Cedars-Sinai Heart Institute and Department of Medicine, Los Angeles, California; Barbra Streisand Women's Heart Center of Cedars-Sinai Medical Center, Los Angeles, California; and.

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http://dx.doi.org/10.1152/ajpheart.00041.2016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4967197PMC
July 2016

Protein kinase A-dependent phosphorylation stimulates the transcriptional activity of hypoxia-inducible factor 1.

Sci Signal 2016 05 31;9(430):ra56. Epub 2016 May 31.

Vascular Program, Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. Department of Biological Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. Department of Pediatrics, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. Department of Radiation Oncology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

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http://dx.doi.org/10.1126/scisignal.aaf0583DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5541497PMC
May 2016

Identification of a Set of Conserved Eukaryotic Internal Retention Time Standards for Data-independent Acquisition Mass Spectrometry.

Mol Cell Proteomics 2015 Oct 21;14(10):2800-13. Epub 2015 Jul 21.

§Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland; §§Faculty of Science, University of Zurich, Zurich, Switzerland

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http://dx.doi.org/10.1074/mcp.O114.042267DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4597153PMC
October 2015

Dual Labeling Biotin Switch Assay to Reduce Bias Derived From Different Cysteine Subpopulations: A Method to Maximize S-Nitrosylation Detection.

Circ Res 2015 Oct 3;117(10):846-57. Epub 2015 Sep 3.

From the Department of Biological Chemistry (H.S.C., C.I.M., R.N.C., J.E.V.E.), Division of Cardiology, Department of Medicine (V.V., P.P.R., D.A.K., J.E.V.E.), The Johns Hopkins NHLBI Proteomics Innovation Center on Heart Failure (H.S.C., V.V., D.A.K., J.E.V.E.), Department of Medicine, Mass Spectrometry and Proteomic Core Facility (R.N.C.), Johns Hopkins University School of Medicine, Baltimore, MD; Thermo Fisher Scientific, Rockford, IL (R.D.B., J.C.R.); Advanced Clinical Biosystems Research Institute, Heart Institute, Cedars-Sinai Medical Center, Los Angeles, CA (V.V., E.L.C., J.E.V.E.); Department of Medicine, Interdisciplinary Stem Cell Institute, University of Miami Miller School of Medicine, FL (W.B., J.M.H.); Department of Anesthesiology, Pharmacology, and Therapeutics, University of British Columbia, Vancouver, British Columbia, Canada (C.I.M.); and Division of Cardiology, Medical University of Graz, Austria (P.P.R.).

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http://dx.doi.org/10.1161/CIRCRESAHA.115.307336DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4979977PMC
October 2015

Vinculin network-mediated cytoskeletal remodeling regulates contractile function in the aging heart.

Sci Transl Med 2015 Jun;7(292):292ra99

Department of Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA. Biomedical Sciences Program, University of California, San Diego, La Jolla, CA 92093, USA. Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.

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http://dx.doi.org/10.1126/scitranslmed.aaa5843DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4507505PMC
June 2015

The proteome of human retina.

Proteomics 2015 Feb 14;15(4):836-40. Epub 2015 Jan 14.

Department of Ophthalmology, Johns Hopkins University School of Medicine, Baltimore, MD, USA.

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http://dx.doi.org/10.1002/pmic.201400397DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4329094PMC
February 2015

Sizing up models of heart failure: Proteomics from flies to humans.

Proteomics Clin Appl 2014 Oct 25;8(9-10):653-64. Epub 2014 Jun 25.

Department of Medicine, Division of Cardiology, The Johns Hopkins University, Baltimore, MD, USA.

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http://dx.doi.org/10.1002/prca.201300123DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4282793PMC
October 2014

The Human Eye Proteome Project: perspectives on an emerging proteome.

Proteomics 2013 Aug;13(16):2500-11

Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore, MD, USA.

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http://dx.doi.org/10.1002/pmic.201300075DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3978387PMC
August 2013