Jeffrey R. Whiteaker

发表

Panorama: A Targeted Proteomics Knowledge Base

Brendan MacLean, Michael J. MacCoss, Birgit Schilling, 2014, Journal of proteome research.

Erratum: Computational Proteomics Analysis System (CPAS): An extensible, open-source analytic system for evaluating and publishing proteomic data and high throughput biological experiments (Journal of Proteome Research (2006) 5 (112-121))

David J. States, Brendan MacLean, Adam Rauch, 2006 .

A dataset describing a suite of novel antibody reagents for the RAS signaling network

Stephen M. Hewitt, Amanda G. Paulovich, Tara Hiltke, 2019, Scientific Data.

Head-to-head comparison of serum fractionation techniques.

Jeffrey R. Whiteaker, J. F. Keane, Regine M. Schoenherr, 2007, Journal of proteome research.

Proteogenomic Characterization of Endometrial Carcinoma

Peter B. McGarvey, Ying Wang, Li Ding, 2020, Cell.

Clinical potential of mass spectrometry-based proteogenomics

Jeffrey R. Whiteaker, Karin D Rodland, Andrew N Hoofnagle, 2018, Nature Reviews Clinical Oncology.

The evolving role of mass spectrometry in cancer biomarker discovery

Jeffrey R. Whiteaker, Pei Wang, A. Paulovich, 2009, Cancer biology & therapy.

Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation

Jeffrey R. Whiteaker, Ben C. Collins, Jacob J. Kennedy, 2015, Nature Methods.

Integrated Proteomic and Glycoproteomic Characterization of Human High-Grade Serous Ovarian Carcinoma.

Jeffrey R. Whiteaker, Ratna R. Thangudu, Samuel H. Payne, 2020, Cell reports.

Recommendations for the Generation, Quantification, Storage, and Handling of Peptides Used for Mass Spectrometry-Based Assays.

Jeffrey R. Whiteaker, Matthew R. Meyer, Stefani N. Thomas, 2016, Clinical chemistry.

The increasing role of mass spectrometry in quantitative clinical proteomics.

Jeffrey R. Whiteaker, 2010, Clinical chemistry.

Computational Proteomics Analysis System (CPAS): an extensible, open-source analytic system for evaluating and publishing proteomic data and high throughput biological experiments.

Adam Rauch, Jeffrey Whiteaker, Heidi Zhang, 2006, Journal of proteome research.

Performance Metrics for Liquid Chromatography-Tandem Mass Spectrometry Systems in Proteomics Analyses*

David L. Tabb, Daniel C. Liebler, Stephen E. Stein, 2009, Molecular & Cellular Proteomics.

Instrument Busy Time and Mass Measurement using Aerosol Time-of-Flight Mass Spectrometry

Jeffrey R. Whiteaker, Jonathan O. Allen, K. Prather, 2006 .

An Automated and Multiplexed Method for High Throughput Peptide Immunoaffinity Enrichment and Multiple Reaction Monitoring Mass Spectrometry-based Quantification of Protein Biomarkers*

Amanda G. Paulovich, Jeffrey R. Whiteaker, Leigh Anderson, 2009, Molecular & Cellular Proteomics.

Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma

Jeffrey R. Whiteaker, Dana R. Valley, Karna L. Robinson, 2020, Cell.

Quantification of ATP7B Protein in Dried Blood Spots by Peptide Immuno-SRM as a Potential Screen for Wilson's Disease.

Jeffrey R. Whiteaker, A. Paulovich, Sunhee Jung, 2017, Journal of proteome research.

Effects of meteorological conditions on aerosol composition and mixing state in Bakersfield, CA.

Jeffrey R. Whiteaker, K. Prather, D. Suess, 2002, Environmental science & technology.

Application Note 2001-1 1 / 4 Targeted Metabolomics Analysis of Cell Culture Lysates using the Absolute IDQ TM p 180 Kit

Jeffrey R. Whiteaker, A. Paulovich, T. D. Lorentzen, 2011 .

Peptide Immunoaffinity Enrichment with Targeted Mass Spectrometry: Application to Quantification of ATM Kinase Phospho-Signaling.

Jeffrey R. Whiteaker, Regine M. Schoenherr, Jacob J. Kennedy, 2017, Methods in molecular biology.

Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy

Jeffrey R. Whiteaker, Matthew A. Wyczalkowski, Ratna R. Thangudu, 2020, Cell.

Quantifying the human proteome

Jeffrey R. Whiteaker, A. Paulovich, 2016, Nature Biotechnology.

Sequential Multiplexed Analyte Quantification Using Peptide Immunoaffinity Enrichment Coupled to Mass Spectrometry*

Jeffrey R. Whiteaker, A. Paulovich, ChenWei Lin, 2011, Molecular & Cellular Proteomics.

Identification of a Blood-Based Protein Biomarker Panel for Lung Cancer Detection

Jeffrey R. Whiteaker, Jacob J. Kennedy, A. Paulovich, 2020, Cancers.

Complete sequences of small acid-soluble proteins from Bacillus globigii.

Jeffrey R. Whiteaker, Y. Hathout, C. Fenselau, 2004, Journal of mass spectrometry : JMS.

Peptide immunoaffinity enrichment coupled with mass spectrometry for peptide and protein quantification.

Jeffrey R. Whiteaker, A. Paulovich, 2011, Clinics in laboratory medicine.

Multiplexed quantification of estrogen receptor and HER2/Neu in tissue and cell lysates by peptide immunoaffinity enrichment mass spectrometry

Jeffrey R. Whiteaker, Regine M. Schoenherr, Uliana J. Voytovich, 2012, Proteomics.

pRAD50: a novel and clinically applicable pharmacodynamic biomarker of both ATM and ATR inhibition identified using mass spectrometry and immunohistochemistry

Jeffrey R. Whiteaker, A. Paulovich, J. Barrett, 2018, British Journal of Cancer.

Targeted mass spectrometry enables robust quantification of FANCD2 mono-ubiquitination in response to DNA damage.

Jeffrey R. Whiteaker, Regine M. Schoenherr, A. Paulovich, 2018, DNA repair.

Rapid Multiplexed Proteomic Screening for Primary Immunodeficiency Disorders From Dried Blood Spots

Jeffrey R. Whiteaker, A. Paulovich, H. Ochs, 2018, Front. Immunol..

Optimized Protocol for Quantitative Multiple Reaction Monitoring-Based Proteomic Analysis of Formalin-Fixed, Paraffin-Embedded Tissues.

Jeffrey R. Whiteaker, Regine M. Schoenherr, Jacob J. Kennedy, 2016, Journal of proteome research.

Antibody-Coupled Magnetic Beads Can Be Reused in Immuno-MRM Assays To Reduce Cost and Extend Antibody Supply.

Jeffrey R. Whiteaker, Uliana J. Voytovich, A. Paulovich, 2015, Journal of proteome research.

Quantification of Proteins Using Peptide Immunoaffinity Enrichment Coupled with Mass Spectrometry

Jeffrey R. Whiteaker, S. Carr, N. Anderson, 2011, Journal of visualized experiments : JoVE.

Automated screening of monoclonal antibodies for SISCAPA assays using a magnetic bead processor and liquid chromatography-selected reaction monitoring-mass spectrometry.

Jeffrey R. Whiteaker, Regine M. Schoenherr, A. Paulovich, 2010, Journal of immunological methods.

Analysis of Bacillus anthracis spores in milk using mass spectrometry.

Jeffrey R. Whiteaker, C. Fenselau, J. Karns, 2004, Foodborne pathogens and disease.

Quantitative determination of heme for forensic characterization of bacillus spores using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry.

Jeffrey R. Whiteaker, C. Fenselau, D. Fetterolf, 2004, Analytical chemistry.

Fanconi anemia-isogenic head and neck cancer cell line pairs - a basic and translational science resource

Jeffrey R. Whiteaker, Elizabeth E. Hoskins, A. Paulovich, 2022, bioRxiv.

Internal Standard Triggered-Parallel Reaction Monitoring Mass Spectrometry Enables Multiplexed Quantification of Candidate Biomarkers in Plasma

Jeffrey R. Whiteaker, Lisa A. Jones, Jacob J. Kennedy, 2022, Analytical chemistry.

Preserving the Phosphoproteome of Clinical Biopsies Using a Quick-Freeze Collection Device.

Jeffrey R. Whiteaker, Jacob J. Kennedy, A. Paulovich, 2022, Biopreservation and biobanking.

Normalization Regarding Non-Random Missing Values in High-Throughput Mass Spectrometry Data

Hua Tang, Pei Wang, Jeffrey Whiteaker, 2005, Pacific Symposium on Biocomputing.

High-Affinity Recombinant Antibody Fragments (Fabs) Can Be Applied in Peptide Enrichment Immuno-MRM Assays

Jeffrey R. Whiteaker, A. Paulovich, A. Knappik, 2014, Journal of proteome research.

Multiplexed Proteomic Analysis for Diagnosis and Screening of Five Primary Immunodeficiency Disorders From Dried Blood Spots

Jeffrey R. Whiteaker, A. Paulovich, H. Ochs, 2020, Frontiers in Immunology.

Comparative analysis of TCR and CAR signaling informs CAR designs with superior antigen sensitivity and in vivo function

Jeffrey R. Whiteaker, Jacob J. Kennedy, A. Paulovich, 2021, Science Signaling.

Phosphoproteomic analysis of chimeric antigen receptor signaling reveals kinetic and quantitative differences that affect cell function

Jeffrey R. Whiteaker, Uliana J. Voytovich, Jacob J. Kennedy, 2018, Science Signaling.

Multiomic analysis identifies CPT1A as a potential therapeutic target in platinum-refractory, high-grade serous ovarian cancer

Jeffrey R. Whiteaker, Sara R. Savage, Uliana J. Voytovich, 2021, Cell reports. Medicine.

Immobilized Metal Affinity Chromatography Coupled to Multiple Reaction Monitoring Enables Reproducible Quantification of Phospho-signaling*

Jeffrey R. Whiteaker, Uliana J. Voytovich, Jacob J. Kennedy, 2015, Molecular & Cellular Proteomics.

Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer

Guo Ci Teo, Allison P. Heath, Marilyn M. Li, 2020, Cell.

Loss of TGFβ signaling increases alternative end-joining DNA repair that sensitizes to genotoxic therapies across cancer types

Jeffrey R. Whiteaker, A. Paulovich, J. Murnane, 2021, Science Translational Medicine.

Intraventricular B7-H3 CAR T Cells for Diffuse Intrinsic Pontine Glioma: Preliminary First-in-Human Bioactivity and Safety

Jeffrey R. Whiteaker, Matthew D. Dun, J. Ojemann, 2022, Cancer discovery.

Proteome and transcriptome profiles of a Her2/Neu‐driven mouse model of breast cancer

Yan Liu, Pei Wang, Jeffrey R. Whiteaker, 2011, Proteomics. Clinical applications.

Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma

Guo Ci Teo, Meghan C. Burke, Jeffrey R. Whiteaker, 2020, Cell.

Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins

Pei Wang, Susan E Abbatiello, Henry Rodriguez, 2013, Nature Methods.

Targeted Mass Spectrometry Enables Multiplexed Quantification of Immunomodulatory Proteins in Clinical Biospecimens

Jeffrey R. Whiteaker, Regine M. Schoenherr, Jacob J. Kennedy, 2021, Frontiers in Immunology.

Commercially available antibodies can be applied in quantitative multiplexed peptide immunoaffinity enrichment targeted mass spectrometry assays

Jeffrey R. Whiteaker, Regine M. Schoenherr, Uliana J. Voytovich, 2016, Proteomics.

Interlaboratory Evaluation of Automated, Multiplexed Peptide Immunoaffinity Enrichment Coupled to Multiple Reaction Monitoring Mass Spectrometry for Quantifying Proteins in Plasma*

D R Mani, Steven J Skates, Steven A Carr, 2011, Molecular & Cellular Proteomics.

Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities

Subha Madhavan, Peter B. McGarvey, Li Ding, 2019, Cell.

Near-Lossless Compression of Mass Spectra for Proteomics

John F. Keane, Agnieszka C. Miguel, Jeffrey Whiteaker, 2007, 2007 IEEE International Conference on Acoustics, Speech and Signal Processing - ICASSP '07.

Compression of LC/MS Proteomic Data

John F. Keane, Agnieszka C. Miguel, Jeffrey Whiteaker, 2006, 19th IEEE Symposium on Computer-Based Medical Systems (CBMS'06).

Repeatability and reproducibility in proteomic identifications by liquid chromatography-tandem mass spectrometry.

Birgit Schilling, Lisa J Zimmerman, Christopher R Kinsinger, 2010, Journal of proteome research.

Targeted Mass Spectrometry Enables Quantification of Novel Pharmacodynamic Biomarkers of ATM Kinase Inhibition

Jeffrey R. Whiteaker, Regine M. Schoenherr, Jacob J. Kennedy, 2021, Cancers.

Targeted mass-spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP kinase, and AKT signaling

Jeffrey R. Whiteaker, Regine M. Schoenherr, Jacob J. Kennedy, 2021, Cell reports methods.

The interface between biomarker discovery and clinical validation: The tar pit of the protein biomarker pipeline

Pei Wang, Jeffrey R. Whiteaker, Andrew N Hoofnagle, 2008, Proteomics. Clinical applications.

Bioinformatics Original Paper a Suite of Algorithms for the Comprehensive Analysis of Complex Protein Mixtures Using High-resolution Lc-ms

Pei Wang, Jeffrey Whiteaker, Amanda G. Paulovich, 2022 .

A Multiplexed Mass Spectrometry-Based Assay for Robust Quantification of Phosphosignaling in Response to DNA Damage

Jeffrey R. Whiteaker, Regine M. Schoenherr, A. Paulovich, 2018, Radiation Research.

Peptide Immunoaffinity Enrichment and Targeted Mass Spectrometry Enables Multiplex, Quantitative Pharmacodynamic Studies of Phospho-Signaling*

Jeffrey R. Whiteaker, Amanda G Paulovich, Lei Zhao, 2015, Molecular & Cellular Proteomics.

CPTAC Assay Portal: a repository of targeted proteomic assays

Brendan MacLean, Jacob Kennedy, Lisa J Zimmerman, 2014, Nature Methods.

Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma

Christoph H Borchers, Birgit Schilling, Michael P. Cusack, 2009, Nature Biotechnology.

A targeted proteomics–based pipeline for verification of biomarkers in plasma

Pei Wang, Jacob Kennedy, Jeffrey R. Whiteaker, 2011, Nature Biotechnology.

pRAD50: a novel and clinically applicable pharmacodynamic biomarker of both ATM and ATR inhibition identified using mass spectrometry and immunohistochemistry

Jeffrey R. Whiteaker, A. Paulovich, J. Barrett, 2018, British Journal of Cancer.

Interlaboratory Study Characterizing a Yeast Performance Standard for Benchmarking LC-MS Platform Performance*

Birgit Schilling, Lisa J Zimmerman, Christopher R Kinsinger, 2009, Molecular & Cellular Proteomics.

Effect of collision energy optimization on the measurement of peptides by selected reaction monitoring (SRM) mass spectrometry.

Susan E Abbatiello, Brendan Maclean, Steven A Carr, 2010, Analytical chemistry.

Assessing Bias in Experiment Design for Large Scale Mass Spectrometry-based Quantitative Proteomics*S

Benno Schwikowski, Heidi Zhang, Ruedi Aebersold, 2007, Molecular & Cellular Proteomics.

Signal Maps for Mass Spectrometry-based Comparative Proteomics*

Benno Schwikowski, Jeffrey Whiteaker, Heidi Zhang, 2006, Molecular & Cellular Proteomics.

Evaluation of Large Scale Quantitative Proteomic Assay Development Using Peptide Affinity-based Mass Spectrometry*

Susan E Abbatiello, Steven A Carr, Susan E. Abbatiello, 2011, Molecular & Cellular Proteomics.

Antibody-based enrichment of peptides on magnetic beads for mass-spectrometry-based quantification of serum biomarkers.

Jeffrey R. Whiteaker, Li-Chia Feng, Leigh Anderson, 2007, Analytical biochemistry.

Multiplexed triage of candidate biomarkers in plasma using internal standard triggered-parallel reaction monitoring mass spectrometry

Jeffrey R. Whiteaker, Lisa A. Jones, A. Paulovich, 2021, bioRxiv.

Detection of pesticide residues on individual particles.

Jeffrey R. Whiteaker, K. Prather, 2003, Analytical chemistry.

Integrated pipeline for mass spectrometry-based discovery and confirmation of biomarkers demonstrated in a mouse model of breast cancer.

Heidi Zhang, Pei Wang, Jeffrey R. Whiteaker, 2007, Journal of proteome research.

A multiplexed assay for quantifying immunomodulatory proteins supports correlative studies in immunotherapy clinical trials

Jeffrey R. Whiteaker, Regine M. Schoenherr, Jacob J. Kennedy, 2023, Frontiers in Oncology.

Corrigendum: Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma

Christoph H Borchers, Jing Li, Birgit Schilling, 2009, Nature Biotechnology.

Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues.

Jeffrey R. Whiteaker, Regine M. Schoenherr, Jacob J. Kennedy, 2021, Clinical chemistry.

Using the CPTAC Assay Portal to Identify and Implement Highly Characterized Targeted Proteomics Assays.

Michael J MacCoss, Jing Chen, Brendan MacLean, 2016, Methods in molecular biology.

Hydroxymethanesulfonate as a tracer for fog processing of individual aerosol particles

Jeffrey R. Whiteaker, K. Prather, 2003 .

A platform for accurate mass and time analyses of mass spectrometry data.

Jimmy Eng, Yan Liu, Amanda Paulovich, 2007, Journal of proteome research.

Phase I/II results of ceralasertib as monotherapy or in combination with acalabrutinib in high-risk relapsed/refractory chronic lymphocytic leukemia

Jeffrey R. Whiteaker, A. Paulovich, C. Wun, 2023, Therapeutic Advances in Hematology.

Proteogenomic characterization of human colon and rectal cancer

Jeffrey R. Whiteaker, S. Carr, M. Ellis, 2014, Nature.

Proteogenomic analysis of chemo-refractory high-grade serous ovarian cancer

Jeffrey R. Whiteaker, Sara R. Savage, Uliana J. Voytovich, 2023, Cell.

Erratum: Synergistic drug combinations tend to improve therapeutically relevant selectivity

Susan E. Abbatiello, Jeffrey R. Whiteaker, C. Spiegelman, 2009, Nature Biotechnology.

Monitoring Both Extended and Tryptic Forms of Stable Isotope-Labeled Standard Peptides Provides an Internal Quality Control of Proteolytic Digestion in Targeted Mass Spectrometry-Based Assays

Jeffrey R. Whiteaker, Regine M. Schoenherr, Jacob J. Kennedy, 2023, Molecular & Cellular Proteomics.

Anti-Peptide Monoclonal Antibodies Generated for Immuno-Multiple Reaction Monitoring-Mass Spectrometry Assays Have a High Probability of Supporting Western blot and ELISA*

Jeffrey R. Whiteaker, Regine M. Schoenherr, A. Paulovich, 2014, Molecular & Cellular Proteomics.

Bioinformatics Original Paper a Suite of Algorithms for the Comprehensive Analysis of Complex Protein Mixtures Using High-resolution Lc-ms

Jeffrey R. Whiteaker, Damon H. May, Marc Coram, 2022 .

Hormone Receptor-Positive Breast Cancer Sensitive to Pembrolizumab: Evidence of the Pathogenicity of the MLH1 Variant 1835del3.

Jeffrey R. Whiteaker, Uliana J. Voytovich, A. Paulovich, 2023, Journal of the National Comprehensive Cancer Network : JNCCN.

Clinical Proteomics for Solid Organ Tissues

Jeffrey R. Whiteaker, Jacob J. Kennedy, A. Paulovich, 2023, Molecular & cellular proteomics : MCP.

Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma

Michael P. Cusack, Susan E. Abbatiello, Jeffrey R. Whiteaker, 2009, Nature Biotechnology.

A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS

Jeffrey R. Whiteaker, A. Paulovich, Matthew Fitzgibbon, 2006, Bioinform..

Pan-cancer proteogenomics characterization of tumor immunity

Jeffrey R. Whiteaker, Matthew A. Wyczalkowski, Ratna R. Thangudu, 2024, Cell.