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List of works by Amanda G Paulovich

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

scientific article published on 23 February 2018

A Reagent Resource to Identify Proteins and Peptides of Interest for the Cancer Community: Table I

article by Brian B. Haab et al published 24 July 2006 in Molecular & Cellular Proteomics

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

scientific article published on 29 August 2019

A human proteome detection and quantitation project

scientific article published on 07 January 2009

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

scientific article

A radiation-derived gene expression signature predicts clinical outcome for breast cancer patients

scientific article published on February 2009

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

scientific article published on 9 June 2006

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

scientific article published on June 19, 2011

Abstract SY44-02: Proteogenomic and phosphoproteomic analysis of breast cancer

An automated and multiplexed method for high throughput peptide immunoaffinity enrichment and multiple reaction monitoring mass spectrometry-based quantification of protein biomarkers

scientific article

Anti-peptide monoclonal antibodies generated for immuno-multiple reaction monitoring-mass spectrometry assays have a high probability of supporting Western blot and ELISA.

scientific article

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

scientific article published on 24 August 2015

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

scientific article published on 20 December 2006

Antibody-based screen for ionizing radiation-dependent changes in the Mammalian proteome for use in biodosimetry

scientific article published on May 2009

Assessing bias in experiment design for large scale mass spectrometry-based quantitative proteomics

scientific article (publication date: October 2007)

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

scientific article published on 29 June 2015

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

scientific article

Blood-based detection of radiation exposure in humans based on novel phospho-Smc1 ELISA

scientific article

CPTAC Assay Portal: a repository of targeted proteomic assays

scientific article

Cancer biomarkers: a systems approach

scientific article published on August 2006

Clinical potential of mass spectrometry-based proteogenomics

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

scientific article published on 20 April 2016

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

scientific article published on 24 August 2021

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

scientific article

Computational Proteomics Analysis System (CPAS):  An Extensible, Open-Source Analytic System for Evaluating and Publishing Proteomic Data and High Throughput Biological Experiments <i>J. Proteome Res.</i> <b>2006</b>, <i>5</i>, 112−121.

scientific article published in 2006

Connecting genomic alterations to cancer biology with proteomics: the NCI Clinical Proteomic Tumor Analysis Consortium

scientific article published on October 2013

DNA Replication Stress Phosphoproteome Profiles Reveal Novel Functional Phosphorylation Sites on Xrs2 in Saccharomyces cerevisiae

scientific article published on 26 March 2016

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

scientific article published on 08 December 2013

Design, implementation and multisite evaluation of a system suitability protocol for the quantitative assessment of instrument performance in liquid chromatography-multiple reaction monitoring-MS (LC-MRM-MS)

scientific article (publication date: September 2013)

Effect of Collision Energy Optimization on the Measurement of Peptides by Selected Reaction Monitoring (SRM) Mass Spectrometry ⬇️

scientific article published on November 19, 2010

Evaluation of large scale quantitative proteomic assay development using peptide affinity-based mass spectrometry

scientific article

GENE-19. DEEP PROTEOMIC SURVEY ACROSS SEVEN CHILDHOOD BRAIN TUMORS

scientific article published on 23 April 2019

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles

scientific article

Head-to-Head Comparison of Serum Fractionation Techniques

article

High-affinity recombinant antibody fragments (Fabs) can be applied in peptide enrichment immuno-MRM assays

scientific article

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

scientific article published on 19 June 2020

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

scientific article published on 30 November 2015

Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer

scientific article published on 25 November 2020

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

scientific article published on 21 August 2007

Integrative Proteo-genomic Analysis to Construct CNA-protein Regulatory Map in Breast and Ovarian Tumors

scientific article published on 07 July 2019

Interlaboratory evaluation of automated, multiplexed peptide immunoaffinity enrichment coupled to multiple reaction monitoring mass spectrometry for quantifying proteins in plasma

scientific article

Interlaboratory study characterizing a yeast performance standard for benchmarking LC-MS platform performance.

scientific article

Ischemia in tumors induces early and sustained phosphorylation changes in stress kinase pathways but does not affect global protein levels

scientific article

Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma.

scientific article

Lymphatic endothelial murine chloride channel calcium-activated 1 is a ligand for leukocyte LFA-1 and Mac-1.

scientific article

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

scientific article

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

scientific article published on 01 April 2020

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

scientific article published on April 1, 2012

Normalization regarding non-random missing values in high-throughput mass spectrometry data.

scientific article

Novel connections between DNA replication, telomere homeostasis, and the DNA damage response revealed by a genome-wide screen for TEL1/ATM interactions in Saccharomyces cerevisiae

scientific article published on February 2013

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

scientific article published on 27 July 2016

Panorama: a targeted proteomics knowledge base

scientific article

Peptide Immunoaffinity Enrichment Coupled with Mass Spectrometry for Peptide and Protein Quantification ⬇️

scientific article published on September 1, 2011

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

scientific article published on 18 May 2015

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

scientific article published on January 2017

Performance metrics for liquid chromatography-tandem mass spectrometry systems in proteomics analyses

scientific article

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

scientific article published on 21 August 2018

Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy

scientific article published on 16 November 2020

Proteogenomics connects somatic mutations to signalling in breast cancer

scientific article

Proteome Profiling Outperforms Transcriptome Profiling for Coexpression Based Gene Function Prediction

scientific article

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

scientific article

Quality control metrics for LC-MS feature detection tools demonstrated on Saccharomyces cerevisiae proteomic profiles

scientific article published in July 2006

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

scientific article published on 9 December 2016

Quantification of Estrogen Receptor, Progesterone Receptor, and Human Epidermal Growth Factor Receptor 2 Protein Expression in Bone Biopsies by Targeted Mass Spectrometry without Acid Decalcification

scientific article published on 27 October 2020

Quantification of Proteins Using Peptide Immunoaffinity Enrichment Coupled with Mass Spectrometry ⬇️

scientific article published on July 31, 2011

Quantifying the human proteome

scientific article published on October 2016

RNA and phosphoprotein profiles of TP53- and PTEN-knockouts in MCF10A at baseline and responding to DNA damage

scientific article published in 2024

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

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

scientific article published on January 2016

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

scientific article

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

scientific article published on December 27, 2011

Signal maps for mass spectrometry-based comparative proteomics

scientific article published on 3 November 2005

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

scientific article published on 21 March 2018

Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach

scientific article published on 17 January 2014

The Saccharomyces cerevisiae RAD9, RAD17 and RAD24 genes are required for suppression of mutagenic post-replicative repair during chronic DNA damage.

scientific article published on 15 May 2010

The evolving role of mass spectrometry in cancer biomarker discovery

scientific article

The human salivary proteome is radiation responsive

scientific article

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

scientific article published on October 1, 2008

The preference for error-free or error-prone postreplication repair in Saccharomyces cerevisiae exposed to low-dose methyl methanesulfonate is cell cycle dependent

scientific article published on 4 February 2013

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

scientific article published on January 2016

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

scientific article published on 2 November 2018

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