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List of works by Samuel Owen Purvine

A Multi-Omic View of Host-Pathogen-Commensal Interplay in Salmonella-Mediated Intestinal Infection

scientific article

A comprehensive collection of systems biology data characterizing the host response to viral infection.

scientific article

A method for selective enrichment and analysis of nitrotyrosine-containing peptides in complex proteome samples

scientific article

A parts list for fungal cellulosomes revealed by comparative genomics

scientific article published on 30 May 2017

A statistical method for assessing peptide identification confidence in accurate mass and time tag proteomics

scientific article published on 15 July 2011

Activity-Based Probes for Isoenzyme- and Site-Specific Functional Characterization of Glutathione S-Transferases.

scientific article

Activity-based protein profiling of secreted cellulolytic enzyme activity dynamics in Trichoderma reesei QM6a, NG14, and RUT-C30.

scientific article

Addressing the challenge of soil metaproteome complexity by improving metaproteome depth of coverage through two-dimensional liquid chromatography

scholarly article by Stephen J. Callister et al published October 2018 in Soil Biology and Biochemistry

Amino acid treatment enhances protein recovery from sediment and soils for metaproteomic studies.

scientific article published on 16 August 2013

Anaerobic gut fungi are an untapped reservoir of natural products

scientific article published in 2021

Analysis of the Salmonella typhimurium proteome through environmental response toward infectious conditions

scientific article published on 8 May 2006

Applying a targeted label-free approach using LC-MS AMT tags to evaluate changes in protein phosphorylation following phosphatase inhibition

scientific article published on 12 October 2007

Approaching complete peroxisome characterization by gas-phase fractionation

scientific article published in September 2002

Automated data extraction from in situ protein-stable isotope probing studies

scientific article

Automated genome mining of ribosomal peptide natural products

scientific article

Basophile: accurate fragment charge state prediction improves peptide identification rates

scientific article published on 08 March 2013

Blood peptidome-degradome profile of breast cancer

scientific article

Characterization of strategies for obtaining confident identifications in bottom-up proteomics measurements using hybrid FTMS instruments

scientific article

Combined pulsed-Q dissociation and electron transfer dissociation for identification and quantification of iTRAQ-labeled phosphopeptides

scientific article published on May 2009

Comparative Analysis of Secretome Profiles of Manganese(II)-Oxidizing Ascomycete Fungi

scientific article

Comparative omics-driven genome annotation refinement: application across Yersiniae

scientific article

Correction to Identification of c-Type Heme-Containing Peptides Using Nonactivated Immobilized Metal Affinity Chromatography Resin Enrichment and Higher-Energy Collisional Dissociation

scholarly article published in Analytical Chemistry

Correction: Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants

scientific article published on 23 September 2015

Coupled laboratory and field investigations resolve microbial interactions that underpin persistence in hydraulically fractured shales

article published in the Proceedings of the National Academy of Sciences of the United States of America

Coupled transcriptome and proteome analysis of human lymphotropic tumor viruses: insights on the detection and discovery of viral genes

scientific article

De novo sequencing of unique sequence tags for discovery of post-translational modifications of proteins

scientific article published on 11 September 2008

DeconMSn: a software tool for accurate parent ion monoisotopic mass determination for tandem mass spectra

scientific article

Decrypting bacterial polyphenol metabolism in an anoxic wetland soil

scientific article published on 29 April 2021

Dichomitus squalens partially tailors its molecular responses to the composition of solid wood

scientific article published on 18 October 2018

Differential stable isotope labeling of peptides for quantitation and de novo sequence derivation.

scientific article published in January 2001

Discovering mercury protein modifications in whole proteomes using natural isotope distributions observed in liquid chromatography-tandem mass spectrometry

scientific article

Discovery and ecogenomic context of a global Caldiserica-related phylum active in thawing permafrost, Candidatus Cryosericota phylum nov., Ca. Cryosericia class nov., Ca. Cryosericales ord. nov., Ca. Cryosericaceae fam. nov., ...

scholarly article published on 14 December 2018

DtaRefinery, a software tool for elimination of systematic errors from parent ion mass measurements in tandem mass spectra data sets

scientific article

Early-branching gut fungi possess a large, comprehensive array of biomass-degrading enzymes

scientific article published on 18 February 2016

Effectiveness of CID, HCD, and ETD with FT MS/MS for degradomic-peptidomic analysis: comparison of peptide identification methods

scientific article

Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants

scientific article

Establishing the proteome of normal human cerebrospinal fluid

scientific article

Evaluation of multiprotein immunoaffinity subtraction for plasma proteomics and candidate biomarker discovery using mass spectrometry.

scientific article published on 19 July 2006

Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants

scientific article

Experimental Protein Mixture for Validating Tandem Mass Spectral Analysis

scientific article published on 01 January 2002

Experimental annotation of post-translational features and translated coding regions in the pathogen Salmonella Typhimurium

scientific article

Feathermoss and epiphytic Nostoc cooperate differently: expanding the spectrum of plant-cyanobacteria symbiosis

scientific article published on 11 August 2017

Genome-Resolved Metaproteomics Decodes the Microbial and Viral Contributions to Coupled Carbon and Nitrogen Cycling in River Sediments

scientific article published in 2022

Genome-centric view of carbon processing in thawing permafrost

scientific article published in Nature

Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations

scientific article

H. influenzae Consortium: integrative study of H. influenzae-human interactions

scientific article published on January 2002

High dynamic range characterization of the trauma patient plasma proteome

scientific article published on 9 May 2006

High resolution visualization and exo-proteomics reveal the physiological role of XlnR and AraR in plant biomass colonization and degradation by Aspergillus niger

scientific article published on 13 October 2017

High-throughput sequencing of the chloroplast and mitochondrion of Chlamydomonas reinhardtii to generate improved de novo assemblies, analyze expression patterns and transcript speciation, and evaluate diversity among laboratory strains and wild iso

scientific article

Human Proteinpedia enables sharing of human protein data

scientific article

Identification and functional analysis of 'hypothetical' genes expressed in Haemophilus influenzae

scientific article

Identification of disulfide bonds in protein proteolytic degradation products using de novo-protein unique sequence tags approach

scientific article

Identification of widespread adenosine nucleotide binding in Mycobacterium tuberculosis

scientific article published on January 2013

Identification ofc-Type Heme-Containing Peptides Using Nonactivated Immobilized Metal Affinity Chromatography Resin Enrichment and Higher-Energy Collisional Dissociation

scientific article published on 01 September 2011

Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla

scientific article

Improved methods for the enrichment and analysis of glycated peptides

scientific article published on December 2008

Improving collision induced dissociation (CID), high energy collision dissociation (HCD), and electron transfer dissociation (ETD) fourier transform MS/MS degradome-peptidome identifications using high accuracy mass information

scientific article published on December 2011

In Silico Metabolic Model and Protein Expression of Haemophilus influenzae Strain Rd KW20 in Rich Medium

scientific article published in January 2004

Individual variability of protein expression in human tissues

article

Initial proteome analysis of model microorganism Haemophilus influenzae strain Rd KW20.

scientific article

Integrated Omics Analysis of Pathogenic Host Responses during Pandemic H1N1 Influenza Virus Infection: The Crucial Role of Lipid Metabolism.

scientific article

Integrated post-experiment monoisotopic mass refinement: an integrated approach to accurately assign monoisotopic precursor masses to tandem mass spectrometric data

scientific article

Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica

scientific article

Leucoagaricus gongylophorus produces diverse enzymes for the degradation of recalcitrant plant polymers in leaf-cutter ant fungus gardens

scientific article (publication date: June 2013)

Linear discriminant analysis-based estimation of the false discovery rate for phosphopeptide identifications

scientific article published on 19 April 2008

MALDI-Mass Spectrometric Imaging Revealing Hypoxia-Driven Lipids and Proteins in a Breast Tumor Model

scientific article published on 4 June 2015

MERS-CoV and H5N1 influenza virus antagonize antigen presentation by altering the epigenetic landscape

scientific article published on 16 January 2018

Mass spectrometry analysis of proteome-wide proteolytic post-translational degradation of proteins

scientific article published on 26 June 2008

Mechanisms of Manganese(II) Oxidation by Filamentous Ascomycete Fungi Vary With Species and Time as a Function of Secretome Composition

scientific article published on 10 February 2021

Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens

scientific article

Mineral Surfaces as Agents of Environmental Proteolysis: Mechanisms and Controls

scientific article published on 28 February 2019

Mixed-Effects Statistical Model for Comparative LC−MS Proteomics Studies†

article

Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica

scientific article

Multiomics resolution of molecular events during a day in the life of Chlamydomonas

article published in the Proceedings of the National Academy of Sciences of the United States of America

New roles in hemicellulosic sugar fermentation for the uncultivated Bacteroidetes family BS11

scientific article published on 13 December 2016

Novel Ser/Thr protein phosphatase 5 (PP5) regulated targets during DNA damage identified by proteomics analysis

scientific article

Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models

scientific article

Outer membrane vesicles catabolize lignin-derived aromatic compounds in Pseudomonas putida KT2440

scientific article published on 03 April 2020

Phosphoproteomics profiling of human skin fibroblast cells reveals pathways and proteins affected by low doses of ionizing radiation

scientific article

Platelet proteome changes associated with diabetes and during platelet storage for transfusion

scientific article

Proteogenomics: needs and roles to be filled by proteomics in genome annotation

scientific article published on January 2008

Proteome insights into the symbiotic relationship between a captive colony of Nasutitermes corniger and its hindgut microbiome

scientific article

Proteome-wide identification of proteins and their modifications with decreased ambiguities and improved false discovery rates using unique sequence tags

scientific article published on 14 February 2008

Proteomic analysis of Pseudomonas aeruginosa grown under magnesium limitation

article

Proteomic analysis of Salmonella enterica serovar typhimurium isolated from RAW 264.7 macrophages: identification of a novel protein that contributes to the replication of serovar typhimurium inside macrophages

scientific article published on 7 August 2006

Proteomic analysis reveals down-regulation of surfactant protein B in murine type II pneumocytes infected with influenza A virus.

scientific article published on 15 May 2015

Proteomic detection of non-annotated protein-coding genes in Pseudomonas fluorescens Pf0-1.

scientific article

Proteomic identification and quantification of S-glutathionylation in mouse macrophages using resin-assisted enrichment and isobaric labeling

scientific article published on 11 December 2013

Proteomics informed by transcriptomics identifies novel secreted proteins in Dermacentor andersoni saliva.

scientific article published on 7 August 2014

Proteomics-based Compositional Analysis of Complex Cellulase–Hemicellulase Mixtures

article

Quantitative analysis of cell surface membrane proteins using membrane-impermeable chemical probe coupled with 18O labeling.

scientific article

Quantitative cardiac phosphoproteomics profiling during ischemia-reperfusion in an immature swine model

scientific article published on 28 April 2017

Quantitative iTRAQ-based secretome analysis reveals species-specific and temporal shifts in carbon utilization strategies among manganese(II)-oxidizing Ascomycete fungi

scientific article

Quantitative phosphoproteome analysis of lysophosphatidic acid induced chemotaxis applying dual-step (18)O labeling coupled with immobilized metal-ion affinity chromatography.

scientific article published on 12 September 2008

Quantitative proteomic analysis indicates increased synthesis of a quinolone by Pseudomonas aeruginosa isolates from cystic fibrosis airways

scholarly article

Shotgun collision-induced dissociation of peptides using a time of flight mass analyzer

scientific article

Simultaneous Proteomic Discovery and Targeted Monitoring using Liquid Chromatography, Ion Mobility Spectrometry, and Mass Spectrometry

scientific article published on 25 September 2016

Soil metabolome response to whole-ecosystem warming at the Spruce and Peatland Responses under Changing Environments experiment

scientific article published in 2021

Spatial phosphoprotein profiling reveals a compartmentalized extracellular signal-regulated kinase switch governing neurite growth and retraction

scientific article

Spectral quality assessment for high-throughput tandem mass spectrometry proteomics

scientific article

Standard mixtures for proteome studies

scientific article published on January 2004

Strategy for degradomic-peptidomic analysis of human blood plasma

scientific article

Structural reorganization of the fungal endoplasmic reticulum upon induction of mycotoxin biosynthesis

scientific article

Structure Dependent Determination of Organophosphate Targets in Mammalian Tissues Using Activity-Based Protein Profiling

scientific article published on 10 January 2020

Sulfide Generation by Dominant Halanaerobium Microorganisms in Hydraulically Fractured Shales

scientific article

Tandem mass spectrometry identifies many mouse brain O-GlcNAcylated proteins including EGF domain-specific O-GlcNAc transferase targets

scientific article

Targeted protein degradation by Salmonella under phagosome-mimicking culture conditions investigated using comparative peptidomics.

scientific article published on 16 January 2007

Tertiary structural rearrangements upon oxidation of Methionine145 in calmodulin promotes targeted proteasomal degradation

scientific article

The Pacific Northwest National Laboratory library of bacterial and archaeal proteomic biodiversity

scientific article

The Specific Carbohydrate Diet and Diet Modification as Induction Therapy for Pediatric Crohn's Disease: A Randomized Diet Controlled Trial

scientific article published on 06 December 2020

The influence of sample preparation and replicate analyses on HeLa Cell phosphoproteome coverage

scientific article published on 16 April 2008

The study of macromolecular complexes by quantitative proteomics

scientific article published on 18 February 2003

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