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Reevaluation of the coding potential and proteomic analysis of the BAC-derived rhesus cytomegalovirus strain 68-1.
Journal of virology Sep, 2012 | Pubmed ID: 22718821
Separation of variant methylated histone tails by differential ion mobility.
Analytical chemistry Aug, 2012 | Pubmed ID: 22812477
DanteR: an extensible R-based tool for quantitative analysis of -omics data.
Bioinformatics (Oxford, England) Sep, 2012 | Pubmed ID: 22815360
Multiplexed activity-based protein profiling of the human pathogen Aspergillus fumigatus reveals large functional changes upon exposure to human serum.
The Journal of biological chemistry Sep, 2012 | Pubmed ID: 22865858
Protein analyses using differential ion mobility microchips with mass spectrometry.
Analytical chemistry Sep, 2012 | Pubmed ID: 22889348
A Comprehensive Subcellular Proteomic Survey of Salmonella Grown under Phagosome-Mimicking versus Standard Laboratory Conditions.
International journal of proteomics , 2012 | Pubmed ID: 22900174
Cerebrospinal fluid proteome of patients with acute Lyme disease.
Journal of proteome research Oct, 2012 | Pubmed ID: 22900834
Mass spectrometry for translational proteomics: progress and clinical implications.
Genome medicine , 2012 | Pubmed ID: 22943415
Antibody-free, targeted mass-spectrometric approach for quantification of proteins at low picogram per milliliter levels in human plasma/serum.
Proceedings of the National Academy of Sciences of the United States of America Sep, 2012 | Pubmed ID: 22949669
A comparative analysis of computational approaches to relative protein quantification using peptide peak intensities in label-free LC-MS proteomics experiments.
Proteomics Feb, 2013 | Pubmed ID: 23019139
Improving N-glycan coverage using HPLC-MS with electrospray ionization at subambient pressure.
Analytical chemistry Nov, 2012 | Pubmed ID: 23025344
Enhanced top-down characterization of histone post-translational modifications.
Genome biology Oct, 2012 | Pubmed ID: 23034525
GlycReSoft: a software package for automated recognition of glycans from LC/MS data.
PloS one , 2012 | Pubmed ID: 23049804
Activity-based protein profiling reveals mitochondrial oxidative enzyme impairment and restoration in diet-induced obese mice.
PloS one , 2012 | Pubmed ID: 23110155
A systematic analysis of a deep mouse epididymal sperm proteome.
Biology of reproduction Jun, 2012 | Pubmed ID: 23115268
Ultrasensitive sample quantitation via selected reaction monitoring using CITP/CZE-ESI-triple quadrupole MS.
Analytical chemistry Dec, 2012 | Pubmed ID: 23140208
A multi-omic systems approach to elucidating Yersinia virulence mechanisms.
Molecular bioSystems Jan, 2013 | Pubmed ID: 23147219
Unexpected diversity of signal peptides in prokaryotes.
mBio Nov, 2012 | Pubmed ID: 23169999
Suite of activity-based probes for cellulose-degrading enzymes.
Journal of the American Chemical Society Dec, 2012 | Pubmed ID: 23176123
Normalization and missing value imputation for label-free LC-MS analysis.
BMC bioinformatics , 2012 | Pubmed ID: 23176322
Proteome analyses of strains ATCC 51142 and PCC 7822 of the diazotrophic cyanobacterium Cyanothece sp. under culture conditions resulting in enhanced H₂ production.
Applied and environmental microbiology Feb, 2013 | Pubmed ID: 23204418
High-resolution differential ion mobility spectrometry of a protein.
Analytical chemistry Jan, 2013 | Pubmed ID: 23244633
In-source fragmentation and the sources of partially tryptic peptides in shotgun proteomics.
Journal of proteome research Feb, 2013 | Pubmed ID: 23268687
Quantitative Site-specific Reactivity Profiling of S-nitrosylation in Mouse Skeletal Muscle Using Cysteinyl Peptide Enrichment Coupled with Mass Spectrometry.
Free radical biology & medicine Dec, 2012 | Pubmed ID: 23277143
Serum proteomics reveals systemic dysregulation of innate immunity in type 1 diabetes.
The Journal of experimental medicine Jan, 2013 | Pubmed ID: 23277452
STEPS: a grid search methodology for optimized peptide identification filtering of MS/MS database search results.
Proteomics Mar, 2013 | Pubmed ID: 23303698
High-definition differential ion mobility spectrometry with resolving power up to 500.
Journal of the American Society for Mass Spectrometry Jan, 2013 | Pubmed ID: 23345059
Identification of widespread adenosine nucleotide binding in Mycobacterium tuberculosis.
Chemistry & biology Jan, 2013 | Pubmed ID: 23352146
Release of severe acute respiratory syndrome coronavirus nuclear import block enhances host transcription in human lung cells.
Journal of virology Apr, 2013 | Pubmed ID: 23365422
RNA type III secretion signals that require Hfq.
Journal of bacteriology May, 2013 | Pubmed ID: 23396917
MultiAlign: a multiple LC-MS analysis tool for targeted omics analysis.
BMC bioinformatics Feb, 2013 | Pubmed ID: 23398735
Mixed-isotope labeling with LC-IMS-MS for characterization of protein-protein interactions by chemical cross-linking.
Journal of the American Society for Mass Spectrometry Mar, 2013 | Pubmed ID: 23423792
Sources of technical variability in quantitative LC-MS proteomics: human brain tissue sample analysis.
Journal of proteome research May, 2013 | Pubmed ID: 23495885
Determination of burn patient outcome by large-scale quantitative discovery proteomics.
Critical care medicine Jun, 2013 | Pubmed ID: 23507713
Assigning quantitative function to post-translational modifications reveals multiple sites of phosphorylation that tune yeast pheromone signaling output.
PloS one , 2013 | Pubmed ID: 23554854
Salmonella modulates metabolism during growth under conditions that induce expression of virulence genes.
Molecular bioSystems Jun, 2013 | Pubmed ID: 23559334
Leucoagaricus gongylophorus produces diverse enzymes for the degradation of recalcitrant plant polymers in leaf-cutter ant fungus gardens.
Applied and environmental microbiology Jun, 2013 | Pubmed ID: 23584789
Trauma-associated human neutrophil alterations revealed by comparative proteomics profiling.
Proteomics. Clinical applications Aug, 2013 | Pubmed ID: 23589343
Disparate proteome responses of pathogenic and nonpathogenic aspergilli to human serum measured by activity-based protein profiling (ABPP).
Molecular & cellular proteomics : MCP Jul, 2013 | Pubmed ID: 23599423
Multi-omic data integration links deleted in breast cancer 1 (DBC1) degradation to chromatin remodeling in inflammatory response.
Molecular & cellular proteomics : MCP Aug, 2013 | Pubmed ID: 23639857
Evaluation of selected binding domains for the analysis of ubiquitinated proteomes.
Journal of the American Society for Mass Spectrometry Aug, 2013 | Pubmed ID: 23649778
Top-down proteomics reveals a unique protein S-thiolation switch in Salmonella Typhimurium in response to infection-like conditions.
Proceedings of the National Academy of Sciences of the United States of America Jun, 2013 | Pubmed ID: 23720318
Protein co-expression network analysis (ProCoNA).
Journal of clinical bioinformatics Jun, 2013 | Pubmed ID: 23724967
Targeted quantification of low ng/mL level proteins in human serum without immunoaffinity depletion.
Journal of proteome research Jul, 2013 | Pubmed ID: 23763644
Resin-assisted enrichment of N-terminal peptides for characterizing proteolytic processing.
Analytical chemistry Jul, 2013 | Pubmed ID: 23772796
Amino acid treatment enhances protein recovery from sediment and soils for metaproteomic studies.
Proteomics Oct, 2013 | Pubmed ID: 23776032
Capillary isotachophoresis-nanoelectrospray ionization-selected reaction monitoring MS via a novel sheathless interface for high sensitivity sample quantification.
Analytical chemistry Aug, 2013 | Pubmed ID: 23789856
A Multi-Omic View of Host-Pathogen-Commensal Interplay in Salmonella-Mediated Intestinal Infection.
PloS one , 2013 | Pubmed ID: 23840608
Separation of protein conformers by differential ion mobility in hydrogen-rich gases.
Analytical chemistry Jul, 2013 | Pubmed ID: 23855890
Specific mutations in H5N1 mainly impact the magnitude and velocity of the host response in mice.
BMC systems biology Jul, 2013 | Pubmed ID: 23895213
Controlled dispensing and mixing of pico- to nanoliter volumes using on-demand droplet-based microfluidics.
Microfluidics and nanofluidics Jul, 2013 | Pubmed ID: 23935562
A network integration approach to predict conserved regulators related to pathogenicity of influenza and SARS-CoV respiratory viruses.
PloS one , 2013 | Pubmed ID: 23935999
Comparative phosphoproteomics reveals components of host cell invasion and post-transcriptional regulation during Francisella infection.
Molecular & cellular proteomics : MCP Nov, 2013 | Pubmed ID: 23970565
Reduced insulin/insulin-like growth factor-1 signaling and dietary restriction inhibit translation but preserve muscle mass in Caenorhabditis elegans.
Molecular & cellular proteomics : MCP Dec, 2013 | Pubmed ID: 24002365
Long-gradient separations coupled with selected reaction monitoring for highly sensitive, large scale targeted protein quantification in a single analysis.
Analytical chemistry Oct, 2013 | Pubmed ID: 24004026
LC-IMS-MS Feature Finder: detecting multidimensional liquid chromatography, ion mobility and mass spectrometry features in complex datasets.
Bioinformatics (Oxford, England) Nov, 2013 | Pubmed ID: 24008421
Gray matter is targeted in first-attack multiple sclerosis.
PloS one , 2013 | Pubmed ID: 24039694
Impact of alg3 gene deletion on growth, development, pigment production, protein secretion, and functions of recombinant Trichoderma reesei cellobiohydrolases in Aspergillus niger.
Fungal genetics and biology : FG & B Dec, 2013 | Pubmed ID: 24076077
The succinated proteome.
Mass spectrometry reviews Mar-Apr, 2014 | Pubmed ID: 24115015
Activity-based protein profiling of secreted cellulolytic enzyme activity dynamics in Trichoderma reesei QM6a, NG14, and RUT-C30.
Molecular bioSystems Dec, 2013 | Pubmed ID: 24121482
Picoelectrospray ionization mass spectrometry using narrow-bore chemically etched emitters.
Journal of the American Society for Mass Spectrometry Jan, 2014 | Pubmed ID: 24122304
Connecting genomic alterations to cancer biology with proteomics: the NCI Clinical Proteomic Tumor Analysis Consortium.
Cancer discovery Oct, 2013 | Pubmed ID: 24124232
Live cell chemical profiling of temporal redox dynamics in a photoautotrophic cyanobacterium.
ACS chemical biology Jan, 2014 | Pubmed ID: 24168666
A highly sensitive targeted mass spectrometric assay for quantification of AGR2 protein in human urine and serum.
Journal of proteome research Feb, 2014 | Pubmed ID: 24251762
Phosphate-containing polyethylene glycol polymers prevent lethal sepsis by multidrug-resistant pathogens.
Antimicrobial agents and chemotherapy , 2014 | Pubmed ID: 24277029
Proteomic and transcriptomic analyses of "Candidatus Pelagibacter ubique" describe the first PII-independent response to nitrogen limitation in a free-living Alphaproteobacterium.
mBio Nov, 2013 | Pubmed ID: 24281717
Accounting for population variation in targeted proteomics.
Journal of proteome research Jan, 2014 | Pubmed ID: 24320210
Proteomic identification and quantification of S-glutathionylation in mouse macrophages using resin-assisted enrichment and isobaric labeling.
Free radical biology & medicine Feb, 2014 | Pubmed ID: 24333276
The identification of novel potential injury mechanisms and candidate biomarkers in renal allograft rejection by quantitative proteomics.
Molecular & cellular proteomics : MCP Feb, 2014 | Pubmed ID: 24335474
Resin-assisted enrichment of thiols as a general strategy for proteomic profiling of cysteine-based reversible modifications.
Nature protocols Jan, 2014 | Pubmed ID: 24336471
Fast and accurate database searches with MS-GF+Percolator.
Journal of proteome research Feb, 2014 | Pubmed ID: 24344789
Pushing the Frontier of High-Definition Ion Mobility Spectrometry Using FAIMS.
Mass spectrometry (Tokyo, Japan) , 2013 | Pubmed ID: 24349930
Differential ion mobility separations in up to 100% helium using microchips.
Journal of the American Society for Mass Spectrometry Mar, 2014 | Pubmed ID: 24402673
Advancing the high throughput identification of liver fibrosis protein signatures using multiplexed ion mobility spectrometry.
Molecular & cellular proteomics : MCP Apr, 2014 | Pubmed ID: 24403597
Automated data extraction from in situ protein-stable isotope probing studies.
Journal of proteome research Mar, 2014 | Pubmed ID: 24467184
Implementation of dipolar resonant excitation for collision induced dissociation with ion mobility/time-of-flight MS.
Journal of the American Society for Mass Spectrometry Apr, 2014 | Pubmed ID: 24470195
Organelle-specific activity-based protein profiling in living cells.
Angewandte Chemie (International ed. in English) Mar, 2014 | Pubmed ID: 24505022
LC-MS proteomics analysis of the insulin/IGF-1-deficient Caenorhabditis elegans daf-2(e1370) mutant reveals extensive restructuring of intermediary metabolism.
Journal of proteome research Apr, 2014 | Pubmed ID: 24555535
Metabolic reprogramming during purine stress in the protozoan pathogen Leishmania donovani.
PLoS pathogens Feb, 2014 | Pubmed ID: 24586154
Signatures for mass spectrometry data quality.
Journal of proteome research Apr, 2014 | Pubmed ID: 24611607
Honoring Dr. Jean H. Futrell.
Journal of the American Society for Mass Spectrometry May, 2014 | Pubmed ID: 24627182
High and low doses of ionizing radiation induce different secretome profiles in a human skin model.
PloS one , 2014 | Pubmed ID: 24642900
Improving the sensitivity of mass spectrometry by using a new sheath flow electrospray emitter array at subambient pressures.
Journal of the American Society for Mass Spectrometry Dec, 2014 | Pubmed ID: 24676894
Characterization of individual mouse cerebrospinal fluid proteomes.
Proteomics May, 2014 | Pubmed ID: 24677814
Cytomegalovirus pp65 limits dissemination but is dispensable for persistence.
The Journal of clinical investigation May, 2014 | Pubmed ID: 24691437
Ischemia in tumors induces early and sustained phosphorylation changes in stress kinase pathways but does not affect global protein levels.
Molecular & cellular proteomics : MCP Jul, 2014 | Pubmed ID: 24719451
Improving ion mobility measurement sensitivity by utilizing helium in an ion funnel trap.
Analytical chemistry Jun, 2014 | Pubmed ID: 24786390
Detecting and removing data artifacts in Hadamard transform ion mobility-mass spectrometry measurements.
Journal of the American Society for Mass Spectrometry Dec, 2014 | Pubmed ID: 24796262
Pathogenic influenza viruses and coronaviruses utilize similar and contrasting approaches to control interferon-stimulated gene responses.
mBio May, 2014 | Pubmed ID: 24846384
Proteomic profiles of five strains of oxygenic photosynthetic cyanobacteria of the genus Cyanothece.
Journal of proteome research Jul, 2014 | Pubmed ID: 24846609
GlyQ-IQ: glycomics quintavariate-informed quantification with high-performance computing and GlycoGrid 4D visualization.
Analytical chemistry Jul, 2014 | Pubmed ID: 24881670
Detecting differential protein expression in large-scale population proteomics.
Bioinformatics (Oxford, England) Oct, 2014 | Pubmed ID: 24928210
The fungus gardens of leaf-cutter ants undergo a distinct physiological transition during biomass degradation.
Environmental microbiology reports Aug, 2014 | Pubmed ID: 24992538
Characterization of protein redox dynamics induced during light-to-dark transitions and nutrient limitation in cyanobacteria.
Frontiers in microbiology , 2014 | Pubmed ID: 25071738
Increasing Confidence of LC-MS Identifications by Utilizing Ion Mobility Spectrometry.
International journal of mass spectrometry Nov, 2013 | Pubmed ID: 25089116
Proteome-wide light/dark modulation of thiol oxidation in cyanobacteria revealed by quantitative site-specific redox proteomics.
Molecular & cellular proteomics : MCP Dec, 2014 | Pubmed ID: 25118246
Polysialylated N-glycans identified in human serum through combined developments in sample preparation, separations, and electrospray ionization-mass spectrometry.
Analytical chemistry Sep, 2014 | Pubmed ID: 25118826
Bayesian Proteoform Modeling Improves Protein Quantification of Global Proteomic Measurements.
Molecular & cellular proteomics : MCP Aug, 2014 | Pubmed ID: 25129695
A method to determine lysine acetylation stoichiometries.
International journal of proteomics , 2014 | Pubmed ID: 25143833
Expediting SRM assay development for large-scale targeted proteomics experiments.
Journal of proteome research Oct, 2014 | Pubmed ID: 25145539
Experimental evaluation and optimization of structures for lossless ion manipulations for ion mobility spectrometry with time-of-flight mass spectrometry.
Analytical chemistry Sep, 2014 | Pubmed ID: 25152066
Characterization of ion dynamics in structures for lossless ion manipulations.
Analytical chemistry Sep, 2014 | Pubmed ID: 25152178
Microscale depletion of high abundance proteins in human biofluids using IgY14 immunoaffinity resin: analysis of human plasma and cerebrospinal fluid.
Analytical and bioanalytical chemistry Nov, 2014 | Pubmed ID: 25192788
Mobility-resolved ion selection in uniform drift field ion mobility spectrometry/mass spectrometry: dynamic switching in structures for lossless ion manipulations.
Analytical chemistry Oct, 2014 | Pubmed ID: 25222548
High sensitivity combined with extended structural coverage of labile compounds via nanoelectrospray ionization at subambient pressures.
Analytical chemistry Oct, 2014 | Pubmed ID: 25222651
Simulation of electric potentials and ion motion in planar electrode structures for lossless ion manipulations (SLIM).
Journal of the American Society for Mass Spectrometry Nov, 2014 | Pubmed ID: 25257188
Proteogenomic strategies for identification of aberrant cancer peptides using large-scale next-generation sequencing data.
Proteomics Dec, 2014 | Pubmed ID: 25263569
Antibody-independent targeted quantification of TMPRSS2-ERG fusion protein products in prostate cancer.
Molecular oncology Oct, 2014 | Pubmed ID: 25266362
On the ionization and ion transmission efficiencies of different ESI-MS interfaces.
Journal of the American Society for Mass Spectrometry Jan, 2015 | Pubmed ID: 25267087
Brain insulin lowers circulating BCAA levels by inducing hepatic BCAA catabolism.
Cell metabolism Nov, 2014 | Pubmed ID: 25307860
Comprehensive quantitative analysis of ovarian and breast cancer tumor peptidomes.
Journal of proteome research Jan, 2015 | Pubmed ID: 25350482
Rectangular ion funnel: a new ion funnel interface for structures for lossless ion manipulations.
Analytical chemistry Jan, 2015 | Pubmed ID: 25409343
Proteomic approaches for site-specific O-GlcNAcylation analysis.
Bioanalysis , 2014 | Pubmed ID: 25411699
HAM-5 functions as a MAP kinase scaffold during cell fusion in Neurospora crassa.
PLoS genetics Nov, 2014 | Pubmed ID: 25412208
Bayesian proteoform modeling improves protein quantification of global proteomic measurements.
Molecular & cellular proteomics : MCP Dec, 2014 | Pubmed ID: 25433089
Changes in protein expression across laboratory and field experiments in Geobacter bemidjiensis.
Journal of proteome research Mar, 2015 | Pubmed ID: 25496566
Sensitive targeted quantification of ERK phosphorylation dynamics and stoichiometry in human cells without affinity enrichment.
Analytical chemistry Jan, 2015 | Pubmed ID: 25517423
Transcriptomic and proteomic dynamics in the metabolism of a diazotrophic cyanobacterium, Cyanothece sp. PCC 7822 during a diurnal light-dark cycle.
BMC genomics Dec, 2014 | Pubmed ID: 25547186
Perturbations in the urinary exosome in transplant rejection.
Frontiers in medicine , 2014 | Pubmed ID: 25593928
Improved ion optics for introduction of ions into a 9.4-T Fourier transform ion cyclotron resonance mass spectrometer.
Journal of mass spectrometry : JMS Jan, 2015 | Pubmed ID: 25601704
Synechococcus elongatus UTEX 2973, a fast growing cyanobacterial chassis for biosynthesis using light and CO₂.
Scientific reports Jan, 2015 | Pubmed ID: 25633131
Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics.
Journal of proteome research May, 2015 | Pubmed ID: 25855118
Analytical platform evaluation for quantification of ERG in prostate cancer using protein and mRNA detection methods.
Journal of translational medicine Feb, 2015 | Pubmed ID: 25889691
Proteomic analysis reveals down-regulation of surfactant protein B in murine type II pneumocytes infected with influenza A virus.
Virology Sep, 2015 | Pubmed ID: 25965799
Ion Trapping, Storage, and Ejection in Structures for Lossless Ion Manipulations.
Analytical chemistry Jun, 2015 | Pubmed ID: 25971536
A comprehensive collection of systems biology data characterizing the host response to viral infection.
Scientific data , 2014 | Pubmed ID: 25977790
An Optimized Informatics Pipeline for Mass Spectrometry-Based Peptidomics.
Journal of the American Society for Mass Spectrometry Dec, 2015 | Pubmed ID: 26015166
Enhancing bottom-up and top-down proteomic measurements with ion mobility separations.
Proteomics Aug, 2015 | Pubmed ID: 26046661
Orthogonal Injection Ion Funnel Interface Providing Enhanced Performance for Selected Reaction Monitoring-Triple Quadrupole Mass Spectrometry.
Analytical chemistry Jul, 2015 | Pubmed ID: 26107611
Lipidomic and proteomic analysis of Caenorhabditis elegans lipid droplets and identification of ACS-4 as a lipid droplet-associated protein.
Biochimica et biophysica acta Oct, 2015 | Pubmed ID: 26121959
Enhancing biological analyses with three dimensional field asymmetric ion mobility, low field drift tube ion mobility and mass spectrometry (μFAIMS/IMS-MS) separations.
The Analyst Oct, 2015 | Pubmed ID: 26140287
Identification of Salmonella Typhimurium Deubiquitinase SseL Substrates by Immunoaffinity Enrichment and Quantitative Proteomic Analysis.
Journal of proteome research Sep, 2015 | Pubmed ID: 26147956
Compensatory Islet Response to Insulin Resistance Revealed by Quantitative Proteomics.
Journal of proteome research Aug, 2015 | Pubmed ID: 26151086
Development of a New Ion Mobility (Quadrupole) Time-of-Flight Mass Spectrometer.
International journal of mass spectrometry Feb, 2015 | Pubmed ID: 26185483
Peptide-Centric Proteome Analysis: An Alternative Strategy for the Analysis of Tandem Mass Spectrometry Data.
Molecular & cellular proteomics : MCP Sep, 2015 | Pubmed ID: 26217018
Preserved DNA Damage Checkpoint Pathway Protects against Complications in Long-Standing Type 1 Diabetes.
Cell metabolism Aug, 2015 | Pubmed ID: 26244933
Ion manipulations in structures for lossless ion manipulations (SLIM): computational evaluation of a 90° turn and a switch.
The Analyst Oct, 2015 | Pubmed ID: 26289106
The Pacific Northwest National Laboratory library of bacterial and archaeal proteomic biodiversity.
Scientific data , 2015 | Pubmed ID: 26306205
Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants.
PloS one , 2015 | Pubmed ID: 26317212
Advancing understanding of microbial bioenergy conversion processes by activity-based protein profiling.
Biotechnology for biofuels , 2015 | Pubmed ID: 26413155
Characterization of Traveling Wave Ion Mobility Separations in Structures for Lossless Ion Manipulations.
Analytical chemistry Nov, 2015 | Pubmed ID: 26510005
The clinical impact of recent advances in LC-MS for cancer biomarker discovery and verification.
Expert review of proteomics , 2016 | Pubmed ID: 26581546
Evaluating Models of Cellulose Degradation by Fibrobacter succinogenes S85.
PloS one , 2015 | Pubmed ID: 26629814
An Analysis of the Sensitivity of Proteogenomic Mapping of Somatic Mutations and Novel Splicing Events in Cancer.
Molecular & cellular proteomics : MCP Mar, 2016 | Pubmed ID: 26631509
Reproducibility of Differential Proteomic Technologies in CPTAC Fractionated Xenografts.
Journal of proteome research Mar, 2016 | Pubmed ID: 26653538
Quantitative Profiling of Protein S-Glutathionylation Reveals Redox-Dependent Regulation of Macrophage Function during Nanoparticle-Induced Oxidative Stress.
ACS nano Jan, 2016 | Pubmed ID: 26700264
SerpinB1 Promotes Pancreatic β Cell Proliferation.
Cell metabolism Jan, 2016 | Pubmed ID: 26701651
Recommendations for the Generation, Quantification, Storage, and Handling of Peptides Used for Mass Spectrometry-Based Assays.
Clinical chemistry Jan, 2016 | Pubmed ID: 26719571
Uncovering biologically significant lipid isomers with liquid chromatography, ion mobility spectrometry and mass spectrometry.
The Analyst Mar, 2016 | Pubmed ID: 26734689
SNaPP: Simplified Nanoproteomics Platform for Reproducible Global Proteomic Analysis of Nanogram Protein Quantities.
Endocrinology Mar, 2016 | Pubmed ID: 26745641
Mobility-Selected Ion Trapping and Enrichment Using Structures for Lossless Ion Manipulations.
Analytical chemistry Feb, 2016 | Pubmed ID: 26752262
Surprising impact of remote groups on the folding--unfolding and dimer-chain equilibria of bifunctional H-bonding unimers.
Chemical communications (Cambridge, England) Mar, 2016 | Pubmed ID: 26830456
Systematic Survey of Serine Hydrolase Activity in Mycobacterium tuberculosis Defines Changes Associated with Persistence.
Cell chemical biology Feb, 2016 | Pubmed ID: 26853625
Integrated Omics Analysis of Pathogenic Host Responses during Pandemic H1N1 Influenza Virus Infection: The Crucial Role of Lipid Metabolism.
Cell host & microbe Feb, 2016 | Pubmed ID: 26867183
Using the CPTAC Assay Portal to Identify and Implement Highly Characterized Targeted Proteomics Assays.
Methods in molecular biology (Clifton, N.J.) , 2016 | Pubmed ID: 26867747
Large-Scale and Deep Quantitative Proteome Profiling Using Isobaric Labeling Coupled with Two-Dimensional LC-MS/MS.
Methods in molecular biology (Clifton, N.J.) , 2016 | Pubmed ID: 26867748
Contributions of immunoaffinity chromatography to deep proteome profiling of human biofluids.
Journal of chromatography. B, Analytical technologies in the biomedical and life sciences May, 2016 | Pubmed ID: 26868616
Comparative Proteomic Analysis of Desulfotomaculum reducens MI-1: Insights into the Metabolic Versatility of a Gram-Positive Sulfate- and Metal-Reducing Bacterium.
Frontiers in microbiology , 2016 | Pubmed ID: 26925055
The current state of the art of quantitative phosphoproteomics and its applications to diabetes research.
Expert review of proteomics , 2016 | Pubmed ID: 26960075
Free 25-Hydroxyvitamin D: Impact of Vitamin D Binding Protein Assays on Racial-Genotypic Associations.
The Journal of clinical endocrinology and metabolism 05, 2016 | Pubmed ID: 27007693
Role of Assay Type in Determining Free 25-Hydroxyvitamin D Levels in Diverse Populations.
The New England journal of medicine Apr, 2016 | Pubmed ID: 27007809
Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants.
BMC genomics Mar, 2016 | Pubmed ID: 27029936
Spatial Ion Peak Compression and its Utility in Ion Mobility Spectrometry.
Journal of the American Society for Mass Spectrometry Jun, 2016 | Pubmed ID: 27052738
A Structures for Lossless Ion Manipulations (SLIM) Module for Collision Induced Dissociation.
Journal of the American Society for Mass Spectrometry Jul, 2016 | Pubmed ID: 27098413
Mining the human urine proteome for monitoring renal transplant injury.
Kidney international 06, 2016 | Pubmed ID: 27165815
Advances in targeted proteomics and applications to biomedical research.
Proteomics 08, 2016 | Pubmed ID: 27302376
Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer.
Cell Jul, 2016 | Pubmed ID: 27372738
Conservation of protein abundance patterns reveals the regulatory architecture of the EGFR-MAPK pathway.
Science signaling 07, 2016 | Pubmed ID: 27405981
Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla.
PloS one , 2016 | Pubmed ID: 27434306
Achieving High Resolution Ion Mobility Separations Using Traveling Waves in Compact Multiturn Structures for Lossless Ion Manipulations.
Analytical chemistry Sep, 2016 | Pubmed ID: 27479234
Ultra-High Resolution Ion Mobility Separations Utilizing Traveling Waves in a 13 m Serpentine Path Length Structures for Lossless Ion Manipulations Module.
Analytical chemistry Sep, 2016 | Pubmed ID: 27531027
The abundant marine bacterium Pelagibacter simultaneously catabolizes dimethylsulfoniopropionate to the gases dimethyl sulfide and methanethiol.
Nature microbiology 05, 2016 | Pubmed ID: 27573103
Enhancing glycan isomer separations with metal ions and positive and negative polarity ion mobility spectrometry-mass spectrometry analyses.
Analytical and bioanalytical chemistry Jan, 2017 | Pubmed ID: 27604268
Hypothalamic transcriptomes of 99 mouse strains reveal trans eQTL hotspots, splicing QTLs and novel non-coding genes.
eLife Sep, 2016 | Pubmed ID: 27623010
FOXO/DAF-16 Activation Slows Down Turnover of the Majority of Proteins in C. elegans.
Cell reports 09, 2016 | Pubmed ID: 27626670
Simultaneous Proteomic Discovery and Targeted Monitoring using Liquid Chromatography, Ion Mobility Spectrometry, and Mass Spectrometry.
Molecular & cellular proteomics : MCP Dec, 2016 | Pubmed ID: 27670688
The fungal cultivar of leaf-cutter ants produces specific enzymes in response to different plant substrates.
Molecular ecology Nov, 2016 | Pubmed ID: 27696597
Greatly Increasing Trapped Ion Populations for Mobility Separations Using Traveling Waves in Structures for Lossless Ion Manipulations.
Analytical chemistry Oct, 2016 | Pubmed ID: 27715008
Dinitrogenase-Driven Photobiological Hydrogen Production Combats Oxidative Stress in Cyanothece sp. Strain ATCC 51142.
Applied and environmental microbiology Dec, 2016 | Pubmed ID: 27742679
MPLEx: a Robust and Universal Protocol for Single-Sample Integrative Proteomic, Metabolomic, and Lipidomic Analyses.
mSystems May-Jun, 2016 | Pubmed ID: 27822525
Proteome Remodeling in Response to Sulfur Limitation in " Pelagibacter ubique".
mSystems Jul-Aug, 2016 | Pubmed ID: 27822545
Proteome Profiling Outperforms Transcriptome Profiling for Coexpression Based Gene Function Prediction.
Molecular & cellular proteomics : MCP Jan, 2017 | Pubmed ID: 27836980
Position-dependent termination and widespread obligatory frameshifting in Euplotes translation.
Nature structural & molecular biology 01, 2017 | Pubmed ID: 27870834
Integrating ion mobility spectrometry into mass spectrometry-based exposome measurements: what can it add and how far can it go?
Bioanalysis Jan, 2017 | Pubmed ID: 27921453
Squeezing of Ion Populations and Peaks in Traveling Wave Ion Mobility Separations and Structures for Lossless Ion Manipulations Using Compression Ratio Ion Mobility Programming.
Analytical chemistry Dec, 2016 | Pubmed ID: 27934097
Comparing identified and statistically significant lipids and polar metabolites in 15-year old serum and dried blood spot samples for longitudinal studies.
Rapid communications in mass spectrometry : RCM Mar, 2017 | Pubmed ID: 27958645
Multiplexed Post-Experimental Monoisotopic Mass Refinement (mPE-MMR) to Increase Sensitivity and Accuracy in Peptide Identifications from Tandem Mass Spectra of Cofragmentation.
Analytical chemistry Jan, 2017 | Pubmed ID: 27966901
Spatially-Resolved Proteomics: Rapid Quantitative Analysis of Laser Capture Microdissected Alveolar Tissue Samples.
Scientific reports Dec, 2016 | Pubmed ID: 28004771
An efficient method for native protein purification in the selected range from prostate cancer tissue digests.
Chinese clinical oncology Dec, 2016 | Pubmed ID: 28061542
High-resolution ultrahigh-pressure long column reversed-phase liquid chromatography for top-down proteomics.
Journal of chromatography. A May, 2017 | Pubmed ID: 28077236
MPLEx: a method for simultaneous pathogen inactivation and extraction of samples for multi-omics profiling.
The Analyst Jan, 2017 | Pubmed ID: 28091625
Lipid and Glycolipid Isomer Analyses Using Ultra-High Resolution Ion Mobility Spectrometry Separations.
International journal of molecular sciences Jan, 2017 | Pubmed ID: 28106768
LIQUID: an-open source software for identifying lipids in LC-MS/MS-based lipidomics data.
Bioinformatics (Oxford, England) Jun, 2017 | Pubmed ID: 28158427
Development of an Ion Mobility Spectrometry-Orbitrap Mass Spectrometer Platform.
Analytical chemistry Dec, 2016 | Pubmed ID: 28193022
Ion Elevators and Escalators in Multilevel Structures for Lossless Ion Manipulations.
Analytical chemistry Feb, 2017 | Pubmed ID: 28208272
Phycobilisome truncation causes widespread proteome changes in Synechocystis sp. PCC 6803.
PloS one , 2017 | Pubmed ID: 28253354
New frontiers for mass spectrometry based upon structures for lossless ion manipulations.
The Analyst Mar, 2017 | Pubmed ID: 28262893
Structural Elucidation of cis/trans Dicaffeoylquinic Acid Photoisomerization Using Ion Mobility Spectrometry-Mass Spectrometry.
The journal of physical chemistry letters Apr, 2017 | Pubmed ID: 28267339
Coupling Front-End Separations, Ion Mobility Spectrometry, and Mass Spectrometry For Enhanced Multidimensional Biological and Environmental Analyses.
Annual review of analytical chemistry (Palo Alto, Calif.) Jun, 2017 | Pubmed ID: 28301728
Identification of Hip BMD Loss and Fracture Risk Markers Through Population-Based Serum Proteomics.
Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research Jul, 2017 | Pubmed ID: 28316103
Serpentine Ultralong Path with Extended Routing (SUPER) High Resolution Traveling Wave Ion Mobility-MS using Structures for Lossless Ion Manipulations.
Analytical chemistry Apr, 2017 | Pubmed ID: 28332832
2016 ASMS Workshop Review: Next Generation LC/MS: Critical Insights and Future Perspectives.
Journal of the American Society for Mass Spectrometry Jul, 2017 | Pubmed ID: 28417304
Compression Ratio Ion Mobility Programming (CRIMP) Accumulation and Compression of Billions of Ions for Ion Mobility-Mass Spectrometry Using Traveling Waves in Structures for Lossless Ion Manipulations (SLIM).
Analytical chemistry Jun, 2017 | Pubmed ID: 28497957
PIXiE: an algorithm for automated ion mobility arrival time extraction and collision cross section calculation using global data association.
Bioinformatics (Oxford, England) Sep, 2017 | Pubmed ID: 28505286
Design of a TW-SLIM Module for Dual Polarity Confinement, Transport, and Reactions.
Journal of the American Society for Mass Spectrometry Jul, 2017 | Pubmed ID: 28560562
Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in .
mBio 06, 2017 | Pubmed ID: 28634240
Distinguishing d- and l-aspartic and isoaspartic acids in amyloid β peptides with ultrahigh resolution ion mobility spectrometry.
Chemical communications (Cambridge, England) Jul, 2017 | Pubmed ID: 28654112
Quantitative proteomics identifies altered O-GlcNAcylation of structural, synaptic and memory-associated proteins in Alzheimer's disease.
The Journal of pathology Sep, 2017 | Pubmed ID: 28657654
Changes of Protein Turnover in Aging .
Molecular & cellular proteomics : MCP Sep, 2017 | Pubmed ID: 28679685
Targeted proteomic assays for quantitation of proteins identified by proteogenomic analysis of ovarian cancer.
Scientific data 07, 2017 | Pubmed ID: 28722704
Deep-Dive Targeted Quantification for Ultrasensitive Analysis of Proteins in Nondepleted Human Blood Plasma/Serum and Tissues.
Analytical chemistry Sep, 2017 | Pubmed ID: 28724286
An Interlaboratory Evaluation of Drift Tube Ion Mobility-Mass Spectrometry Collision Cross Section Measurements.
Analytical chemistry Sep, 2017 | Pubmed ID: 28763190
Advances in microscale separations towards nanoproteomics applications.
Journal of chromatography. A Nov, 2017 | Pubmed ID: 28765000
Informed-Proteomics: open-source software package for top-down proteomics.
Nature methods Sep, 2017 | Pubmed ID: 28783154
Quantification of mutant SPOP proteins in prostate cancer using mass spectrometry-based targeted proteomics.
Journal of translational medicine Aug, 2017 | Pubmed ID: 28810879
Towards Discovery and Targeted Peptide Biomarker Detection Using nanoESI-TIMS-TOF MS.
Journal of the American Society for Mass Spectrometry May, 2018 | Pubmed ID: 28889248
Ion Mobility Separations of Isomers based upon Long Path Length Structures for Lossless Ion Manipulations Combined with Mass Spectrometry.
ChemistrySelect Jul, 2016 | Pubmed ID: 28936476
A Global Survey of ATPase Activity in Asexual Blood Stages and Gametocytes.
Molecular & cellular proteomics : MCP Jan, 2018 | Pubmed ID: 29079720
Pyroptosis by caspase11/4-gasdermin-D pathway in alcoholic hepatitis in mice and patients.
Hepatology (Baltimore, Md.) May, 2018 | Pubmed ID: 29108122
LC-SRM-Based Targeted Quantification of Urinary Protein Biomarkers.
Methods in molecular biology (Clifton, N.J.) Nov, 2017 | Pubmed ID: 29116567
Quality Assessments of Long-Term Quantitative Proteomic Analysis of Breast Cancer Xenograft Tissues.
Journal of proteome research Dec, 2017 | Pubmed ID: 29124938
Multi-platform 'Omics Analysis of Human Ebola Virus Disease Pathogenesis.
Cell host & microbe Dec, 2017 | Pubmed ID: 29154144
A Customizable Flow Injection System for Automated, High Throughput, and Time Sensitive Ion Mobility Spectrometry and Mass Spectrometry Measurements.
Analytical chemistry Jan, 2018 | Pubmed ID: 29161511
Online Ozonolysis Combined with Ion Mobility-Mass Spectrometry Provides a New Platform for Lipid Isomer Analyses.
Analytical chemistry Jan, 2018 | Pubmed ID: 29220163
Recent advances in lipid separations and structural elucidation using mass spectrometry combined with ion mobility spectrometry, ion-molecule reactions and fragmentation approaches.
Current opinion in chemical biology Feb, 2018 | Pubmed ID: 29223060
A Hybrid Constant and Oscillatory Field Ion Mobility Analyzer Using Structures for Lossless Ion Manipulations.
Journal of the American Society for Mass Spectrometry Feb, 2018 | Pubmed ID: 29235041
Multiplexed targeted mass spectrometry assays for prostate cancer-associated urinary proteins.
Oncotarget Nov, 2017 | Pubmed ID: 29254211
SPE-IMS-MS: An automated platform for sub-sixty second surveillance of endogenous metabolites and xenobiotics in biofluids.
Clinical mass spectrometry (Del Mar, Calif.) Dec, 2016 | Pubmed ID: 29276770
MERS-CoV and H5N1 influenza virus antagonize antigen presentation by altering the epigenetic landscape.
Proceedings of the National Academy of Sciences of the United States of America Jan, 2018 | Pubmed ID: 29339515
High-throughput serum proteomics for the identification of protein biomarkers of mortality in older men.
Aging cell Apr, 2018 | Pubmed ID: 29399943
Nanodroplet processing platform for deep and quantitative proteome profiling of 10-100 mammalian cells.
Nature communications 02, 2018 | Pubmed ID: 29491378
Evaluating lipid mediator structural complexity using ion mobility spectrometry combined with mass spectrometry.
Bioanalysis Mar, 2018 | Pubmed ID: 29494212
Characterization of the Ovarian Tumor Peptidome.
Vitamins and hormones , 2018 | Pubmed ID: 29544642
A structural examination and collision cross section database for over 500 metabolites and xenobiotics using drift tube ion mobility spectrometry.
Chemical science Nov, 2017 | Pubmed ID: 29568436
Subnanogram proteomics: impact of LC column selection, MS instrumentation and data analysis strategy on proteome coverage for trace samples.
International journal of mass spectrometry Apr, 2018 | Pubmed ID: 29576737
QC-ART: A tool for real-time quality control assessment of mass spectrometry-based proteomics data.
Molecular & cellular proteomics : MCP 04, 2018 | Pubmed ID: 29666158
An algorithm to correct saturated mass spectrometry ion abundances for enhanced quantitation and mass accuracy in omic studies.
International journal of mass spectrometry Apr, 2018 | Pubmed ID: 29706793
Moonshot Objectives: Catalyze New Scientific Breakthroughs-Proteogenomics.
Cancer journal (Sudbury, Mass.) May/Jun, 2018 | Pubmed ID: 29794536
Kendall Martin1,
Tong Zhang1,
Pengfei Zhang2,
William B. Chrisler1,
Fillmore L. Thomas3,
Fen Liu4,
Tao Liu1,
Wei-Jun Qian1,
Richard D. Smith1,
Tujin Shi1
1Biological Sciences Division, Pacific Northwest National Laboratory,
2NHC Key Laboratory of Cancer Proteomics, Department of Oncology, Xiangya Hospital, Central South University,
3Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory,
4Department of Critical Care Medicine, The First Affiliated Hospital of Nanchang University