Publications
Browse our recent publications
Quantitative glycoproteome analysis using a novel nanoparticle-based plasma proteomics workflow
This poster demonstrates how the NP-based proteomics workflow enables the investigation of plasma glycoproteome without subsequent enrichment of glycopeptides while facilitating deep access to the proteome.
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Applying automated machine learning for classification and regression in large-scale clinical proteomics datasets
This poster demonstrates the comparison of machine learning algorithms for Alzheimer’s disease classification and demonstration of SeerML, an AutoML classifier achieving an enhanced AUC of 0.80.
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A high-throughput and robust multi nanoparticle-based label-free mass spectrometry workflow for deep plasma proteomics at scale
This poster demonstrates how the Proteograph™ Product Suite workflow, with the label-free DIA mass spectrometry method, provides highly reproducible proteomics data for large-scale plasma proteomics analysis. (i.e., > 19,000 unique peptides, >2,500 unique protein groups covering broadly and deeply in HPPP database, and for both intra- and inter-batch comparison, peptide intensity CVs < 20% and protein group JI >= 0.85.)
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LC-MS MS1 image map classification enables real-time sample quality control for nanoparticle-based deep untargeted proteomics
This poster demonstrates how applying image classification directly on raw MS1 data shows great accuracy for nanoparticle-based sample processing quality control using raw MS data.
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A novel cloud-native pipeline enabling deep, unbiased proteomics at extreme scale
This poster demonstrates how scoring algorithms with distributed processing infrastructure enhances large-scale proteomics data analysis throughput.
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A cloud-scalable software suite for large-scale proteogenomics data analysis and visualization
This poster demonstrates the utility of the Proteograph™ Analysis Suite for large-scale proteogenomics studies.
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Nanoparticle Enrichment Mass-Spectrometry Proteomics Identifies Protein Altering Variants for Precise pQTL Mapping
This study uses the Proteograph™ Product Suite to perform a pQTL analysis, and highlights the advantages of Proteograph workflow for identifiying protein altering variants with clinical relevance that may not be detectable using affinity-based methods.
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Peptide-centric analyses of human plasma enable increased resolution of biological insights into non-small cell lung cancer relative to protein-centric analysis
Identification of protein isoforms in a non-small cell lung cancer cohort shows functionally distinct, cancer- and control-associated isoforms, including BMP1. This article demonstrates the utility of combined unbiased proteomics with transcriptomic analysis, and identified over 400 subject-specific protein variants, showing how the Proteograph Product Suite can support proteogenomics studies.
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DOI: 10.1371/journal.pone.0282821
Pubmed: PubMed 36989217
Evaluation of an unbiased and scalable multi nanoparticle-based deep proteomics workflow for limited-volume plasma analysis in small model organisms
This poster demonstrates the application of the Proteograph™ workflow to non-standard, low starting volume samples, such as low volume mouse plasma samples.
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Unbiased human biofluids analysis using a scalable, deep, automated, multi-nanoparticle based proteomics workflow
This poster demonstrates the application of the Proteograph™ workflow for various biofluids samples (plasma, serum, urine, CSF, and conditioned media), its superior performance compared to the neat digestion workflow, and the potential insights it can reveal.
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